Query 038509
Match_columns 806
No_of_seqs 506 out of 2418
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 11:46:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038509.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038509hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1802 RNA helicase nonsense 100.0 4.5E-93 9.7E-98 776.6 38.9 640 128-806 115-820 (935)
2 KOG1803 DNA helicase [Replicat 100.0 1.6E-74 3.6E-79 633.6 30.9 487 285-805 58-610 (649)
3 TIGR00376 DNA helicase, putati 100.0 5.1E-69 1.1E-73 630.4 44.3 466 300-806 56-614 (637)
4 KOG1805 DNA replication helica 100.0 1.1E-61 2.3E-66 552.1 26.3 369 400-805 669-1058(1100)
5 KOG1804 RNA helicase [RNA proc 100.0 1.1E-61 2.4E-66 558.9 13.9 661 96-805 24-702 (775)
6 KOG1807 Helicases [Replication 100.0 1.3E-41 2.8E-46 378.1 19.9 262 517-805 696-958 (1025)
7 COG1112 Superfamily I DNA and 100.0 1.1E-39 2.5E-44 397.8 25.4 378 400-805 274-732 (767)
8 PF13087 AAA_12: AAA domain; P 100.0 3.6E-34 7.9E-39 291.9 11.9 193 596-802 1-200 (200)
9 KOG1801 tRNA-splicing endonucl 100.0 5.9E-31 1.3E-35 316.2 21.7 269 519-805 514-791 (827)
10 TIGR01075 uvrD DNA helicase II 100.0 7E-31 1.5E-35 316.0 18.6 283 399-721 3-352 (715)
11 PRK11773 uvrD DNA-dependent he 100.0 1.1E-30 2.4E-35 314.0 18.7 284 398-721 7-357 (721)
12 TIGR01073 pcrA ATP-dependent D 100.0 1E-30 2.2E-35 315.3 17.0 284 399-721 3-354 (726)
13 PRK10919 ATP-dependent DNA hel 100.0 1.2E-30 2.6E-35 310.3 16.5 283 400-721 2-352 (672)
14 PRK11054 helD DNA helicase IV; 100.0 3.3E-30 7.1E-35 304.1 18.2 356 400-801 196-663 (684)
15 PF13086 AAA_11: AAA domain; P 99.9 1E-27 2.3E-32 249.1 15.3 181 400-589 1-236 (236)
16 TIGR01074 rep ATP-dependent DN 99.9 9.3E-28 2E-32 287.8 16.0 281 400-721 1-351 (664)
17 TIGR01447 recD exodeoxyribonuc 99.9 1.3E-26 2.8E-31 269.3 23.0 194 402-638 147-366 (586)
18 PRK10875 recD exonuclease V su 99.9 2.9E-25 6.3E-30 258.2 22.8 200 400-643 152-381 (615)
19 TIGR01448 recD_rel helicase, p 99.9 1.3E-24 2.9E-29 259.3 23.3 172 400-638 323-497 (720)
20 KOG1806 DEAD box containing he 99.9 5.9E-26 1.3E-30 259.7 10.8 376 400-803 738-1245(1320)
21 TIGR02785 addA_Gpos recombinat 99.9 1.7E-24 3.7E-29 272.4 18.4 91 541-641 387-482 (1232)
22 COG0210 UvrD Superfamily I DNA 99.9 9E-25 2E-29 261.8 13.9 286 400-724 2-362 (655)
23 TIGR00609 recB exodeoxyribonuc 99.9 2.6E-23 5.5E-28 259.1 19.4 170 541-729 295-487 (1087)
24 COG1074 RecB ATP-dependent exo 99.9 8.5E-23 1.8E-27 254.8 18.7 179 541-732 377-575 (1139)
25 TIGR02768 TraA_Ti Ti-type conj 99.9 2.7E-22 5.7E-27 240.4 21.8 171 400-643 352-522 (744)
26 PRK13909 putative recombinatio 99.9 1.5E-22 3.2E-27 248.8 16.2 156 541-731 327-491 (910)
27 PRK13889 conjugal transfer rel 99.9 5.1E-21 1.1E-25 231.2 21.6 172 400-644 346-517 (988)
28 PRK13826 Dtr system oriT relax 99.9 8.9E-21 1.9E-25 229.9 22.8 171 400-643 381-551 (1102)
29 PRK10876 recB exonuclease V su 99.9 1E-21 2.2E-26 245.3 14.2 168 541-727 376-567 (1181)
30 PF13604 AAA_30: AAA domain; P 99.8 1.4E-19 3.1E-24 183.8 13.9 177 400-644 1-178 (196)
31 COG3973 Superfamily I DNA and 99.8 5.6E-19 1.2E-23 195.3 16.3 207 541-800 527-745 (747)
32 PRK13709 conjugal transfer nic 99.8 2.6E-17 5.6E-22 207.7 23.0 178 400-643 967-1146(1747)
33 PRK14712 conjugal transfer nic 99.8 3.2E-17 6.9E-22 204.1 23.1 174 400-638 835-1010(1623)
34 TIGR02784 addA_alphas double-s 99.7 9.3E-17 2E-21 202.8 17.5 174 541-723 390-596 (1141)
35 PF00580 UvrD-helicase: UvrD/R 99.7 1.3E-17 2.8E-22 181.4 6.8 66 401-471 1-68 (315)
36 COG3972 Superfamily I DNA and 99.7 1.4E-16 3E-21 172.5 12.2 355 400-800 162-575 (660)
37 PF01443 Viral_helicase1: Vira 99.7 1.5E-16 3.3E-21 166.1 11.3 49 740-798 184-233 (234)
38 TIGR02760 TraI_TIGR conjugativ 99.7 8.5E-16 1.8E-20 199.3 20.1 175 400-643 1019-1198(1960)
39 KOG1804 RNA helicase [RNA proc 99.6 1.3E-16 2.7E-21 186.1 3.4 436 348-805 66-521 (775)
40 PF09848 DUF2075: Uncharacteri 99.5 1.1E-13 2.5E-18 153.5 14.4 168 420-643 3-183 (352)
41 COG0507 RecD ATP-dependent exo 99.4 8.3E-13 1.8E-17 159.5 7.6 135 400-589 319-453 (696)
42 PF13245 AAA_19: Part of AAA d 99.3 7E-12 1.5E-16 106.9 7.5 59 408-468 2-62 (76)
43 PF05970 PIF1: PIF1-like helic 99.3 7.5E-12 1.6E-16 139.4 8.8 63 400-464 1-66 (364)
44 PF02562 PhoH: PhoH-like prote 99.3 3.3E-11 7.1E-16 122.0 12.0 153 400-581 4-157 (205)
45 TIGR02760 TraI_TIGR conjugativ 99.2 2.4E-11 5.1E-16 158.5 12.9 144 400-585 429-572 (1960)
46 PF13361 UvrD_C: UvrD-like hel 99.1 7.5E-11 1.6E-15 129.9 6.2 64 738-801 287-350 (351)
47 PRK10536 hypothetical protein; 99.1 6.6E-10 1.4E-14 115.4 11.3 152 397-581 56-214 (262)
48 TIGR02773 addB_Gpos ATP-depend 99.0 2.8E-09 6.1E-14 135.5 14.8 168 542-744 196-370 (1158)
49 smart00487 DEXDc DEAD-like hel 98.9 6.2E-09 1.3E-13 104.2 9.9 69 400-470 8-76 (201)
50 cd00046 DEXDc DEAD-like helica 98.8 1.8E-08 3.8E-13 94.8 10.0 119 421-562 3-122 (144)
51 PF04851 ResIII: Type III rest 98.6 1.5E-07 3.2E-12 93.8 9.9 65 400-469 3-71 (184)
52 COG1875 NYN ribonuclease and A 98.6 2.4E-07 5.2E-12 98.9 11.7 188 400-627 228-426 (436)
53 PF00270 DEAD: DEAD/DEAH box h 98.5 5.1E-07 1.1E-11 88.9 10.6 131 402-557 1-133 (169)
54 PF07652 Flavi_DEAD: Flaviviru 98.4 1.6E-06 3.4E-11 82.2 9.8 111 420-565 6-117 (148)
55 PRK11192 ATP-dependent RNA hel 98.4 3.2E-05 6.9E-10 88.7 22.4 131 398-552 21-157 (434)
56 PHA02558 uvsW UvsW helicase; P 98.4 3.9E-06 8.5E-11 97.8 14.7 126 400-559 114-239 (501)
57 KOG0989 Replication factor C, 98.4 1.2E-06 2.5E-11 91.9 8.6 51 537-588 124-178 (346)
58 cd00268 DEADc DEAD-box helicas 98.4 2.4E-06 5.2E-11 87.1 10.9 69 399-470 20-91 (203)
59 PF13538 UvrD_C_2: UvrD-like h 98.3 1.5E-07 3.2E-12 85.4 0.6 50 738-798 55-104 (104)
60 PTZ00424 helicase 45; Provisio 98.3 2.6E-06 5.6E-11 96.5 10.1 70 398-470 48-118 (401)
61 KOG2108 3'-5' DNA helicase [Re 98.2 4.7E-07 1E-11 105.8 1.8 66 400-470 13-80 (853)
62 TIGR00603 rad25 DNA repair hel 98.2 2.6E-05 5.7E-10 92.8 15.9 148 400-580 255-412 (732)
63 PRK05580 primosome assembly pr 98.1 1.8E-05 3.9E-10 95.2 13.7 69 400-470 144-212 (679)
64 PRK11634 ATP-dependent RNA hel 98.1 2.2E-05 4.7E-10 93.6 13.2 134 398-554 26-161 (629)
65 TIGR00643 recG ATP-dependent D 98.1 1.5E-05 3.3E-10 95.4 11.9 139 400-564 235-378 (630)
66 TIGR00580 mfd transcription-re 98.1 1.8E-05 4E-10 97.4 12.7 141 400-566 451-596 (926)
67 PRK01172 ski2-like helicase; P 98.1 2.3E-05 4.9E-10 94.9 12.9 126 400-555 22-148 (674)
68 PRK11448 hsdR type I restricti 98.1 1.5E-05 3.2E-10 100.0 11.4 71 400-470 413-485 (1123)
69 COG1061 SSL2 DNA or RNA helica 98.1 2.8E-05 6E-10 89.1 12.8 125 400-558 36-162 (442)
70 PRK02362 ski2-like helicase; P 98.1 3E-05 6.5E-10 94.7 13.7 129 398-555 21-150 (737)
71 COG4096 HsdR Type I site-speci 98.1 1E-05 2.2E-10 94.7 8.9 123 400-552 165-295 (875)
72 PRK11776 ATP-dependent RNA hel 98.0 3E-05 6.4E-10 89.6 12.4 135 398-555 24-160 (460)
73 COG1702 PhoH Phosphate starvat 98.0 8.3E-06 1.8E-10 87.3 7.0 54 400-456 128-181 (348)
74 PRK10590 ATP-dependent RNA hel 98.0 1.2E-05 2.6E-10 92.7 8.9 135 398-556 21-163 (456)
75 PRK10917 ATP-dependent DNA hel 98.0 2.5E-05 5.5E-10 94.2 11.6 139 400-564 261-404 (681)
76 TIGR01970 DEAH_box_HrpB ATP-de 98.0 9.2E-05 2E-09 90.3 14.8 62 405-470 6-67 (819)
77 PRK11664 ATP-dependent RNA hel 97.9 7.2E-05 1.6E-09 91.4 13.8 61 406-470 10-70 (812)
78 PRK10689 transcription-repair 97.9 5.2E-05 1.1E-09 95.5 12.5 139 400-564 600-743 (1147)
79 PRK04837 ATP-dependent RNA hel 97.9 2.6E-05 5.6E-10 89.1 8.9 134 398-555 28-170 (423)
80 PRK04296 thymidine kinase; Pro 97.9 1.5E-05 3.2E-10 80.8 5.9 35 420-456 4-38 (190)
81 PRK04537 ATP-dependent RNA hel 97.9 4.6E-05 1E-09 90.1 10.6 70 398-470 29-106 (572)
82 PRK00254 ski2-like helicase; P 97.9 0.00011 2.4E-09 89.6 14.0 129 398-554 21-150 (720)
83 COG1198 PriA Primosomal protei 97.8 8E-05 1.7E-09 88.6 11.4 127 400-555 198-325 (730)
84 cd00009 AAA The AAA+ (ATPases 97.8 0.00017 3.6E-09 68.2 11.3 61 402-464 3-63 (151)
85 PTZ00110 helicase; Provisional 97.8 9.6E-05 2.1E-09 87.0 10.9 70 398-470 150-225 (545)
86 PRK09401 reverse gyrase; Revie 97.8 5.5E-05 1.2E-09 95.5 9.4 67 400-471 80-146 (1176)
87 PLN03025 replication factor C 97.8 0.00013 2.8E-09 80.1 11.3 42 402-443 18-59 (319)
88 PRK13767 ATP-dependent helicas 97.8 4.7E-05 1E-09 94.3 8.6 69 399-470 31-106 (876)
89 COG4098 comFA Superfamily II D 97.8 0.00012 2.5E-09 77.8 10.0 120 399-557 96-216 (441)
90 PRK01297 ATP-dependent RNA hel 97.8 8.9E-05 1.9E-09 86.0 10.3 70 398-470 107-184 (475)
91 TIGR02784 addA_alphas double-s 97.7 3E-05 6.5E-10 99.0 6.2 52 419-470 11-63 (1141)
92 PRK14712 conjugal transfer nic 97.7 0.00017 3.6E-09 92.1 12.4 126 400-582 281-407 (1623)
93 TIGR01587 cas3_core CRISPR-ass 97.7 9.2E-05 2E-09 82.6 8.8 50 421-470 2-51 (358)
94 TIGR00348 hsdR type I site-spe 97.7 0.00035 7.5E-09 84.2 14.1 154 401-580 239-403 (667)
95 PF13401 AAA_22: AAA domain; P 97.7 0.0001 2.3E-09 69.3 7.7 52 419-470 5-60 (131)
96 PRK08084 DNA replication initi 97.7 0.00042 9E-09 72.7 12.8 56 400-457 27-82 (235)
97 KOG0991 Replication factor C, 97.7 9.9E-05 2.2E-09 74.6 7.6 43 401-443 31-73 (333)
98 TIGR03817 DECH_helic helicase/ 97.7 0.0001 2.2E-09 89.6 9.3 71 398-471 34-104 (742)
99 PLN00206 DEAD-box ATP-dependen 97.7 0.00012 2.6E-09 85.7 9.1 69 399-470 142-218 (518)
100 TIGR01967 DEAH_box_HrpA ATP-de 97.6 0.0021 4.6E-08 81.1 19.7 63 406-471 72-134 (1283)
101 KOG2108 3'-5' DNA helicase [Re 97.6 4.1E-05 9E-10 90.0 4.4 59 739-798 675-740 (853)
102 TIGR01054 rgy reverse gyrase. 97.6 0.00021 4.5E-09 90.5 10.3 66 400-470 78-143 (1171)
103 PRK13766 Hef nuclease; Provisi 97.6 0.00055 1.2E-08 84.4 13.8 131 400-557 15-146 (773)
104 COG1204 Superfamily II helicas 97.6 0.00033 7.1E-09 84.8 11.4 132 398-557 29-161 (766)
105 PRK09694 helicase Cas3; Provis 97.6 0.0003 6.5E-09 86.1 10.5 68 400-470 286-353 (878)
106 PRK14701 reverse gyrase; Provi 97.5 0.00031 6.7E-09 91.0 11.0 66 400-470 79-144 (1638)
107 PF00176 SNF2_N: SNF2 family N 97.5 0.00019 4.2E-09 77.4 7.8 155 404-581 1-174 (299)
108 PRK12402 replication factor C 97.5 0.0008 1.7E-08 74.2 12.2 42 402-443 20-61 (337)
109 KOG0952 DNA/RNA helicase MER3/ 97.5 0.00032 7E-09 83.8 8.9 70 399-470 109-186 (1230)
110 PRK14088 dnaA chromosomal repl 97.4 0.0011 2.4E-08 75.9 12.4 38 419-456 131-168 (440)
111 PF02399 Herpes_ori_bp: Origin 97.4 0.00057 1.2E-08 81.1 9.5 51 419-470 50-100 (824)
112 PRK14958 DNA polymerase III su 97.4 0.00062 1.3E-08 79.2 9.8 48 541-589 118-169 (509)
113 PF00308 Bac_DnaA: Bacterial d 97.4 0.0026 5.6E-08 66.0 13.4 57 400-456 14-72 (219)
114 PRK13709 conjugal transfer nic 97.4 0.0014 2.9E-08 85.2 13.5 125 401-583 414-541 (1747)
115 TIGR00595 priA primosomal prot 97.4 0.00041 8.8E-09 80.8 8.1 103 422-552 1-103 (505)
116 COG0513 SrmB Superfamily II DN 97.3 0.0015 3.2E-08 76.5 12.4 137 398-558 49-190 (513)
117 PF05127 Helicase_RecD: Helica 97.3 0.00013 2.9E-09 72.3 3.1 48 422-470 1-48 (177)
118 COG1111 MPH1 ERCC4-like helica 97.3 0.0011 2.4E-08 74.1 10.3 138 401-565 16-154 (542)
119 PF13173 AAA_14: AAA domain 97.3 0.0011 2.3E-08 62.6 9.0 40 419-461 3-42 (128)
120 PHA02653 RNA helicase NPH-II; 97.3 0.0015 3.2E-08 78.2 11.9 65 403-470 167-244 (675)
121 TIGR00614 recQ_fam ATP-depende 97.3 0.00069 1.5E-08 78.5 8.4 65 398-470 9-73 (470)
122 PRK14956 DNA polymerase III su 97.2 0.00081 1.8E-08 76.6 8.6 48 541-589 120-171 (484)
123 PRK14087 dnaA chromosomal repl 97.2 0.0025 5.5E-08 73.1 12.7 38 419-456 142-179 (450)
124 COG2256 MGS1 ATPase related to 97.2 0.0011 2.3E-08 72.6 8.9 57 408-469 38-94 (436)
125 TIGR03015 pepcterm_ATPase puta 97.2 0.0013 2.7E-08 70.2 9.1 41 401-441 24-66 (269)
126 PRK00149 dnaA chromosomal repl 97.1 0.002 4.2E-08 74.3 10.6 56 402-457 130-187 (450)
127 PRK04914 ATP-dependent helicas 97.1 0.0032 7E-08 77.8 12.5 162 400-585 152-321 (956)
128 PRK14974 cell division protein 97.1 0.0024 5.3E-08 70.2 10.3 45 420-466 142-189 (336)
129 KOG0354 DEAD-box like helicase 97.1 0.0022 4.8E-08 75.7 10.4 132 400-558 62-195 (746)
130 PRK08727 hypothetical protein; 97.1 0.0063 1.4E-07 63.7 12.8 36 418-455 41-76 (233)
131 TIGR02774 rexB_recomb ATP-depe 97.1 0.0048 1E-07 78.1 13.8 165 544-738 187-352 (1076)
132 PRK12323 DNA polymerase III su 97.1 0.0018 3.9E-08 75.9 9.1 48 541-589 123-174 (700)
133 COG0470 HolB ATPase involved i 97.1 0.0036 7.8E-08 68.5 11.3 131 418-589 23-159 (325)
134 TIGR03158 cas3_cyano CRISPR-as 97.1 0.0021 4.6E-08 71.7 9.4 62 404-471 1-62 (357)
135 TIGR00362 DnaA chromosomal rep 97.0 0.003 6.5E-08 71.8 10.7 38 419-456 137-174 (405)
136 PRK06893 DNA replication initi 97.0 0.005 1.1E-07 64.3 11.4 37 418-456 39-75 (229)
137 KOG0328 Predicted ATP-dependen 97.0 0.0027 6E-08 65.9 9.1 69 400-471 49-118 (400)
138 TIGR00635 ruvB Holliday juncti 97.0 0.0033 7.1E-08 68.5 10.5 21 419-439 31-51 (305)
139 PRK00440 rfc replication facto 97.0 0.0051 1.1E-07 67.2 11.7 42 402-443 22-63 (319)
140 COG1110 Reverse gyrase [DNA re 97.0 0.0029 6.2E-08 76.0 10.0 128 400-551 82-212 (1187)
141 PRK13342 recombination factor 97.0 0.0031 6.7E-08 71.9 10.0 29 409-437 27-55 (413)
142 PRK07003 DNA polymerase III su 96.9 0.0035 7.7E-08 74.5 10.2 48 541-589 118-169 (830)
143 TIGR02621 cas3_GSU0051 CRISPR- 96.9 0.0052 1.1E-07 74.5 11.8 69 401-471 16-85 (844)
144 PF09416 UPF1_Zn_bind: RNA hel 96.9 1.7E-05 3.8E-10 75.3 -7.3 88 130-224 57-149 (152)
145 PRK14962 DNA polymerase III su 96.9 0.0027 5.8E-08 73.2 8.8 36 406-441 23-59 (472)
146 PF05496 RuvB_N: Holliday junc 96.9 0.0023 5.1E-08 65.5 7.3 23 419-442 51-73 (233)
147 COG1435 Tdk Thymidine kinase [ 96.9 0.0077 1.7E-07 60.1 10.6 35 420-456 6-40 (201)
148 PRK14949 DNA polymerase III su 96.9 0.0023 5E-08 77.4 8.3 47 541-588 118-168 (944)
149 PRK07994 DNA polymerase III su 96.9 0.0038 8.3E-08 74.0 9.9 48 541-589 118-169 (647)
150 PRK11131 ATP-dependent RNA hel 96.9 0.0054 1.2E-07 77.3 11.7 62 407-471 80-141 (1294)
151 PRK12422 chromosomal replicati 96.8 0.0057 1.2E-07 70.1 10.7 36 419-456 142-177 (445)
152 PRK05642 DNA replication initi 96.8 0.014 3.1E-07 61.1 12.6 36 419-456 46-81 (234)
153 PRK14952 DNA polymerase III su 96.8 0.0046 9.9E-08 72.9 9.5 48 541-589 117-168 (584)
154 PRK14963 DNA polymerase III su 96.8 0.007 1.5E-07 70.4 10.9 34 410-443 27-61 (504)
155 PRK11057 ATP-dependent DNA hel 96.8 0.0028 6.2E-08 75.7 8.0 65 398-470 23-87 (607)
156 COG4889 Predicted helicase [Ge 96.8 0.0038 8.2E-08 73.5 8.4 148 400-553 161-315 (1518)
157 TIGR01389 recQ ATP-dependent D 96.8 0.0039 8.5E-08 74.4 9.0 65 398-470 11-75 (591)
158 PRK13341 recombination factor 96.7 0.0055 1.2E-07 74.1 10.0 30 408-437 42-71 (725)
159 PRK05563 DNA polymerase III su 96.7 0.0066 1.4E-07 71.6 10.5 48 541-589 118-169 (559)
160 PRK14960 DNA polymerase III su 96.7 0.004 8.7E-08 73.2 8.3 47 541-588 117-167 (702)
161 PRK14951 DNA polymerase III su 96.7 0.0057 1.2E-07 72.4 9.7 48 541-589 123-174 (618)
162 PRK07952 DNA replication prote 96.7 0.0051 1.1E-07 64.7 8.3 60 394-455 70-134 (244)
163 PRK09112 DNA polymerase III su 96.7 0.0086 1.9E-07 66.5 10.3 48 541-589 140-191 (351)
164 PHA02544 44 clamp loader, smal 96.7 0.0085 1.9E-07 65.6 10.2 39 400-438 24-63 (316)
165 PRK00080 ruvB Holliday junctio 96.7 0.01 2.2E-07 65.5 10.7 23 418-440 51-73 (328)
166 PF14874 PapD-like: Flagellar- 96.7 0.046 9.9E-07 49.2 13.1 80 49-157 10-90 (102)
167 PF13177 DNA_pol3_delta2: DNA 96.6 0.012 2.6E-07 58.0 10.0 48 541-589 101-152 (162)
168 PRK12723 flagellar biosynthesi 96.6 0.0091 2E-07 66.9 10.0 51 419-469 175-229 (388)
169 cd00561 CobA_CobO_BtuR ATP:cor 96.6 0.012 2.6E-07 57.6 9.5 37 419-457 3-39 (159)
170 PRK13833 conjugal transfer pro 96.6 0.0044 9.6E-08 67.7 7.3 52 400-453 128-179 (323)
171 PRK05707 DNA polymerase III su 96.6 0.0075 1.6E-07 66.4 9.0 48 541-589 105-156 (328)
172 PRK14948 DNA polymerase III su 96.6 0.0069 1.5E-07 72.1 9.3 47 541-588 120-170 (620)
173 KOG0987 DNA helicase PIF1/RRM3 96.6 0.0043 9.4E-08 72.8 7.6 64 398-464 115-181 (540)
174 PRK07246 bifunctional ATP-depe 96.6 0.0079 1.7E-07 74.1 9.9 62 400-466 245-309 (820)
175 COG1200 RecG RecG-like helicas 96.5 0.0089 1.9E-07 69.7 9.4 201 400-642 262-473 (677)
176 KOG2028 ATPase related to the 96.5 0.0027 5.9E-08 68.3 4.6 64 405-470 149-212 (554)
177 PRK14961 DNA polymerase III su 96.5 0.012 2.7E-07 65.7 10.2 47 541-588 118-168 (363)
178 PRK14969 DNA polymerase III su 96.5 0.012 2.5E-07 69.1 10.4 47 541-588 118-168 (527)
179 PF00265 TK: Thymidine kinase; 96.5 0.017 3.6E-07 57.7 10.0 36 420-457 3-38 (176)
180 COG1643 HrpA HrpA-like helicas 96.5 0.011 2.5E-07 71.8 10.3 64 405-471 54-117 (845)
181 PRK04195 replication factor C 96.5 0.014 3E-07 67.9 10.7 39 400-438 17-59 (482)
182 PRK08691 DNA polymerase III su 96.5 0.013 2.8E-07 69.6 10.3 47 542-589 119-169 (709)
183 PRK14086 dnaA chromosomal repl 96.5 0.025 5.4E-07 66.5 12.5 38 419-456 315-352 (617)
184 TIGR02397 dnaX_nterm DNA polym 96.4 0.01 2.3E-07 65.9 9.2 43 401-443 18-61 (355)
185 PRK14964 DNA polymerase III su 96.4 0.016 3.4E-07 66.9 10.7 47 541-588 115-165 (491)
186 cd01124 KaiC KaiC is a circadi 96.4 0.0056 1.2E-07 61.3 6.2 47 421-470 2-48 (187)
187 PRK07940 DNA polymerase III su 96.4 0.01 2.2E-07 66.9 8.7 48 541-589 116-167 (394)
188 PRK06645 DNA polymerase III su 96.4 0.014 3.1E-07 67.7 10.0 25 419-443 44-68 (507)
189 PRK12377 putative replication 96.4 0.011 2.3E-07 62.5 8.1 60 395-456 73-137 (248)
190 TIGR00678 holB DNA polymerase 96.4 0.013 2.8E-07 59.1 8.5 26 419-444 15-40 (188)
191 PRK12899 secA preprotein trans 96.4 0.0092 2E-07 72.4 8.4 66 400-470 92-157 (970)
192 smart00382 AAA ATPases associa 96.3 0.0023 5E-08 59.6 2.6 45 419-465 3-47 (148)
193 PRK07133 DNA polymerase III su 96.3 0.014 3.1E-07 69.8 9.8 48 541-589 117-168 (725)
194 PRK05896 DNA polymerase III su 96.3 0.012 2.6E-07 69.0 9.0 38 406-443 25-63 (605)
195 PRK08451 DNA polymerase III su 96.3 0.018 3.9E-07 67.0 10.3 48 541-589 116-167 (535)
196 PRK13894 conjugal transfer ATP 96.3 0.0083 1.8E-07 65.7 7.2 56 400-457 132-187 (319)
197 COG0593 DnaA ATPase involved i 96.3 0.022 4.8E-07 63.7 10.6 44 418-461 113-156 (408)
198 TIGR03714 secA2 accessory Sec 96.3 0.023 4.9E-07 68.4 11.2 66 400-470 68-133 (762)
199 PHA03311 helicase-primase subu 96.2 0.0044 9.6E-08 72.6 4.5 107 347-470 9-116 (828)
200 COG1205 Distinct helicase fami 96.2 0.021 4.5E-07 70.4 10.6 69 400-471 70-138 (851)
201 KOG4284 DEAD box protein [Tran 96.2 0.0031 6.8E-08 72.0 3.2 135 400-560 47-185 (980)
202 PRK00771 signal recognition pa 96.2 0.021 4.6E-07 65.0 9.7 35 420-456 97-131 (437)
203 PTZ00293 thymidine kinase; Pro 96.2 0.0042 9E-08 63.5 3.6 36 420-457 6-41 (211)
204 KOG0345 ATP-dependent RNA heli 96.1 0.04 8.6E-07 61.4 11.1 70 398-470 26-101 (567)
205 KOG0743 AAA+-type ATPase [Post 96.1 0.0059 1.3E-07 68.0 4.7 21 421-441 238-258 (457)
206 TIGR02782 TrbB_P P-type conjug 96.1 0.012 2.6E-07 63.9 7.1 54 400-455 116-169 (299)
207 PRK14965 DNA polymerase III su 96.1 0.019 4.1E-07 68.1 9.2 42 402-443 21-63 (576)
208 TIGR03420 DnaA_homol_Hda DnaA 96.1 0.016 3.6E-07 59.9 7.8 56 401-458 21-76 (226)
209 PRK05986 cob(I)alamin adenolsy 96.1 0.052 1.1E-06 54.6 10.9 39 418-458 22-60 (191)
210 PRK07471 DNA polymerase III su 96.1 0.038 8.3E-07 61.7 11.0 48 541-589 140-191 (365)
211 smart00488 DEXDc2 DEAD-like he 96.1 0.018 4E-07 62.2 8.3 68 402-469 10-82 (289)
212 smart00489 DEXDc3 DEAD-like he 96.1 0.018 4E-07 62.2 8.3 68 402-469 10-82 (289)
213 PF13191 AAA_16: AAA ATPase do 96.0 0.014 3E-07 58.1 6.6 43 403-445 6-51 (185)
214 PRK08181 transposase; Validate 96.0 0.024 5.2E-07 60.6 8.6 52 400-455 87-141 (269)
215 PRK14959 DNA polymerase III su 96.0 0.021 4.5E-07 67.5 8.7 41 403-443 22-63 (624)
216 PF00448 SRP54: SRP54-type pro 96.0 0.014 3.1E-07 59.3 6.5 43 420-464 3-48 (196)
217 PRK06526 transposase; Provisio 96.0 0.008 1.7E-07 63.7 4.7 54 400-455 80-133 (254)
218 PRK14957 DNA polymerase III su 95.9 0.034 7.4E-07 65.0 10.2 37 407-443 26-63 (546)
219 PF00004 AAA: ATPase family as 95.8 0.0063 1.4E-07 56.8 3.0 20 421-440 1-20 (132)
220 PRK09751 putative ATP-dependen 95.8 0.0096 2.1E-07 76.4 5.4 48 423-470 1-59 (1490)
221 cd01129 PulE-GspE PulE/GspE Th 95.8 0.017 3.6E-07 61.7 6.5 52 400-454 63-114 (264)
222 PHA03333 putative ATPase subun 95.8 0.067 1.5E-06 63.0 11.7 51 419-470 188-238 (752)
223 COG1484 DnaC DNA replication p 95.7 0.032 6.9E-07 59.2 8.2 55 400-456 83-141 (254)
224 PF01695 IstB_IS21: IstB-like 95.7 0.019 4E-07 57.6 6.1 44 420-470 49-92 (178)
225 PRK08769 DNA polymerase III su 95.7 0.072 1.6E-06 58.3 10.8 48 541-589 112-163 (319)
226 PRK06851 hypothetical protein; 95.7 0.0088 1.9E-07 66.3 3.7 47 419-465 31-77 (367)
227 KOG0920 ATP-dependent RNA heli 95.7 0.056 1.2E-06 65.9 10.7 65 405-471 177-242 (924)
228 PLN03142 Probable chromatin-re 95.7 0.045 9.8E-07 68.3 10.2 159 400-581 169-331 (1033)
229 PRK10867 signal recognition pa 95.6 0.063 1.4E-06 61.1 10.5 35 420-455 102-136 (433)
230 PRK08058 DNA polymerase III su 95.6 0.046 1E-06 60.3 9.2 48 541-589 109-160 (329)
231 PRK08903 DnaA regulatory inact 95.6 0.039 8.4E-07 57.4 8.2 54 400-455 23-77 (227)
232 TIGR02928 orc1/cdc6 family rep 95.6 0.032 6.9E-07 62.3 7.9 43 402-444 20-66 (365)
233 KOG0331 ATP-dependent RNA heli 95.6 0.042 9.2E-07 63.0 8.8 144 398-566 111-267 (519)
234 KOG0951 RNA helicase BRR2, DEA 95.6 0.025 5.4E-07 69.4 7.1 126 400-552 309-447 (1674)
235 TIGR00708 cobA cob(I)alamin ad 95.5 0.077 1.7E-06 52.6 9.5 39 419-459 6-44 (173)
236 TIGR03117 cas_csf4 CRISPR-asso 95.5 0.032 7E-07 66.2 7.8 66 404-469 1-67 (636)
237 PRK07764 DNA polymerase III su 95.5 0.066 1.4E-06 65.8 10.6 38 406-443 24-62 (824)
238 PRK09111 DNA polymerase III su 95.5 0.062 1.4E-06 63.8 10.0 42 402-443 29-71 (598)
239 cd01120 RecA-like_NTPases RecA 95.4 0.029 6.2E-07 54.2 6.1 41 421-463 2-42 (165)
240 PRK05564 DNA polymerase III su 95.4 0.079 1.7E-06 58.0 10.2 48 541-589 92-143 (313)
241 COG1203 CRISPR-associated heli 95.4 0.033 7.1E-07 68.1 7.9 72 400-471 195-269 (733)
242 TIGR02881 spore_V_K stage V sp 95.4 0.02 4.4E-07 61.0 5.3 24 419-442 43-66 (261)
243 COG2804 PulE Type II secretory 95.4 0.025 5.4E-07 64.3 6.1 43 400-443 241-283 (500)
244 PRK08116 hypothetical protein; 95.4 0.038 8.3E-07 59.1 7.2 35 419-455 115-149 (268)
245 PF05729 NACHT: NACHT domain 95.4 0.025 5.5E-07 54.9 5.4 27 420-446 2-28 (166)
246 PRK09183 transposase/IS protei 95.3 0.034 7.4E-07 59.2 6.7 55 399-455 83-137 (259)
247 PRK14970 DNA polymerase III su 95.3 0.091 2E-06 58.9 10.4 37 402-438 22-59 (367)
248 PRK10436 hypothetical protein; 95.3 0.028 6.1E-07 64.6 6.2 42 400-442 201-242 (462)
249 COG0467 RAD55 RecA-superfamily 95.3 0.027 5.9E-07 59.9 5.8 47 419-467 24-70 (260)
250 KOG0387 Transcription-coupled 95.3 0.73 1.6E-05 54.8 17.4 169 400-581 205-377 (923)
251 PRK14873 primosome assembly pr 95.3 0.062 1.3E-06 64.5 9.3 103 422-551 164-266 (665)
252 PF06745 KaiC: KaiC; InterPro 95.3 0.027 5.9E-07 58.5 5.6 50 419-470 20-69 (226)
253 PF13207 AAA_17: AAA domain; P 95.3 0.015 3.4E-07 53.7 3.4 21 421-441 2-22 (121)
254 KOG0330 ATP-dependent RNA heli 95.2 0.037 8.1E-07 60.2 6.5 157 399-580 82-245 (476)
255 PRK14722 flhF flagellar biosyn 95.2 0.026 5.7E-07 62.8 5.6 38 419-456 138-175 (374)
256 PRK06871 DNA polymerase III su 95.2 0.085 1.8E-06 57.9 9.5 48 541-589 106-157 (325)
257 TIGR02688 conserved hypothetic 95.2 0.11 2.3E-06 58.5 10.2 22 420-441 211-232 (449)
258 PF07728 AAA_5: AAA domain (dy 95.2 0.023 5E-07 54.1 4.5 26 544-570 67-92 (139)
259 KOG0350 DEAD-box ATP-dependent 95.2 0.044 9.6E-07 61.4 7.1 121 420-556 185-309 (620)
260 KOG0990 Replication factor C, 95.2 0.034 7.4E-07 59.4 6.0 39 542-581 131-172 (360)
261 PRK08533 flagellar accessory p 95.2 0.039 8.5E-07 57.6 6.5 44 419-464 25-68 (230)
262 COG2805 PilT Tfp pilus assembl 95.2 0.03 6.5E-07 59.4 5.4 36 416-452 123-158 (353)
263 PRK00411 cdc6 cell division co 95.1 0.048 1E-06 61.6 7.6 43 403-445 36-82 (394)
264 TIGR02640 gas_vesic_GvpN gas v 95.1 0.041 8.8E-07 58.7 6.5 39 402-441 4-43 (262)
265 PHA03368 DNA packaging termina 95.1 0.14 3E-06 60.2 11.0 51 420-470 256-306 (738)
266 TIGR00604 rad3 DNA repair heli 95.1 0.067 1.5E-06 65.3 9.1 71 400-470 10-82 (705)
267 TIGR02533 type_II_gspE general 95.1 0.029 6.2E-07 65.1 5.6 42 400-442 225-266 (486)
268 PRK06647 DNA polymerase III su 95.1 0.12 2.7E-06 60.9 10.9 42 402-443 21-63 (563)
269 cd01983 Fer4_NifH The Fer4_Nif 95.1 0.15 3.3E-06 44.3 9.0 33 421-455 2-34 (99)
270 cd01130 VirB11-like_ATPase Typ 95.1 0.039 8.4E-07 55.6 5.9 49 400-453 9-57 (186)
271 PHA00350 putative assembly pro 95.0 0.11 2.4E-06 58.2 9.7 25 420-444 3-28 (399)
272 PF13481 AAA_25: AAA domain; P 95.0 0.038 8.2E-07 55.6 5.6 51 419-470 33-91 (193)
273 PRK05973 replicative DNA helic 95.0 0.045 9.7E-07 57.3 6.2 49 419-470 65-113 (237)
274 TIGR03878 thermo_KaiC_2 KaiC d 95.0 0.035 7.6E-07 59.1 5.5 46 420-468 38-83 (259)
275 TIGR00064 ftsY signal recognit 95.0 0.05 1.1E-06 58.4 6.6 34 420-455 74-107 (272)
276 PRK14953 DNA polymerase III su 94.9 0.13 2.8E-06 59.8 10.3 46 541-587 118-167 (486)
277 KOG0333 U5 snRNP-like RNA heli 94.9 0.68 1.5E-05 52.6 15.3 277 400-756 267-559 (673)
278 PRK11331 5-methylcytosine-spec 94.9 0.048 1E-06 61.8 6.6 40 401-443 179-218 (459)
279 PRK12898 secA preprotein trans 94.9 0.082 1.8E-06 62.9 8.8 64 400-470 103-166 (656)
280 cd03115 SRP The signal recogni 94.9 0.038 8.2E-07 54.8 5.2 33 421-455 3-35 (173)
281 KOG0338 ATP-dependent RNA heli 94.9 0.041 8.9E-07 61.8 5.8 149 402-574 205-362 (691)
282 COG1444 Predicted P-loop ATPas 94.9 0.19 4.2E-06 60.1 11.7 71 400-470 211-283 (758)
283 PRK07399 DNA polymerase III su 94.9 0.18 3.9E-06 55.3 10.7 48 541-589 123-173 (314)
284 KOG0335 ATP-dependent RNA heli 94.9 0.035 7.7E-07 62.7 5.3 69 399-470 95-174 (482)
285 smart00763 AAA_PrkA PrkA AAA d 94.8 0.064 1.4E-06 59.2 7.1 77 358-444 18-103 (361)
286 TIGR02538 type_IV_pilB type IV 94.8 0.055 1.2E-06 64.1 7.0 42 400-442 299-340 (564)
287 PRK06964 DNA polymerase III su 94.7 0.16 3.5E-06 56.1 10.0 48 541-589 131-182 (342)
288 PRK07993 DNA polymerase III su 94.7 0.14 3.1E-06 56.5 9.5 48 541-589 107-158 (334)
289 KOG0744 AAA+-type ATPase [Post 94.6 0.022 4.7E-07 60.8 2.8 24 419-443 178-201 (423)
290 COG1474 CDC6 Cdc6-related prot 94.6 0.11 2.3E-06 58.2 8.3 69 402-470 22-95 (366)
291 TIGR03877 thermo_KaiC_1 KaiC d 94.6 0.06 1.3E-06 56.5 6.1 49 419-470 22-70 (237)
292 TIGR03499 FlhF flagellar biosy 94.6 0.049 1.1E-06 58.7 5.5 37 420-456 196-232 (282)
293 PRK06835 DNA replication prote 94.6 0.075 1.6E-06 58.5 6.9 36 419-456 184-219 (329)
294 PF03237 Terminase_6: Terminas 94.5 0.076 1.7E-06 58.8 7.1 45 422-466 1-46 (384)
295 KOG0922 DEAH-box RNA helicase 94.5 0.21 4.6E-06 58.2 10.5 51 418-471 66-118 (674)
296 PRK06090 DNA polymerase III su 94.5 0.15 3.2E-06 55.8 9.0 48 541-589 107-158 (319)
297 cd01131 PilT Pilus retraction 94.5 0.046 9.9E-07 55.7 4.8 35 419-454 2-36 (198)
298 TIGR01547 phage_term_2 phage t 94.5 0.19 4.1E-06 56.9 10.2 49 421-469 4-54 (396)
299 COG1201 Lhr Lhr-like helicases 94.5 0.13 2.8E-06 62.5 9.1 70 398-470 20-95 (814)
300 TIGR02525 plasmid_TraJ plasmid 94.5 0.07 1.5E-06 59.6 6.4 36 418-453 149-184 (372)
301 TIGR02880 cbbX_cfxQ probable R 94.5 0.047 1E-06 58.9 5.0 24 420-444 60-83 (284)
302 TIGR03880 KaiC_arch_3 KaiC dom 94.4 0.074 1.6E-06 55.1 6.2 49 419-470 17-65 (224)
303 TIGR01650 PD_CobS cobaltochela 94.4 0.061 1.3E-06 58.7 5.6 39 400-440 48-86 (327)
304 COG0556 UvrB Helicase subunit 94.4 0.083 1.8E-06 59.9 6.7 64 402-470 14-79 (663)
305 COG4581 Superfamily II RNA hel 94.4 0.22 4.8E-06 61.6 10.9 66 400-470 119-184 (1041)
306 PHA03372 DNA packaging termina 94.4 0.18 3.9E-06 58.6 9.5 131 421-579 205-336 (668)
307 PF03308 ArgK: ArgK protein; 94.3 0.096 2.1E-06 54.9 6.7 51 403-455 13-64 (266)
308 COG1197 Mfd Transcription-repa 94.3 0.12 2.7E-06 63.9 8.6 69 400-470 594-665 (1139)
309 CHL00181 cbbX CbbX; Provisiona 94.3 0.055 1.2E-06 58.5 5.2 23 420-442 61-83 (287)
310 PF02492 cobW: CobW/HypB/UreG, 94.3 0.047 1E-06 54.6 4.3 35 419-456 1-35 (178)
311 PRK06921 hypothetical protein; 94.3 0.07 1.5E-06 57.0 5.8 38 418-456 117-154 (266)
312 PF01078 Mg_chelatase: Magnesi 94.3 0.06 1.3E-06 54.8 5.0 38 403-443 9-46 (206)
313 TIGR01407 dinG_rel DnaQ family 94.3 0.12 2.5E-06 64.5 8.7 64 400-467 245-311 (850)
314 KOG0342 ATP-dependent RNA heli 94.2 0.1 2.2E-06 58.5 7.0 70 398-470 102-176 (543)
315 KOG0390 DNA repair protein, SN 94.2 0.44 9.5E-06 57.4 12.7 164 400-581 238-416 (776)
316 PRK04328 hypothetical protein; 94.2 0.079 1.7E-06 56.0 6.0 49 419-470 24-72 (249)
317 TIGR00963 secA preprotein tran 94.2 0.16 3.4E-06 61.1 9.0 47 422-470 73-119 (745)
318 PRK08939 primosomal protein Dn 94.2 0.11 2.4E-06 56.7 7.1 36 419-456 157-192 (306)
319 TIGR02237 recomb_radB DNA repa 94.2 0.086 1.9E-06 53.9 6.0 37 420-458 14-50 (209)
320 PF13238 AAA_18: AAA domain; P 94.2 0.041 8.9E-07 51.0 3.4 22 421-442 1-22 (129)
321 PRK10416 signal recognition pa 94.1 0.065 1.4E-06 58.7 5.2 34 420-455 116-149 (318)
322 PHA02533 17 large terminase pr 94.1 0.66 1.4E-05 54.5 13.8 68 400-470 59-126 (534)
323 COG1703 ArgK Putative periplas 94.1 0.12 2.6E-06 55.1 6.7 47 407-455 39-86 (323)
324 cd00984 DnaB_C DnaB helicase C 94.0 0.094 2E-06 54.9 6.0 48 420-469 15-62 (242)
325 PRK14950 DNA polymerase III su 94.0 0.28 6E-06 58.6 10.6 40 403-442 22-62 (585)
326 cd01394 radB RadB. The archaea 94.0 0.077 1.7E-06 54.7 5.2 35 420-456 21-55 (218)
327 PRK09200 preprotein translocas 94.0 0.16 3.4E-06 61.8 8.5 47 422-470 95-141 (790)
328 cd00544 CobU Adenosylcobinamid 94.0 0.074 1.6E-06 52.8 4.8 45 421-470 2-46 (169)
329 cd01122 GP4d_helicase GP4d_hel 94.0 0.092 2E-06 56.0 6.0 50 419-470 31-80 (271)
330 PRK06067 flagellar accessory p 94.0 0.11 2.4E-06 54.2 6.5 49 419-470 26-74 (234)
331 TIGR02012 tigrfam_recA protein 93.9 0.1 2.2E-06 57.0 6.2 47 419-467 56-102 (321)
332 PF13671 AAA_33: AAA domain; P 93.8 0.041 8.9E-07 52.4 2.7 17 421-437 2-18 (143)
333 PRK14971 DNA polymerase III su 93.7 0.37 8.1E-06 57.6 11.0 46 542-588 121-170 (614)
334 PRK09361 radB DNA repair and r 93.7 0.093 2E-06 54.4 5.3 36 420-457 25-60 (225)
335 PRK03992 proteasome-activating 93.7 0.086 1.9E-06 59.6 5.4 20 420-440 167-186 (389)
336 COG3267 ExeA Type II secretory 93.7 0.12 2.6E-06 53.9 5.8 37 544-581 133-175 (269)
337 PRK05703 flhF flagellar biosyn 93.7 0.09 1.9E-06 60.0 5.4 37 420-456 223-259 (424)
338 PRK05917 DNA polymerase III su 93.7 0.47 1E-05 51.1 10.6 48 541-589 94-145 (290)
339 PHA00729 NTP-binding motif con 93.6 0.057 1.2E-06 55.8 3.5 23 420-442 19-41 (226)
340 PF02689 Herpes_Helicase: Heli 93.6 0.061 1.3E-06 63.5 4.0 46 419-471 60-105 (818)
341 PF06309 Torsin: Torsin; Inte 93.6 0.15 3.2E-06 47.8 5.7 48 423-470 58-111 (127)
342 PTZ00112 origin recognition co 93.6 0.1 2.3E-06 63.0 5.8 41 403-443 761-806 (1164)
343 TIGR01425 SRP54_euk signal rec 93.5 0.088 1.9E-06 59.7 5.0 35 420-456 102-136 (429)
344 cd02019 NK Nucleoside/nucleoti 93.5 0.13 2.9E-06 42.8 4.9 22 421-442 2-23 (69)
345 CHL00195 ycf46 Ycf46; Provisio 93.5 0.28 6.1E-06 56.9 9.1 22 420-442 261-282 (489)
346 KOG0348 ATP-dependent RNA heli 93.5 0.29 6.3E-06 55.6 8.7 69 399-470 158-233 (708)
347 cd00983 recA RecA is a bacter 93.4 0.19 4.2E-06 55.0 7.3 43 419-463 56-98 (325)
348 PF03266 NTPase_1: NTPase; In 93.4 0.066 1.4E-06 53.1 3.4 24 421-444 2-25 (168)
349 PRK13900 type IV secretion sys 93.4 0.15 3.2E-06 56.4 6.4 45 404-453 148-192 (332)
350 PF00437 T2SE: Type II/IV secr 93.4 0.074 1.6E-06 56.8 4.0 49 403-455 114-162 (270)
351 TIGR02655 circ_KaiC circadian 93.4 0.12 2.7E-06 60.1 6.1 49 419-470 264-312 (484)
352 PF00910 RNA_helicase: RNA hel 93.4 0.077 1.7E-06 48.3 3.5 24 421-444 1-24 (107)
353 PRK08699 DNA polymerase III su 93.3 0.3 6.6E-06 53.7 8.7 48 541-589 112-163 (325)
354 PRK12608 transcription termina 93.3 0.16 3.4E-06 56.5 6.3 63 407-469 122-186 (380)
355 KOG0741 AAA+-type ATPase [Post 93.3 0.12 2.7E-06 58.5 5.5 46 400-446 225-283 (744)
356 KOG0923 mRNA splicing factor A 93.3 0.19 4.2E-06 58.2 7.1 54 418-471 280-333 (902)
357 TIGR03881 KaiC_arch_4 KaiC dom 93.2 0.17 3.7E-06 52.6 6.2 47 419-468 21-67 (229)
358 TIGR00631 uvrb excinuclease AB 93.1 0.35 7.7E-06 58.2 9.5 66 400-470 9-76 (655)
359 COG0552 FtsY Signal recognitio 93.1 0.12 2.6E-06 56.0 4.9 34 420-455 141-174 (340)
360 PRK11889 flhF flagellar biosyn 93.1 0.16 3.5E-06 56.7 6.1 45 419-465 242-289 (436)
361 TIGR03689 pup_AAA proteasome A 93.1 0.13 2.8E-06 59.8 5.5 22 420-441 218-239 (512)
362 COG4962 CpaF Flp pilus assembl 93.0 0.14 3.1E-06 55.6 5.4 53 399-456 156-208 (355)
363 PRK13851 type IV secretion sys 93.0 0.15 3.2E-06 56.5 5.7 47 402-453 148-194 (344)
364 COG1202 Superfamily II helicas 93.0 0.29 6.3E-06 56.0 7.8 132 399-557 215-352 (830)
365 TIGR02655 circ_KaiC circadian 92.9 0.16 3.4E-06 59.2 6.1 50 419-470 22-71 (484)
366 PRK10463 hydrogenase nickel in 92.9 0.18 3.8E-06 54.3 6.0 52 401-455 87-138 (290)
367 KOG0925 mRNA splicing factor A 92.9 0.71 1.5E-05 52.0 10.6 65 404-471 50-114 (699)
368 COG1419 FlhF Flagellar GTP-bin 92.9 0.23 4.9E-06 55.4 6.9 39 418-456 203-241 (407)
369 PRK12724 flagellar biosynthesi 92.9 0.21 4.5E-06 56.4 6.6 49 420-469 225-275 (432)
370 PRK06995 flhF flagellar biosyn 92.9 0.14 2.9E-06 59.1 5.3 37 419-455 257-293 (484)
371 COG1222 RPT1 ATP-dependent 26S 92.9 0.068 1.5E-06 58.0 2.7 40 421-470 188-227 (406)
372 TIGR00959 ffh signal recogniti 92.9 0.14 3E-06 58.4 5.3 36 420-456 101-136 (428)
373 TIGR01359 UMP_CMP_kin_fam UMP- 92.9 0.086 1.9E-06 52.6 3.4 17 421-437 2-18 (183)
374 COG1102 Cmk Cytidylate kinase 92.8 0.084 1.8E-06 51.2 3.0 20 421-440 3-22 (179)
375 TIGR01242 26Sp45 26S proteasom 92.8 0.1 2.2E-06 58.5 4.1 18 421-438 159-176 (364)
376 KOG0926 DEAH-box RNA helicase 92.8 0.31 6.8E-06 57.7 7.9 66 402-471 259-328 (1172)
377 TIGR01360 aden_kin_iso1 adenyl 92.7 0.09 1.9E-06 52.6 3.2 21 419-439 4-24 (188)
378 COG3854 SpoIIIAA ncharacterize 92.6 0.17 3.8E-06 51.8 5.0 39 421-460 140-182 (308)
379 KOG1123 RNA polymerase II tran 92.6 0.24 5.2E-06 55.7 6.4 135 395-561 297-440 (776)
380 TIGR01420 pilT_fam pilus retra 92.6 0.13 2.8E-06 57.2 4.5 36 418-454 122-157 (343)
381 PF04665 Pox_A32: Poxvirus A32 92.6 0.13 2.9E-06 53.7 4.3 34 421-456 16-49 (241)
382 TIGR02524 dot_icm_DotB Dot/Icm 92.6 0.16 3.4E-06 56.7 5.1 27 418-444 134-160 (358)
383 KOG0343 RNA Helicase [RNA proc 92.5 0.29 6.3E-06 55.8 7.0 133 399-557 90-230 (758)
384 PRK13531 regulatory ATPase Rav 92.5 0.12 2.6E-06 59.2 4.2 38 405-443 25-63 (498)
385 PRK06851 hypothetical protein; 92.5 0.094 2E-06 58.3 3.2 33 419-453 215-247 (367)
386 PRK06620 hypothetical protein; 92.4 0.16 3.5E-06 52.4 4.8 18 419-436 45-62 (214)
387 PRK09435 membrane ATPase/prote 92.4 0.29 6.3E-06 53.9 6.9 35 420-456 58-92 (332)
388 KOG0340 ATP-dependent RNA heli 92.4 0.44 9.6E-06 51.6 7.9 69 400-471 29-98 (442)
389 PRK13407 bchI magnesium chelat 92.4 0.18 3.8E-06 55.6 5.2 24 419-443 30-53 (334)
390 PF03215 Rad17: Rad17 cell cyc 92.4 0.15 3.3E-06 59.5 4.9 23 419-441 46-68 (519)
391 PRK08074 bifunctional ATP-depe 92.3 0.38 8.2E-06 60.5 8.7 65 400-467 257-324 (928)
392 COG1199 DinG Rad3-related DNA 92.3 0.34 7.4E-06 58.7 8.1 70 400-470 15-85 (654)
393 PF05673 DUF815: Protein of un 92.3 0.34 7.3E-06 50.6 6.8 51 403-455 33-87 (249)
394 KOG3125 Thymidine kinase [Nucl 92.3 0.92 2E-05 45.3 9.3 36 419-456 28-63 (234)
395 PRK08118 topology modulation p 92.3 0.12 2.6E-06 51.2 3.3 20 421-441 4-23 (167)
396 PRK12727 flagellar biosynthesi 92.2 0.28 6E-06 56.9 6.7 37 419-455 351-387 (559)
397 PRK12726 flagellar biosynthesi 92.2 0.2 4.4E-06 55.7 5.3 35 419-455 207-241 (407)
398 COG2255 RuvB Holliday junction 92.2 0.24 5.2E-06 52.4 5.5 23 420-443 54-76 (332)
399 PRK14955 DNA polymerase III su 92.2 0.2 4.3E-06 56.8 5.5 40 403-442 22-62 (397)
400 PTZ00301 uridine kinase; Provi 92.1 0.22 4.7E-06 51.3 5.2 25 420-444 5-29 (210)
401 PRK05298 excinuclease ABC subu 92.1 0.39 8.3E-06 58.1 8.1 66 400-470 12-79 (652)
402 PF03029 ATP_bind_1: Conserved 92.1 0.13 2.7E-06 54.1 3.5 22 423-445 1-22 (238)
403 PF12846 AAA_10: AAA-like doma 92.1 0.26 5.7E-06 52.9 6.1 42 419-462 2-43 (304)
404 PRK09354 recA recombinase A; P 92.1 0.27 5.7E-06 54.4 6.1 47 419-467 61-107 (349)
405 COG0606 Predicted ATPase with 92.0 0.14 3E-06 57.9 3.9 36 404-442 186-221 (490)
406 cd01121 Sms Sms (bacterial rad 92.0 0.27 5.9E-06 55.1 6.3 48 419-469 83-130 (372)
407 PTZ00361 26 proteosome regulat 92.0 0.21 4.6E-06 57.0 5.5 20 421-441 220-239 (438)
408 COG0541 Ffh Signal recognition 92.0 0.51 1.1E-05 52.9 8.2 48 421-470 103-152 (451)
409 TIGR01241 FtsH_fam ATP-depende 92.0 0.25 5.4E-06 57.7 6.2 19 420-438 90-108 (495)
410 PRK13104 secA preprotein trans 92.0 0.22 4.8E-06 60.8 5.8 47 422-470 99-145 (896)
411 PF12775 AAA_7: P-loop contain 91.9 0.22 4.9E-06 53.3 5.2 30 409-440 26-55 (272)
412 PF13521 AAA_28: AAA domain; P 91.9 0.1 2.3E-06 51.1 2.5 19 421-439 2-20 (163)
413 TIGR03345 VI_ClpV1 type VI sec 91.8 0.43 9.2E-06 59.3 8.2 113 405-570 571-695 (852)
414 PHA02244 ATPase-like protein 91.8 0.26 5.7E-06 54.6 5.7 23 419-442 120-142 (383)
415 PRK14531 adenylate kinase; Pro 91.8 0.14 3.1E-06 51.3 3.4 17 421-437 5-21 (183)
416 PRK13768 GTPase; Provisional 91.8 0.21 4.5E-06 53.0 4.8 33 421-455 5-37 (253)
417 PRK00131 aroK shikimate kinase 91.7 0.16 3.5E-06 49.8 3.7 22 419-440 5-26 (175)
418 PRK03839 putative kinase; Prov 91.7 0.15 3.2E-06 51.0 3.4 20 421-441 3-22 (180)
419 cd01125 repA Hexameric Replica 91.7 0.25 5.5E-06 51.8 5.3 49 421-470 4-62 (239)
420 PF00931 NB-ARC: NB-ARC domain 91.7 0.48 1E-05 50.7 7.7 38 404-441 3-42 (287)
421 PRK05800 cobU adenosylcobinami 91.7 0.19 4.1E-06 50.0 4.0 46 420-470 3-48 (170)
422 COG3911 Predicted ATPase [Gene 91.6 0.15 3.2E-06 48.7 3.0 21 419-439 10-30 (183)
423 cd01428 ADK Adenylate kinase ( 91.6 0.14 3.1E-06 51.5 3.2 17 421-437 2-18 (194)
424 cd02021 GntK Gluconate kinase 91.6 0.14 3.1E-06 49.2 3.1 18 421-438 2-19 (150)
425 COG4088 Predicted nucleotide k 91.6 0.15 3.3E-06 51.4 3.2 24 419-442 2-25 (261)
426 TIGR02902 spore_lonB ATP-depen 91.5 0.3 6.6E-06 57.5 6.2 37 406-443 74-110 (531)
427 KOG3347 Predicted nucleotide k 91.5 0.18 4E-06 48.2 3.5 24 418-442 7-30 (176)
428 PRK14532 adenylate kinase; Pro 91.4 0.15 3.2E-06 51.3 3.0 17 421-437 3-19 (188)
429 COG1936 Predicted nucleotide k 91.4 0.11 2.5E-06 50.9 2.1 20 420-440 2-21 (180)
430 TIGR00750 lao LAO/AO transport 91.4 0.28 6E-06 53.4 5.3 35 419-455 35-69 (300)
431 PF07705 CARDB: CARDB; InterP 91.4 1.6 3.4E-05 38.6 9.4 73 59-156 14-86 (101)
432 KOG0337 ATP-dependent RNA heli 91.4 5.8 0.00013 44.3 15.1 99 692-792 244-353 (529)
433 PRK14527 adenylate kinase; Pro 91.3 0.17 3.7E-06 51.1 3.4 20 419-438 7-26 (191)
434 PRK11823 DNA repair protein Ra 91.3 0.35 7.5E-06 55.7 6.3 47 420-469 82-128 (446)
435 PRK08233 hypothetical protein; 91.3 0.14 3.1E-06 50.7 2.8 18 420-437 5-22 (182)
436 PRK12678 transcription termina 91.3 0.25 5.5E-06 57.3 4.9 30 421-450 419-448 (672)
437 PRK02496 adk adenylate kinase; 91.3 0.18 3.8E-06 50.6 3.4 17 421-437 4-20 (184)
438 cd03114 ArgK-like The function 91.2 0.34 7.4E-06 46.9 5.2 34 421-456 2-35 (148)
439 cd02025 PanK Pantothenate kina 91.2 0.3 6.5E-06 50.7 5.1 34 421-455 2-36 (220)
440 COG0378 HypB Ni2+-binding GTPa 91.2 0.37 8E-06 48.4 5.4 41 421-464 16-59 (202)
441 TIGR00416 sms DNA repair prote 91.2 0.34 7.4E-06 55.8 6.0 48 419-469 95-142 (454)
442 TIGR01313 therm_gnt_kin carboh 91.1 0.15 3.2E-06 50.0 2.6 17 421-437 1-17 (163)
443 PTZ00454 26S protease regulato 91.1 0.15 3.3E-06 57.6 3.0 20 420-440 181-200 (398)
444 COG1618 Predicted nucleotide k 91.1 0.2 4.4E-06 48.7 3.3 23 421-444 8-30 (179)
445 PRK14528 adenylate kinase; Pro 91.1 0.19 4.1E-06 50.6 3.4 17 421-437 4-20 (186)
446 cd01393 recA_like RecA is a b 91.1 0.27 5.9E-06 50.8 4.7 40 419-458 20-63 (226)
447 COG0714 MoxR-like ATPases [Gen 91.0 0.49 1.1E-05 52.2 6.9 43 419-464 44-86 (329)
448 PRK06547 hypothetical protein; 90.9 0.29 6.2E-06 48.8 4.4 20 419-438 16-35 (172)
449 PRK14530 adenylate kinase; Pro 90.9 0.2 4.3E-06 51.7 3.4 18 420-437 5-22 (215)
450 PF00406 ADK: Adenylate kinase 90.8 0.18 3.9E-06 48.8 2.9 19 423-442 1-19 (151)
451 PRK04040 adenylate kinase; Pro 90.8 0.2 4.3E-06 50.6 3.3 21 420-440 4-24 (188)
452 PRK00279 adk adenylate kinase; 90.8 0.2 4.3E-06 51.7 3.4 16 421-436 3-18 (215)
453 PLN02165 adenylate isopentenyl 90.8 0.22 4.7E-06 54.5 3.8 22 419-440 44-65 (334)
454 TIGR00176 mobB molybdopterin-g 90.8 0.43 9.3E-06 46.7 5.5 35 421-457 2-36 (155)
455 PRK06696 uridine kinase; Valid 90.7 0.61 1.3E-05 48.4 6.9 34 420-455 24-57 (223)
456 PRK09302 circadian clock prote 90.7 0.38 8.3E-06 56.4 6.0 49 419-470 274-322 (509)
457 PF03205 MobB: Molybdopterin g 90.6 0.34 7.4E-06 46.5 4.6 35 420-456 2-36 (140)
458 COG1223 Predicted ATPase (AAA+ 90.6 0.18 3.8E-06 52.6 2.6 16 420-435 153-168 (368)
459 COG3857 AddB ATP-dependent nuc 90.6 4.6 0.0001 49.9 14.7 47 422-470 5-54 (1108)
460 PRK05439 pantothenate kinase; 90.6 0.55 1.2E-05 51.2 6.6 34 421-455 89-123 (311)
461 TIGR02639 ClpA ATP-dependent C 90.6 0.61 1.3E-05 57.2 7.8 110 405-570 459-580 (731)
462 PRK07261 topology modulation p 90.5 0.22 4.8E-06 49.5 3.3 17 421-437 3-19 (171)
463 TIGR01351 adk adenylate kinase 90.5 0.21 4.5E-06 51.3 3.1 17 421-437 2-18 (210)
464 KOG0344 ATP-dependent RNA heli 90.5 0.73 1.6E-05 53.1 7.6 139 398-557 156-303 (593)
465 PLN02200 adenylate kinase fami 90.4 0.22 4.9E-06 52.1 3.3 19 420-438 45-63 (234)
466 CHL00095 clpC Clp protease ATP 90.4 0.54 1.2E-05 58.5 7.2 28 541-569 610-637 (821)
467 PRK06762 hypothetical protein; 90.4 0.24 5.2E-06 48.6 3.4 18 420-437 4-21 (166)
468 PF01637 Arch_ATPase: Archaeal 90.3 0.21 4.5E-06 51.3 3.1 36 407-442 9-44 (234)
469 PF07726 AAA_3: ATPase family 90.3 0.13 2.8E-06 48.3 1.3 39 544-584 64-102 (131)
470 cd02020 CMPK Cytidine monophos 90.2 0.27 6E-06 46.7 3.5 21 421-441 2-22 (147)
471 COG0563 Adk Adenylate kinase a 90.2 0.25 5.5E-06 49.4 3.3 17 421-437 3-19 (178)
472 KOG0738 AAA+-type ATPase [Post 90.1 0.22 4.7E-06 54.7 2.9 39 421-469 248-286 (491)
473 TIGR03819 heli_sec_ATPase heli 90.1 0.53 1.1E-05 52.1 6.1 49 400-453 162-210 (340)
474 PF06159 DUF974: Protein of un 90.1 2.1 4.6E-05 45.3 10.4 89 49-156 4-92 (249)
475 KOG1533 Predicted GTPase [Gene 90.1 0.24 5.3E-06 50.8 3.1 38 421-459 5-43 (290)
476 TIGR00073 hypB hydrogenase acc 90.0 0.47 1E-05 48.6 5.3 40 413-455 17-56 (207)
477 PRK15453 phosphoribulokinase; 90.0 0.45 9.8E-06 50.9 5.2 27 418-445 5-31 (290)
478 PF13479 AAA_24: AAA domain 90.0 0.25 5.4E-06 51.0 3.2 26 421-456 6-31 (213)
479 PRK13764 ATPase; Provisional 90.0 0.52 1.1E-05 55.8 6.2 24 420-443 259-282 (602)
480 PRK09376 rho transcription ter 90.0 0.39 8.5E-06 53.6 4.9 30 421-450 172-201 (416)
481 PTZ00202 tuzin; Provisional 90.0 0.6 1.3E-05 52.7 6.3 62 402-470 267-331 (550)
482 PRK09302 circadian clock prote 89.9 0.45 9.8E-06 55.8 5.8 50 419-470 32-81 (509)
483 TIGR00602 rad24 checkpoint pro 89.9 0.44 9.6E-06 56.9 5.6 41 400-440 87-132 (637)
484 KOG0346 RNA helicase [RNA proc 89.9 0.66 1.4E-05 51.6 6.4 129 401-551 42-179 (569)
485 PRK14723 flhF flagellar biosyn 89.8 0.39 8.4E-06 58.1 5.1 38 419-456 186-223 (767)
486 TIGR03574 selen_PSTK L-seryl-t 89.8 0.44 9.6E-06 50.3 5.0 32 421-454 2-33 (249)
487 PRK15483 type III restriction- 89.8 0.78 1.7E-05 56.8 7.7 45 420-464 61-105 (986)
488 CHL00095 clpC Clp protease ATP 89.8 0.68 1.5E-05 57.6 7.4 54 402-456 184-243 (821)
489 PRK11747 dinG ATP-dependent DN 89.7 0.96 2.1E-05 55.1 8.5 65 401-467 26-97 (697)
490 PF01580 FtsK_SpoIIIE: FtsK/Sp 89.7 0.37 8E-06 49.1 4.2 40 419-458 39-80 (205)
491 PTZ00088 adenylate kinase 1; P 89.7 0.28 6.1E-06 51.2 3.4 20 421-441 9-28 (229)
492 PF07610 DUF1573: Protein of u 89.7 1.2 2.5E-05 33.9 5.8 45 69-139 1-45 (45)
493 KOG0652 26S proteasome regulat 89.7 0.3 6.6E-06 50.7 3.4 20 421-440 208-227 (424)
494 COG5192 BMS1 GTP-binding prote 89.7 0.46 9.9E-06 54.1 5.1 23 422-444 73-95 (1077)
495 COG4178 ABC-type uncharacteriz 89.7 0.58 1.3E-05 55.0 6.2 37 542-578 533-572 (604)
496 PRK08154 anaerobic benzoate ca 89.6 0.52 1.1E-05 51.5 5.6 40 398-437 105-152 (309)
497 TIGR02322 phosphon_PhnN phosph 89.6 0.28 6E-06 48.8 3.1 23 420-443 3-25 (179)
498 TIGR00150 HI0065_YjeE ATPase, 89.5 0.64 1.4E-05 44.2 5.3 57 402-463 4-62 (133)
499 PRK05541 adenylylsulfate kinas 89.5 0.48 1E-05 47.0 4.8 23 420-442 9-31 (176)
500 PRK01184 hypothetical protein; 89.5 0.27 5.8E-06 49.2 3.0 15 420-434 3-17 (184)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=4.5e-93 Score=776.62 Aligned_cols=640 Identities=28% Similarity=0.400 Sum_probs=522.2
Q ss_pred CCCCeEEEEEEEecCCCceeeEEEEEEecCceEEEEEEEEEecchhc-cccCCCCCCCCccccccC----cccccccCCC
Q 038509 128 QPLRTLTIWLSCKPKEMGLHKSVVQFDIGDDRFERMVLLLAEDSVSR-SLASNRPYSRVPRKMQSA----VDEYVASSSP 202 (806)
Q Consensus 128 ~~g~~~~~~~~~~~~~~g~~~~~~~~~f~~~~i~r~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~----~~~~~~~~~~ 202 (806)
.-||++.+|++|.++++ |.++|.+.+-+-++.+.|+.+|+. +...++.|+..+ |.+.+ ...|+..+|.
T Consensus 115 ~lget~lecyncg~~nv------f~lGFi~~ksd~VVvllcr~pcas~s~~kd~Nwd~~q-w~~li~dr~~l~wivk~ps 187 (935)
T KOG1802|consen 115 PLGETVLECYNCGSRNV------FLLGFIPAKSDSVVVLLCRQPCASRSNLKDMNWDLSQ-WQPLIEDRCLLSWIVKVPS 187 (935)
T ss_pred CCCcceEEeeccCcchh------hhhcccccccCceEEEEecCcccccccCCCcCCChhh-ccchhhhhcccchhccCCc
Confidence 35999999999999999 999999999999999999999998 567788999888 54433 6678888888
Q ss_pred CcccchhhccccccccCCCCCCC--ChHHHHHHhcC----CCcchhcCCCCHHhHHHHHHHHHHHHHHHHHHHhhhcccc
Q 038509 203 ARTTTEARTTKRGSNYKLPEFPI--PNDVRESLANK----ILPQFLVEGLVRKNYFSFFSTLLVMEELRLEEDMRCHSME 276 (806)
Q Consensus 203 ~~~~~~~~~~~~~~~~~l~~~~~--p~~~~~~~~~~----~~~~~l~~~l~~~nY~~~f~~Ll~lEe~~~~~~~~~~~~~ 276 (806)
+....+||.++.++++++.+.|. |++..+.+.++ +.|++..++.+.+.|.+.|.+|+.+|.-....-...-..+
T Consensus 188 eqe~~~aR~iT~qqi~~~eelwr~np~at~~dl~kP~~d~~~~hv~~ry~da~~y~~vf~pliklea~ydk~~Kes~~q~ 267 (935)
T KOG1802|consen 188 EQEQLRARKITAQQIVKLEELWRKNPSATLEDLDKPGEDEEPPHVQLRYEDAYEYQNVFSPLIKLEADYDKRLKESQTQE 267 (935)
T ss_pred chhhhhhccccHHHHHHHHhhhccCCccchhhcCCcccccCCCcccccccchHHHhhhcchhhhhhhhhhhhhhhhcccc
Confidence 88788999999999999999997 88888888765 3577788899999999999999999975444333455678
Q ss_pred eeEEEEe----CcEEEEEEcCCCCCCCCCCCCCCEEEEEEcCCCCCceE--EEEEEEeC---CEEEEEeCCcccccccCC
Q 038509 277 CVTMRRK----GAHLLALDVPGLAERRPSLVHGDFVFVKLAAANADAKK--GSIYRVEA---DEVILKFAKEFHTQHRNG 347 (806)
Q Consensus 277 ~~~~~~~----g~~~l~l~vpgl~e~rp~l~~GD~v~v~~~~~~~~~~~--G~v~~v~~---~~v~l~~~~~~~~~~~~~ 347 (806)
+++.+|+ .+.+..+..|.+ ++...+..||.+.+++.+.....|+ |+|.++.. +++.|.+...-.......
T Consensus 268 ~~tvRW~~gLnkk~~a~f~~~k~-~~e~kl~~GdE~~L~y~~~~~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~p~e~~ 346 (935)
T KOG1802|consen 268 NGTVRWDIGLNKKRLAYFTLPKL-DSELKLAIGDEIRLTYSGGLVLPWNGIGSVLKIPDNNGDEVKLELEFSQDPPIEVT 346 (935)
T ss_pred cceEEeeeccccceEEEEecCCC-cchhccccCCeeEEEecCCcCCcccccceEEecCCCCcceeEEEeecCCCCCcccc
Confidence 8889887 445566777877 6667789999999999977655576 67777765 577776643322333345
Q ss_pred ceEEEEEEecchhHHHHHHHHHHhhc--------cCCceecCC-CCcccccccCCCCCCCC--CCCHHHHHHHHHHHhCC
Q 038509 348 SLYNVSFTYNRINMRRMYQAVQAAEN--------LEPNLLFPS-QSTKRRSIKAAPFVPFN--SLNEEQTRSVEIILGCK 416 (806)
Q Consensus 348 ~~~~v~f~~~r~~~~r~~~Al~~~~~--------l~~~~lfp~-~~~~~~~~~~~~~~~~~--~LN~eQ~~AV~~il~~~ 416 (806)
..|.|+|.|+-++|.||..|+..+.. +...+|+.. .........+..+...+ .||.+|..||+++|+
T Consensus 347 ~~Ftvd~vwk~ts~drm~~alk~la~D~~~vs~y~y~klLgh~~~~~~~k~~LP~~~s~~~lpkLN~SQ~~AV~~VL~-- 424 (935)
T KOG1802|consen 347 HGFTVDFVWKSTSFDRMQLALKLLAVDEKKVSGYLYHKLLGHPVEDSSLKKLLPRRFSVPNLPKLNASQSNAVKHVLQ-- 424 (935)
T ss_pred cceEEEEEEcCccHHHHHHHHHHhhhccccchhhhhhHHhcCcchhhhhcccCchhhcCCCchhhchHHHHHHHHHHc--
Confidence 67999999999999999999976431 112222221 11000111111222233 999999999999998
Q ss_pred CCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCCh
Q 038509 417 GAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPT 496 (806)
Q Consensus 417 ~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~ 496 (806)
.+..||+||||||||.|.++++.++++. ...+||||||||.|+|+|++++++.+ .+++|+.+.+|....-+.
T Consensus 425 -rplsLIQGPPGTGKTvtsa~IVyhl~~~-~~~~VLvcApSNiAVDqLaeKIh~tg------LKVvRl~aksRE~~~S~v 496 (935)
T KOG1802|consen 425 -RPLSLIQGPPGTGKTVTSATIVYHLARQ-HAGPVLVCAPSNIAVDQLAEKIHKTG------LKVVRLCAKSREDIESDV 496 (935)
T ss_pred -CCceeeecCCCCCceehhHHHHHHHHHh-cCCceEEEcccchhHHHHHHHHHhcC------ceEeeeehhhhhhccCCc
Confidence 4778999999999999999999999986 46799999999999999999999742 479999998875433222
Q ss_pred h---------------hhhhhchh----------hhh----ccCCchhhhccceeeeeeecccccccccCCcCCCCcEEE
Q 038509 497 D---------------FIRFCFFE----------ESI----FKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIF 547 (806)
Q Consensus 497 ~---------------~~~~~~~~----------~~~----~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~Vi 547 (806)
. +....... +.. .+....+.+..++||+|||.+++. ..+...+|..|+
T Consensus 497 s~L~lh~~~~~~~~pELq~l~klkde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd---~rl~~~kfr~VL 573 (935)
T KOG1802|consen 497 SFLSLHEQLRNMDKPELQKLLKLKDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAGD---RRLSKFKFRTVL 573 (935)
T ss_pred cHHHHHHHHhccCcHHHHHHHhhhhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEecccccc---hhhccccccEEE
Confidence 2 11111111 000 112234678899999999999987 344557899999
Q ss_pred EecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccC
Q 038509 548 LDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRC 627 (806)
Q Consensus 548 IDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs 627 (806)
||||.|++||++|+||...+ .++||||||+||+|+|....++..|+.+||||||+..+. ...+|..||||
T Consensus 574 iDEaTQatEpe~LiPlvlG~---kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~-------~P~~L~vQYRm 643 (935)
T KOG1802|consen 574 IDEATQATEPECLIPLVLGA---KQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGI-------KPIRLQVQYRM 643 (935)
T ss_pred EecccccCCcchhhhhhhcc---eeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhccC-------CceEEEEeeee
Confidence 99999999999999999643 469999999999999999999999999999999987532 24589999999
Q ss_pred hhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcC
Q 038509 628 HPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENT 707 (806)
Q Consensus 628 ~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~ 707 (806)
||.|.+|||++||+|.|.++.....+.....+..||.++.|+.|+...|.++...+++||.|..||..+.++|..|++.
T Consensus 644 hP~lSefpsn~fY~G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~~g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~- 722 (935)
T KOG1802|consen 644 HPALSEFPSNMFYEGELQNGVTEIERSPLGVDFPWPQPDKPLFFYVCYGQEEISASGTSFLNRTEAANCEKIITKLLKS- 722 (935)
T ss_pred ChhhhhcchhhhccchhhcCcchhhhccCCCCCCCCCCCCccceEEeccceeeeccccceecHHHHHHHHHHHHHHHHc-
Confidence 9999999999999999999988776665666777889999999999999999999999999999999999999999999
Q ss_pred CCCCCeEEEEcCChHHHHHHHHHhhcCC------CCCeEECcccccccceeeEEEEEeccCCCcCcccccccccccCCCC
Q 038509 708 ELNETDIGVITPYRQQVLKIKKVLETWD------MPDVKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFLSNP 781 (806)
Q Consensus 708 ~~~~~dIgIItPy~~Qv~~i~~~L~~~~------~~~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~ 781 (806)
|+.++.|||||||.+|...|-+.|...| +..|+|.|||+|||+|+|+||+||||++.. .++||+.|+
T Consensus 723 gv~~~qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~-------qgIGFl~d~ 795 (935)
T KOG1802|consen 723 GVKPSQIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEH-------QGIGFLNDP 795 (935)
T ss_pred CCCHHHeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccceEEEEEeecccc-------cccccccCc
Confidence 7999999999999999999999887654 246799999999999999999999999853 689999999
Q ss_pred CceeecccccccceEEEEccccccC
Q 038509 782 RRFNVAITRARSLLIIVGNPHIVCQ 806 (806)
Q Consensus 782 rrlnVAlTRAK~~LiIvGn~~~L~k 806 (806)
||||||+||||.+|+|||||.+|+|
T Consensus 796 RRlNVaLTRaK~glvivGN~~~L~k 820 (935)
T KOG1802|consen 796 RRLNVALTRAKYGLVIVGNPKVLRK 820 (935)
T ss_pred hhhhhhhhhcccceEEecCHHHhhh
Confidence 9999999999999999999999976
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.6e-74 Score=633.57 Aligned_cols=487 Identities=32% Similarity=0.484 Sum_probs=363.4
Q ss_pred cEEEEEEcCCCCCCCC--CCCCCCEEEEEEc--CC-CCCceEEEEEEEeCCEEEEEeCCcccccccCCceEEEEEEecch
Q 038509 285 AHLLALDVPGLAERRP--SLVHGDFVFVKLA--AA-NADAKKGSIYRVEADEVILKFAKEFHTQHRNGSLYNVSFTYNRI 359 (806)
Q Consensus 285 ~~~l~l~vpgl~e~rp--~l~~GD~v~v~~~--~~-~~~~~~G~v~~v~~~~v~l~~~~~~~~~~~~~~~~~v~f~~~r~ 359 (806)
..+..++.-+ +.-| ++..||.|.++.. +. .....+|.|+++..+.|.+.|.+........ ..+.+.-.-|..
T Consensus 58 ~~li~f~~~~--~~lp~~~~~~gd~v~lr~~~~~~~~~~~~~GvV~~~~~~~i~~a~ee~~d~~~~~-~~l~l~kl~n~v 134 (649)
T KOG1803|consen 58 KSLIVFSKNR--EVLPSNSFGPGDVVWLRTDKLNNKSKPCTEGVVYRVAEDSIDVAFEEEVDKPLTL-SSLRLLKLENKV 134 (649)
T ss_pred eEEEEeccCc--cccCcCCCCCCcEEEEEcccccccCcccccceeEeeccchhhHhHHhhhcccchh-hHHHHHHhhhhh
Confidence 3444554433 4444 6889999999844 22 2336899999999998888886654333211 123333445678
Q ss_pred hHHHHHHHHHHhhccCC--------ceecCCCCccccc-ccCCCCCCCC-CCCHHHHHHHHHHHhCCCCCCEEEEcCCCC
Q 038509 360 NMRRMYQAVQAAENLEP--------NLLFPSQSTKRRS-IKAAPFVPFN-SLNEEQTRSVEIILGCKGAPPYVIYGPPGT 429 (806)
Q Consensus 360 ~~~r~~~Al~~~~~l~~--------~~lfp~~~~~~~~-~~~~~~~~~~-~LN~eQ~~AV~~il~~~~~~~~lI~GPPGT 429 (806)
+++|+..++........ ..+|......+.. .......+++ .||.+|++||..+++.+ .+++|+|||||
T Consensus 135 ty~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~~~~~~~~~~~~ln~SQk~Av~~~~~~k--~l~~I~GPPGT 212 (649)
T KOG1803|consen 135 TYRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEIKKITFFNKNLNSSQKAAVSFAINNK--DLLIIHGPPGT 212 (649)
T ss_pred hheecHHHHhhHhhhcCccchhhhHHHHhccccCCCCchhhhcccccCCccccHHHHHHHHHHhccC--CceEeeCCCCC
Confidence 88888888755443111 1122211100110 1122345566 99999999999988754 57999999999
Q ss_pred ChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChhhhhh--------
Q 038509 430 GKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTDFIRF-------- 501 (806)
Q Consensus 430 GKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~-------- 501 (806)
|||+|+++.|.|+++ .+++||||||||.|+|+|.+||... ...++|++.+.|..+.+.....+.
T Consensus 213 GKT~TlvEiI~qlvk--~~k~VLVcaPSn~AVdNiverl~~~------~~~l~R~g~paRl~~~~~~~sld~~~~t~d~~ 284 (649)
T KOG1803|consen 213 GKTRTLVEIISQLVK--QKKRVLVCAPSNVAVDNIVERLTHL------KLNLVRVGHPARLLESVADHSLDLLSNTKDNS 284 (649)
T ss_pred CceeeHHHHHHHHHH--cCCeEEEEcCchHHHHHHHHHhccc------ccchhhcCchhhhhhhhhhhHHHHHHhcCchh
Confidence 999999999999998 4699999999999999999999742 336777777666443322211110
Q ss_pred ------------hchhh---------------------hhcc---CCchhhhccceeeeeeecccccccccCCcCCCCcE
Q 038509 502 ------------CFFEE---------------------SIFK---CPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSH 545 (806)
Q Consensus 502 ------------~~~~~---------------------~~~~---~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ 545 (806)
+.... ...+ ..-.+.+..++||++|..++.. .......||+
T Consensus 285 ~~~~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~---~~~~~~~fD~ 361 (649)
T KOG1803|consen 285 QNAKDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALD---RLLRKRTFDL 361 (649)
T ss_pred hhhhhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhh---hhhcccCCCE
Confidence 00000 0000 0012457789999999998876 3334467999
Q ss_pred EEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccc
Q 038509 546 IFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNY 625 (806)
Q Consensus 546 ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nY 625 (806)
+|||||+|++||++|+|+.. ..++||+|||+||||+|+|..+...|+..|+|+|+.+. + +....+.|+.||
T Consensus 362 vIIDEaaQamE~~cWipvlk----~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~--~---~~~~~~~Ln~QY 432 (649)
T KOG1803|consen 362 VIIDEAAQAMEPQCWIPVLK----GKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEK--F---GNLSKILLNEQY 432 (649)
T ss_pred EEEehhhhhccchhhhHHhc----CCceEEeCCcccCCcccccchhhhccchhhHHHHHHHH--c---ccchhhhhhhhh
Confidence 99999999999999999983 44799999999999999999999999999999999764 1 233567899999
Q ss_pred cChhHHHHhhhhhhcCCcccccCCccccc--cccccccCCCCCCCEEEEeccCcccccCC-----CCCccCHHHHHHHHH
Q 038509 626 RCHPAILDLPSKLFYGGELLACKDDATSL--SSAKVDIFPNKDFPVLFFGIQGCDEREGN-----NPSWFNRFEVSKVVD 698 (806)
Q Consensus 626 Rs~p~I~~~~n~lfY~~~L~~~~~~~~~~--~~~~~~~lp~~~~pv~f~~~~g~~~~~~~-----~~S~~N~~Ea~~V~~ 698 (806)
|||..|+.|+|..||+|++.+........ ..+....-+....|++|+++.|....+.. ..|++|..||+.|+.
T Consensus 433 RMn~~Im~wsn~~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~ 512 (649)
T KOG1803|consen 433 RMNEKIMNWSNEVFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVME 512 (649)
T ss_pred cchHHHhhCcHhhhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHH
Confidence 99999999999999999998876554332 01111222235679999999987654321 138899999999999
Q ss_pred HHHHHHHcCCCCCCeEEEEcCChHHHHHHHHHhhcCCCCCeEECcccccccceeeEEEEEeccCCCcCcccccccccccC
Q 038509 699 IINKLRENTELNETDIGVITPYRQQVLKIKKVLETWDMPDVKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFL 778 (806)
Q Consensus 699 ~v~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl 778 (806)
++..|+.. |++++||||||||++|+..+|.. ......+++|+|||+|||+|+|+||+|+||||.. ..+||+
T Consensus 513 Hv~~L~~~-gV~p~dIaVIsPY~aQv~llR~~-~~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k-------~evGFL 583 (649)
T KOG1803|consen 513 HVKRLLEA-GVQPSDIAVISPYNAQVSLLREE-DEEDFRDVEVGTVDGFQGREKDVVIFSLVRSNDK-------GEVGFL 583 (649)
T ss_pred HHHHHHHc-CCChhHeEEeccchHHHHHHhhc-ccccCccceeecccccccceeeEEEEEEEeecCc-------cccccc
Confidence 99999998 79999999999999999999933 3345677999999999999999999999999964 689999
Q ss_pred CCCCceeecccccccceEEEEcccccc
Q 038509 779 SNPRRFNVAITRARSLLIIVGNPHIVC 805 (806)
Q Consensus 779 ~~~rrlnVAlTRAK~~LiIvGn~~~L~ 805 (806)
.+.|||||||||||+++.||||..+|+
T Consensus 584 ~e~RRLNVAiTRaRRh~~vIgds~tl~ 610 (649)
T KOG1803|consen 584 GETRRLNVAITRARRHFVVIGDSRTLK 610 (649)
T ss_pred CCcceeeEEEEeccceEEEEcCcHHHH
Confidence 999999999999999999999999886
No 3
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=5.1e-69 Score=630.42 Aligned_cols=466 Identities=33% Similarity=0.490 Sum_probs=358.3
Q ss_pred CCCCCCCEEEEEEcCCCCCceEEEEEEEeCCEEEEEeCCcccccccCCceEEEEEEecchhHHHHHHHHHHhhccC---C
Q 038509 300 PSLVHGDFVFVKLAAANADAKKGSIYRVEADEVILKFAKEFHTQHRNGSLYNVSFTYNRINMRRMYQAVQAAENLE---P 376 (806)
Q Consensus 300 p~l~~GD~v~v~~~~~~~~~~~G~v~~v~~~~v~l~~~~~~~~~~~~~~~~~v~f~~~r~~~~r~~~Al~~~~~l~---~ 376 (806)
..+.+||.|.++..++....++|+|+++..+.|.+.|+..... + ....|.+++.+|.++|+||+.||..+.... .
T Consensus 56 ~~~~~GD~v~i~~~~~~~~~~~g~V~~v~~~~i~v~~~~~~~~-~-~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~~l~ 133 (637)
T TIGR00376 56 TEISVGDIVLVSRGNPLQSDLTGVVTRVGKRFITVALEESVPQ-W-SLKRVRIDLYANDVTFKRMKEALRALTENHSRLL 133 (637)
T ss_pred CcCCCCCEEEEecCCCCCCCcEEEEEEEcCcEEEEEECCCCCc-c-cCceEEEEEecCccHHHHHHHHHHHHHhchhhHH
Confidence 3688999999997766667789999999999999999875332 2 234599999999999999999998765322 2
Q ss_pred ceecCCCCcccccccCCCCCCCC-CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 377 NLLFPSQSTKRRSIKAAPFVPFN-SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 377 ~~lfp~~~~~~~~~~~~~~~~~~-~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
++|+..... ........+.+++ .||++|++||..++... +.++|+||||||||+|+++++.++++. +.+||+||
T Consensus 134 ~~llg~~~p-~~~~~~~~~~~~~~~ln~~Q~~Av~~~l~~~--~~~lI~GpPGTGKT~t~~~ii~~~~~~--g~~VLv~a 208 (637)
T TIGR00376 134 EFILGREAP-SKASEIHDFQFFDPNLNESQKEAVSFALSSK--DLFLIHGPPGTGKTRTLVELIRQLVKR--GLRVLVTA 208 (637)
T ss_pred HHHhCCCCC-CcccccccccccCCCCCHHHHHHHHHHhcCC--CeEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEEc
Confidence 355544321 1111223344555 89999999999998743 458999999999999999999998874 46999999
Q ss_pred cchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChhhhhhh-----------ch--------------------
Q 038509 456 ASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTDFIRFC-----------FF-------------------- 504 (806)
Q Consensus 456 pSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~-----------~~-------------------- 504 (806)
|||.|||++++||... ...++|+++..+....+......+. ..
T Consensus 209 ~sn~Avd~l~e~l~~~------~~~vvRlg~~~r~~~~~~~~sl~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 282 (637)
T TIGR00376 209 PSNIAVDNLLERLALC------DQKIVRLGHPARLLKSNKQHSLDYLIENHPKYQIVADIREKIDELIEERNKKLKPSPQ 282 (637)
T ss_pred CcHHHHHHHHHHHHhC------CCcEEEeCCchhcchhHHhccHHHHHhcChhHHHHHHHHHHHHHHHHHHHhhccchHh
Confidence 9999999999999863 3478898887763322111000000 00
Q ss_pred ------hhhhc----c-------------------------------------CCchhhhccceeeeeeecccccccccC
Q 038509 505 ------EESIF----K-------------------------------------CPPREALGRYRIIISTYMSSSLLNTNG 537 (806)
Q Consensus 505 ------~~~~~----~-------------------------------------~~~~~~L~~~~Vi~~T~~s~~~l~~~~ 537 (806)
+.... + ....+.+..++++++|+.+. .
T Consensus 283 ~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~v~~st~~~~------~ 356 (637)
T TIGR00376 283 KRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLLKLLPEIEERIENEILAESDVVQSTNSSA------G 356 (637)
T ss_pred HhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhCCEEEeccCcH------h
Confidence 00000 0 00013456677777665432 2
Q ss_pred CcCCCCcEEEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccc
Q 038509 538 IKRGNFSHIFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGY 617 (806)
Q Consensus 538 ~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~ 617 (806)
+....||+||||||+|++||++|+||.. ..++||||||+||||+|.+..+ .+++.|+|+||.... +..
T Consensus 357 l~~~~Fd~vIIDEAsQ~~ep~~lipl~~----~~~~vLvGD~~QLpP~v~s~~~--~~l~~SlferL~~~~------~~~ 424 (637)
T TIGR00376 357 LKGWEFDVAVIDEASQAMEPSCLIPLLK----ARKLILAGDHKQLPPTILSHDA--EELELTLFERLIKEY------PER 424 (637)
T ss_pred hccCCCCEEEEECccccchHHHHHHHhh----CCeEEEecChhhcCCccccccc--cccchhHHHHHHHhC------CCc
Confidence 3556899999999999999999999973 3479999999999999998763 478899999997641 223
Q ss_pred eecccccccChhHHHHhhhhhhcCCcccccCCcccccccccc--------ccCCCCCCCEEEEeccCccc---ccCCCCC
Q 038509 618 VTKLVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKV--------DIFPNKDFPVLFFGIQGCDE---REGNNPS 686 (806)
Q Consensus 618 v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~--------~~lp~~~~pv~f~~~~g~~~---~~~~~~S 686 (806)
...|..||||||+|++|+|++||+|.|.+........ ...+ ........|++|+++.|.+. ....+.|
T Consensus 425 ~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~-l~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~~e~~~~~~~S 503 (637)
T TIGR00376 425 SRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANIL-LRDLPKVEATDSEDDLETEIPLLFIDTSGCELFELKEADSTS 503 (637)
T ss_pred eeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhh-hhhcccccccccccccCCCCCEEEEECCCccccccccCCCCC
Confidence 6689999999999999999999999998755332211 1000 00113456999999998765 4456789
Q ss_pred ccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCChHHHHHHHHHhhcCCCCCeEECcccccccceeeEEEEEeccCCCcC
Q 038509 687 WFNRFEVSKVVDIINKLRENTELNETDIGVITPYRQQVLKIKKVLETWDMPDVKVGTVEQFQGQEREVIIVSTVRSTVKH 766 (806)
Q Consensus 687 ~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~vrs~~~~ 766 (806)
++|..||..|..++..+++. |+++.+||||+||++|+..|++.|...+ ..+.|+|||.|||+|+|+||+|+||++..
T Consensus 504 ~~N~~EA~~V~~~v~~l~~~-g~~~~~IgVItPY~aQv~~L~~~l~~~~-~~i~v~TVd~fQG~E~DvIi~S~vrsn~~- 580 (637)
T TIGR00376 504 KYNPGEAELVSEIIQALVKM-GVPANDIGVITPYDAQVDLLRQLLEHRH-IDIEVSSVDGFQGREKEVIIISFVRSNRK- 580 (637)
T ss_pred cCCHHHHHHHHHHHHHHHhc-CCCcceEEEEcccHHHHHHHHHHHHhhC-CCeEEccccccCCccccEEEEEEEecCCC-
Confidence 99999999999999999987 7899999999999999999999997644 56999999999999999999999999853
Q ss_pred cccccccccccCCCCCceeecccccccceEEEEccccccC
Q 038509 767 NEFDRTYCLGFLSNPRRFNVAITRARSLLIIVGNPHIVCQ 806 (806)
Q Consensus 767 ~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn~~~L~k 806 (806)
..+||+.++|||||||||||.+||||||+.+|++
T Consensus 581 ------~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~ 614 (637)
T TIGR00376 581 ------GEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSN 614 (637)
T ss_pred ------CCcccccCcceeeeehhhhhCceEEEECHHHhcc
Confidence 4689999999999999999999999999998863
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.1e-61 Score=552.11 Aligned_cols=369 Identities=30% Similarity=0.422 Sum_probs=303.6
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.||..|++|+..++.+++. .+|.|.|||||||||+.+|.-|+. .+++||++++||+|+|+|.-+|...+ .
T Consensus 669 ~LN~dQr~A~~k~L~aedy--~LI~GMPGTGKTTtI~~LIkiL~~--~gkkVLLtsyThsAVDNILiKL~~~~------i 738 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALAAEDY--ALILGMPGTGKTTTISLLIKILVA--LGKKVLLTSYTHSAVDNILIKLKGFG------I 738 (1100)
T ss_pred hcCHHHHHHHHHHHhccch--heeecCCCCCchhhHHHHHHHHHH--cCCeEEEEehhhHHHHHHHHHHhccC------c
Confidence 8999999999999998876 699999999999999999998887 57999999999999999999998642 2
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccC--CchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcch
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKC--PPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~--~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
.+.|++...+ +++++.++|..++...+. .-...+....||.|||.+... .-+...+||++|||||+|...|
T Consensus 739 ~~lRLG~~~k----ih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~---plf~~R~FD~cIiDEASQI~lP 811 (1100)
T KOG1805|consen 739 YILRLGSEEK----IHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGINH---PLFVNRQFDYCIIDEASQILLP 811 (1100)
T ss_pred ceeecCCccc----cchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCCc---hhhhccccCEEEEccccccccc
Confidence 4899998765 888888888533322111 113556788999999998874 2345568999999999999999
Q ss_pred hHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhh
Q 038509 558 ESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSK 637 (806)
Q Consensus 558 e~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~ 637 (806)
-++.||.. + .++||||||.||||.|.+..|+..|++.|+|+||... .|..+..|+.||||..+|+.++|.
T Consensus 812 ~~LgPL~~-s---~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~------hpeaV~~Lt~QYRMn~~I~~LSN~ 881 (1100)
T KOG1805|consen 812 LCLGPLSF-S---NKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEK------HPEAVSSLTLQYRMNREIMRLSNK 881 (1100)
T ss_pred hhhhhhhh-c---ceEEEecccccCCccccchhhhhcCcchHHHHHHhhh------CchHHHhHHHHHhhcchHHhhhhh
Confidence 99999983 3 4699999999999999999999999999999999763 356688999999999999999999
Q ss_pred hhcCCcccccCCccccc----------------ccccc-ccCCCCCCCEEEEeccCccc--ccCCCCCccCHHHHHHHHH
Q 038509 638 LFYGGELLACKDDATSL----------------SSAKV-DIFPNKDFPVLFFGIQGCDE--REGNNPSWFNRFEVSKVVD 698 (806)
Q Consensus 638 lfY~~~L~~~~~~~~~~----------------~~~~~-~~lp~~~~pv~f~~~~g~~~--~~~~~~S~~N~~Ea~~V~~ 698 (806)
+||+|+|..+.+...+. +...| ..+-.+..+++|..++.... ..+......|..||..+++
T Consensus 882 L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~~ie~~~e~~~i~N~~EA~li~~ 961 (1100)
T KOG1805|consen 882 LIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDTCSTIESQGEKGGITNHGEAKLISE 961 (1100)
T ss_pred heECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCcccchhhhccccCcCchhHHHHHHH
Confidence 99999998655433210 01111 22334556788866654322 2234445669999999999
Q ss_pred HHHHHHHcCCCCCCeEEEEcCChHHHHHHHHHhhcCCCCCeEECcccccccceeeEEEEEeccCCCcCcccccccccccC
Q 038509 699 IINKLRENTELNETDIGVITPYRQQVLKIKKVLETWDMPDVKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFL 778 (806)
Q Consensus 699 ~v~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl 778 (806)
.+..++.. |++++|||||+||++|+..|+..+.... ++|.|||+|||+++|+||+|+||++.+. ..-..|
T Consensus 962 ~~~~fv~s-Gv~~~dIGIis~YraQv~Li~~~l~~~~---lEinTVD~yQGRDKd~IivSfvrsn~~~------~~~eLL 1031 (1100)
T KOG1805|consen 962 LVEDFVKS-GVKPSDIGIISPYRAQVELIRKILSSAV---LEINTVDRYQGRDKDCIIVSFVRSNKKS------KVGELL 1031 (1100)
T ss_pred HHHHHHHc-CCCHHHeeeeehHHHHHHHHHhhccccc---eeeeehhhhcCCCCCEEEEEEEecCCcc------cHHHHH
Confidence 99999999 8999999999999999999999998743 9999999999999999999999998652 223478
Q ss_pred CCCCceeecccccccceEEEEcccccc
Q 038509 779 SNPRRFNVAITRARSLLIIVGNPHIVC 805 (806)
Q Consensus 779 ~~~rrlnVAlTRAK~~LiIvGn~~~L~ 805 (806)
.|+||+||||||||++||+||+..+|.
T Consensus 1032 kD~rRlNVAlTRAK~KLIlvGs~s~l~ 1058 (1100)
T KOG1805|consen 1032 KDWRRLNVALTRAKKKLILVGSKSTLE 1058 (1100)
T ss_pred HhhHHHHHHHHhhhceEEEEecccccc
Confidence 999999999999999999999987664
No 5
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.1e-61 Score=558.88 Aligned_cols=661 Identities=30% Similarity=0.324 Sum_probs=478.0
Q ss_pred eeEEecCCCCCCCCCCCcccccccccccCeeeCCCCeEEEEEEEecCCCceeeEEEEEEecCceEEEEEEEEEecchhcc
Q 038509 96 LTLSLMEPPSGKPDPQKDQGFLEGFSIEDRVLQPLRTLTIWLSCKPKEMGLHKSVVQFDIGDDRFERMVLLLAEDSVSRS 175 (806)
Q Consensus 96 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~g~~~~~~~~~f~~~~i~r~~~~~~~~~~~~~ 175 (806)
|+......+..+++...+..+...|.+..+...+|-.-. ..|++...+...-+..+++.++-+.|.--..+.......
T Consensus 24 ~~~~~~k~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 101 (775)
T KOG1804|consen 24 FYANGTKEAVYEADIEEKTKFVIYFRLSRLCEEEGVLQA--DIELEVELQFQLNRAPLCESSFAVERISDSTYKFPFSSL 101 (775)
T ss_pred cccccccccccccchhhceeEeeeeehhhhcccccCCCC--CCcchhhHHHhhhhhhhccccchhhhcccccceeeeecc
Confidence 444444444445556666666666776666555444333 566666666666666777777766665555444444443
Q ss_pred ccCCCCCCCCccccccCcc---cccccCCCCcccchhhccccccccCCCCCCCChHHHHHHhcCCCcchhcCCCCHHhHH
Q 038509 176 LASNRPYSRVPRKMQSAVD---EYVASSSPARTTTEARTTKRGSNYKLPEFPIPNDVRESLANKILPQFLVEGLVRKNYF 252 (806)
Q Consensus 176 l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~~~l~~~l~~~nY~ 252 (806)
+-...||...+ +...... ....|.-+.. . ...+....|.+.++....+.+ ++.+.....++.. .
T Consensus 102 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~------~-~~~l~e~~P~L~~G~~~~~~~---~~~~~~~~~~~~~--~ 168 (775)
T KOG1804|consen 102 LPSIEWYPEVQ-WAEKCEPRLNALQKGALLAI------T-VPLLRELPPSLLIGPGTGETL---ELAQAVKSLLQQE--E 168 (775)
T ss_pred CCCCCCccccc-cchhcchhhhhhhcccccce------e-ccccccCCcccccCCccccce---eecchhhcccccc--c
Confidence 33333333333 3322111 1222222211 1 123455555555554222221 2334444545555 7
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccceeEEEEeC---cEEEEEEcCCCCCCCCCCCCCCEEEEEEcC-CCCCceEEEEEEEe
Q 038509 253 SFFSTLLVMEELRLEEDMRCHSMECVTMRRKG---AHLLALDVPGLAERRPSLVHGDFVFVKLAA-ANADAKKGSIYRVE 328 (806)
Q Consensus 253 ~~f~~Ll~lEe~~~~~~~~~~~~~~~~~~~~g---~~~l~l~vpgl~e~rp~l~~GD~v~v~~~~-~~~~~~~G~v~~v~ 328 (806)
.++..++++|+. ++..++.|+++.+.+..+- .+++..++| +++.+|.+..+|+++-.... .....+.+..|+|.
T Consensus 169 ~k~~~~l~~~~~-~~~~ir~y~~~~v~~~~~~~~~~r~~~~~r~-l~~~~pvv~~~~~if~~~~~~~~pq~~~~~~Hrv~ 246 (775)
T KOG1804|consen 169 AKILILLHSESA-ADIYIREYLHPYVEEGLPEATPLRVYSRKRP-LAQVNPVVLQYCFIFDSHITFRRPQVEDLFKHRVV 246 (775)
T ss_pred ccceEeechhHH-HHHHHHHhhcccccccccccccccceeeccc-ccccCCceeeeeeeccchhhhccchhhhhccccee
Confidence 889999999998 9999999999888765431 267888899 99999999999998876542 22567888889988
Q ss_pred CCEEEEEeCCcccccccCCceEEEEEEecchhHHHHHHHHHHhhc-cCCceecCCCCcccccccCCCCC----CCC-CCC
Q 038509 329 ADEVILKFAKEFHTQHRNGSLYNVSFTYNRINMRRMYQAVQAAEN-LEPNLLFPSQSTKRRSIKAAPFV----PFN-SLN 402 (806)
Q Consensus 329 ~~~v~l~~~~~~~~~~~~~~~~~v~f~~~r~~~~r~~~Al~~~~~-l~~~~lfp~~~~~~~~~~~~~~~----~~~-~LN 402 (806)
-.++...+...+......+..+.+ .++|++..+. +...++||... .+.+...... .++ ...
T Consensus 247 ~~~~~~s~~~~~l~~~~~~~t~~~-----------~~eaae~~~~~~l~P~~~~~~~--~~~~L~~~~~ql~~~l~s~~~ 313 (775)
T KOG1804|consen 247 VVTLSQSQYLTPLGLPVGFFTHIL-----------LDEAAQAMECELLMPLALPSSG--TRIVLAGPHLQLTPFLNSVAR 313 (775)
T ss_pred EeecceeecccccCCCCCceeeee-----------HHHHHhcCCceeecccccCCCC--ceeeecccccccccchhhhhh
Confidence 777777776554443322222222 4455544331 22233444432 2222222211 122 333
Q ss_pred HHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEE
Q 038509 403 EEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEIL 482 (806)
Q Consensus 403 ~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~ 482 (806)
.+|..+ .+.++..+||+++||||||||.++++++.++....+...+++|+++|+|+|..+.|+... ..+......
T Consensus 314 ~~~~~~---~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~p--~~~~~~~~~ 388 (775)
T KOG1804|consen 314 EEQALH---LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHYP--LTFSTARGE 388 (775)
T ss_pred hhhhhh---hcccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccccccccccc--ccccccccc
Confidence 444444 667777789999999999999999999999988888899999999999999999998531 111111222
Q ss_pred EcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhHHHH
Q 038509 483 RLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPESMIP 562 (806)
Q Consensus 483 Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~ 562 (806)
+..+..+......+.+..++...+.++ .+..++++++||.+++.+...++..++|+|+++|||||++||+.+++
T Consensus 389 ~~~~~~~~~~~~~~~v~~~~~~~e~~~------~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~ 462 (775)
T KOG1804|consen 389 DVRAKSSTAWYNNAEVSEVVEKVEELR------KVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVP 462 (775)
T ss_pred cccccchhHHhhhHHHHHHHHHHHHHh------hccceEEEEeeccceeeeecccccccceeeeeecccccccCcccccc
Confidence 333333333333444444444444443 45789999999999999999999999999999999999999999999
Q ss_pred HhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCC-----CccceecccccccChhHHHHhhhh
Q 038509 563 IANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNG-----DEGYVTKLVRNYRCHPAILDLPSK 637 (806)
Q Consensus 563 L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~-----~~~~v~~L~~nYRs~p~I~~~~n~ 637 (806)
+..+.... ++||.|||+||+|+++|..+...|++.++|+|++....+... ++.+.++|..|||+||.|+.++|+
T Consensus 463 i~~~~~~~-~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~ 541 (775)
T KOG1804|consen 463 GKQFRQPF-QVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENR 541 (775)
T ss_pred ccccccee-EEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccc
Confidence 99887554 899999999999999999999999999999999877655443 667889999999999999999999
Q ss_pred hhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEE
Q 038509 638 LFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVI 717 (806)
Q Consensus 638 lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgII 717 (806)
+||+++|..+...........|..+ ++|+++.|.++++++++||+|+.||..|..+++.+.......+.|||||
T Consensus 542 l~y~~eL~~~~~~~~v~~~~~w~~l------iif~g~~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~~~~~~~DIgvi 615 (775)
T KOG1804|consen 542 LYYLGELTAEASEVDVRGLELWSGL------ILFYGAPGFTERAGNSPSWLNLEEAAVVVRMTKALPLGEVAQPQDIGVI 615 (775)
T ss_pred cccccceeeeccHHHHHHHHhcccc------eeccccccccccccCChhhccHHHHHHHHHHHhccCCCCccccccceee
Confidence 9999999998877655434455443 8999999999999999999999999999999999887766777899999
Q ss_pred cCChHHHHHHHHHhhcCCCCCeEECcccccccceeeEEEEEeccCCCcCcccccccccccCCCCCceeecccccccceEE
Q 038509 718 TPYRQQVLKIKKVLETWDMPDVKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLII 797 (806)
Q Consensus 718 tPy~~Qv~~i~~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiI 797 (806)
|||++|+++|+.++...++++++||+|+.|||+|+.+||+|+|||......+|..+.. |++++++||||+|||+..+++
T Consensus 616 tpy~aq~~~i~~~l~~~~~~~~~vgsVe~fqGqE~~viiiStVrS~~~~~~~~~~~~~-fls~pk~l~v~V~rp~~l~i~ 694 (775)
T KOG1804|consen 616 TPYTAQVSEIRKALRRLGVPGVKVGSVEEFQGQEPWVILGSTVRSFALPLLDDRYFGL-FLSRPKRLLVAVGRPRALLIN 694 (775)
T ss_pred CcHHHHHHHHHHHhcccCCCCCcccceeeeccccceeeEeecccccCCCcccccccce-eecCcccceeeccCccccccc
Confidence 9999999999999999999999999999999999999999999999988877766655 999999999999999999999
Q ss_pred EEcccccc
Q 038509 798 VGNPHIVC 805 (806)
Q Consensus 798 vGn~~~L~ 805 (806)
+||++.+.
T Consensus 695 ~~~~h~~~ 702 (775)
T KOG1804|consen 695 LGNPHLLG 702 (775)
T ss_pred cCCccccc
Confidence 99999875
No 6
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=1.3e-41 Score=378.08 Aligned_cols=262 Identities=27% Similarity=0.328 Sum_probs=213.6
Q ss_pred hccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecc-hhhhcC
Q 038509 517 LGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSK-DAETFG 595 (806)
Q Consensus 517 L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~-~a~~~g 595 (806)
++.++||..|..+++.... -+..-....|||.||+...|...+.++.. ...++||+|||+||.|.--.. .+..++
T Consensus 696 lR~a~vigmTTTgaaryr~-ilekv~pkivivEEAAEVlEahiIaal~p---~~EhviLIGDHKQLrP~~~vy~L~q~fn 771 (1025)
T KOG1807|consen 696 LREADVIGMTTTGAARYRF-ILEKVQPKIVIVEEAAEVLEAHIIAALTP---HTEHVILIGDHKQLRPFSGVYKLPQIFN 771 (1025)
T ss_pred hhccceeeeechhHHHHHH-HHHHhCCcEEEEhhHhHHhhcchhhhhcc---cceeEEEecchhhcCCCcchhhHhHhcc
Confidence 4567889888888765432 22334568999999999999876666653 345799999999999974433 345689
Q ss_pred CCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEecc
Q 038509 596 LGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQ 675 (806)
Q Consensus 596 l~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~ 675 (806)
+..|+||||...++ ...+|+.||||+|.|.++....||++-+. .. +...|+..++-+.-+.|+.+.
T Consensus 772 L~iSlFERLVe~gl-------pfsrLn~QhRM~p~IsrllvpsiYddl~d-~e------svk~yedI~gms~nlfFv~hn 837 (1025)
T KOG1807|consen 772 LSISLFERLVEAGL-------PFSRLNLQHRMRPCISRLLVPSIYDDLLD-SE------SVKEYEDIRGMSKNLFFVQHN 837 (1025)
T ss_pred hhHHHHHHHHHcCC-------ChhhhhHHhhhchHHHHHhhHHHhhhhhc-ch------hhccccccccccceeeEEecC
Confidence 99999999987543 35689999999999999999899987442 21 133455566666667777666
Q ss_pred CcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCChHHHHHHHHHhhcCCCCCeEECcccccccceeeEE
Q 038509 676 GCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPYRQQVLKIKKVLETWDMPDVKVGTVEQFQGQEREVI 755 (806)
Q Consensus 676 g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L~~~~~~~v~V~TVd~fQG~E~dvV 755 (806)
..++. .+..||.|.-||..++++++.|+.+ ++.++||.|+|+|.+|...|+++|.+.-...|.|.|||+|||.|.|+|
T Consensus 838 spee~-~de~S~~NlhEa~mlv~l~kyli~q-~y~psdIviLttY~gQk~ci~rllp~~~~stv~VatVDsfQGeEndIV 915 (1025)
T KOG1807|consen 838 SPEEC-MDEMSIGNLHEAGMLVKLTKYLIQQ-QYKPSDIVILTTYNGQKECIKRLLPQNYRSTVQVATVDSFQGEENDIV 915 (1025)
T ss_pred CcccC-cchhhhhhHHHHHHHHHHHHHHHhc-CCCccceEEEeechhHHHHHHHHhHHHhcCcceEEEeccccCccccEE
Confidence 55443 3448999999999999999999997 799999999999999999999999876667799999999999999999
Q ss_pred EEEeccCCCcCcccccccccccCCCCCceeecccccccceEEEEcccccc
Q 038509 756 IVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLIIVGNPHIVC 805 (806)
Q Consensus 756 IiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn~~~L~ 805 (806)
++|+|||+.. +.+|||..++|+.||+||||.+|+||||...|.
T Consensus 916 LlSLVRsn~~-------griGFL~~anRvCVALSRAr~glyiiGN~q~la 958 (1025)
T KOG1807|consen 916 LLSLVRSNIS-------GRIGFLRQANRVCVALSRARWGLYIIGNVQILA 958 (1025)
T ss_pred EEEEEeccCC-------ceeeeeeccchhhhhhhhhhcceEEecceeecc
Confidence 9999999853 579999999999999999999999999988765
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.1e-39 Score=397.80 Aligned_cols=378 Identities=34% Similarity=0.486 Sum_probs=284.8
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHH--HHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTM--TLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~--tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
.++..|..++...... ........|++|||||. ++.+.+.+..... ..+++.+++++.+++.+..++.... .
T Consensus 274 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~----~ 347 (767)
T COG1112 274 ELDNEQKLAVKRLLSL-NDLFLIHQGPFGTGKTRSVTILELIIELLENN-KLKILPTAESNAAVDNLLRRLKRTV----I 347 (767)
T ss_pred hccchhHHHHHHHhcc-cceeEeecCCCCCCcchHHHHHHHHHHHHHhc-ccceEEecCcccchhhHHHHHHhhc----c
Confidence 8899999999988875 33333445999999999 8888887777643 7899999999999999999997631 1
Q ss_pred cccEEEcccCCCCCCCCChhhh---------------------------------------hhhc---h------hh---
Q 038509 478 ENEILRLNATSRPYEDVPTDFI---------------------------------------RFCF---F------EE--- 506 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~---------------------------------------~~~~---~------~~--- 506 (806)
.....++....+....+..... ..+. . ..
T Consensus 348 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 427 (767)
T COG1112 348 KVELLRIGHPSRVLKKLKLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALR 427 (767)
T ss_pred ccceEEcCCcchhhhhhhhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhc
Confidence 1113333222211111000000 0000 0 00
Q ss_pred hh---------------------c-------cCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchh
Q 038509 507 SI---------------------F-------KCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPE 558 (806)
Q Consensus 507 ~~---------------------~-------~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe 558 (806)
.+ . ..........++++++|+..++... +....||++|||||+|+++|.
T Consensus 428 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~---~~~~~fd~viiDEAsQ~~~~~ 504 (767)
T COG1112 428 GILPALNKSEALWISLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSI---LKKYEFDYVIIDEASQATEPS 504 (767)
T ss_pred chhHHHHHHHHHHHhhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHH---hcccccCEEEEcchhcccchh
Confidence 00 0 0000112334568888888876532 222379999999999999999
Q ss_pred HHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhh
Q 038509 559 SMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKL 638 (806)
Q Consensus 559 ~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~l 638 (806)
+++|+.. ..++|++|||+||||++.+......++..++|+++..... .....|..|||||+.|+.|+|+.
T Consensus 505 ~~~~l~~----~~~~il~GD~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~------~~~~~L~~qyRm~~~i~~f~s~~ 574 (767)
T COG1112 505 ALIALSR----AKKVILVGDHKQLPPTVFFKESSPEGLSASLFERLIDNGP------EVVYLLRVQYRMHPDIIAFSSKV 574 (767)
T ss_pred HHHhHhh----cCeEEEecCCccCCCeecchhhcccchhHhHHHHHHHhCC------chheeeeeecccChhhhhCchhh
Confidence 9999985 4579999999999999988766667899999999977532 34568999999999999999999
Q ss_pred hcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEc
Q 038509 639 FYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVIT 718 (806)
Q Consensus 639 fY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIIt 718 (806)
||++.+.......................|+.|+++.+... ...+.+..|..||..+..++..+++. ++.+.+||||+
T Consensus 575 ~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~n~~e~~~~~~~~~~~~~~-~~~~~~igvis 652 (767)
T COG1112 575 FYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEE-FFESKSKLNELEAEIVKVIVDELLKD-GLEENDIGVIS 652 (767)
T ss_pred ccCCccccCcchhhhhhhccccccccccCceEEEEecCccc-ccCccceecHHHHHHHHHHHHHHHHc-CCcHHHcceec
Confidence 99999987765543321111111111356899999988876 56778999999999999999999998 68888899999
Q ss_pred CChHHHHHHHHHhhcCCCCCeEECcccccccceeeEEEEEeccCCCcCcccccccccccCCCCCceeecccccccceEEE
Q 038509 719 PYRQQVLKIKKVLETWDMPDVKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLIIV 798 (806)
Q Consensus 719 Py~~Qv~~i~~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIv 798 (806)
||++|+..|++.+...+ .++.|+|||.|||+|+|+||+|+||++... ..+||+.++||||||+||||++||||
T Consensus 653 ~y~~q~~~i~~~~~~~~-~~v~v~tvd~fQG~EkdvIi~S~v~s~~~~------~~i~~l~d~rRLNVAlTRAk~~livv 725 (767)
T COG1112 653 PYRAQVSLIRRLLNEAG-KGVEVGTVDGFQGREKDVIILSLVRSNDDK------GEIGFLGDPRRLNVALTRAKRKLIVV 725 (767)
T ss_pred ccHHHHHHHHHHHHhcC-CceEEeeccccCCccCcEEEEEEEeecCCC------ccccccCchhhhhhhhhcccceEEEE
Confidence 99999999999998776 789999999999999999999999998531 57999999999999999999999999
Q ss_pred Ecccccc
Q 038509 799 GNPHIVC 805 (806)
Q Consensus 799 Gn~~~L~ 805 (806)
|+...+.
T Consensus 726 g~~~~l~ 732 (767)
T COG1112 726 GSSSTLE 732 (767)
T ss_pred cChhHhh
Confidence 9876654
No 8
>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=3.6e-34 Score=291.92 Aligned_cols=193 Identities=37% Similarity=0.656 Sum_probs=138.1
Q ss_pred CCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEecc
Q 038509 596 LGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQ 675 (806)
Q Consensus 596 l~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~ 675 (806)
++.|+|+|+.... ....+.|.+||||||+|++|+|++||+|.|.......... .......+....|+.|+++.
T Consensus 1 ~~~Slferl~~~~------~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~i~v~ 73 (200)
T PF13087_consen 1 LDRSLFERLIKNG------SVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRP-APLLKLLPSPQNPIVFIDVS 73 (200)
T ss_dssp TTS-HHHHHHHCT----------EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS--T-----SSTTSSEEEEE--
T ss_pred CCccHHHHHHHcC------CCCceecccccCCCHHHHHHHHHHHhchhcccCccccccc-ccccccccCCCCceEEEecc
Confidence 4679999998753 2356789999999999999999999999998776544332 22234456677899999999
Q ss_pred CcccccCCC-CCccCHHHHHHHHHHHHHHHHcCCCC--CCeEEEEcCChHHHHHHHHHhhcCCCCC----eEECcccccc
Q 038509 676 GCDEREGNN-PSWFNRFEVSKVVDIINKLRENTELN--ETDIGVITPYRQQVLKIKKVLETWDMPD----VKVGTVEQFQ 748 (806)
Q Consensus 676 g~~~~~~~~-~S~~N~~Ea~~V~~~v~~L~~~~~~~--~~dIgIItPy~~Qv~~i~~~L~~~~~~~----v~V~TVd~fQ 748 (806)
+.......+ .|+.|..||..+++++..|....... +.+|||||||++|+..|++.|.+..... ++|+|||+||
T Consensus 74 ~~~~~~~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd~~Q 153 (200)
T PF13087_consen 74 GSESSSESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVDSFQ 153 (200)
T ss_dssp --EEEETTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHHHHT
T ss_pred cccccccccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHHHhc
Confidence 988766655 89999999999999999999874322 4899999999999999999999766554 9999999999
Q ss_pred cceeeEEEEEeccCCCcCcccccccccccCCCCCceeecccccccceEEEEccc
Q 038509 749 GQEREVIIVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLIIVGNPH 802 (806)
Q Consensus 749 G~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn~~ 802 (806)
|+|+|+||+|+|+++. ...+||+.+++|+|||+||||.+||||||++
T Consensus 154 G~E~diVi~s~v~~~~-------~~~~~f~~~~~r~nVA~SRAk~~liiig~~~ 200 (200)
T PF13087_consen 154 GQEADIVIVSLVRTNS-------SSNIGFLNDPNRLNVALSRAKSGLIIIGNPE 200 (200)
T ss_dssp T--EEEEEEEE---ST-------TS-SGGGC-HHHHHHHHTSEEEEEEEEE-H-
T ss_pred cccceEEEEEeccCCc-------cccccccCCcCeeeeeHHHHhcCEEEEecCC
Confidence 9999999999999973 2468999999999999999999999999974
No 9
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=99.97 E-value=5.9e-31 Score=316.15 Aligned_cols=269 Identities=33% Similarity=0.421 Sum_probs=215.8
Q ss_pred cceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCc
Q 038509 519 RYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGK 598 (806)
Q Consensus 519 ~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~ 598 (806)
.+.+|++|..+.+..... .....|+.++||||.|+.+|+.++||... ...+.+++||+.|||++|.+..+..+++..
T Consensus 514 ~a~~i~~t~~~~~~~~~~-~~~~p~~~vviDeaaq~~e~~s~~PL~l~--g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~ 590 (827)
T KOG1801|consen 514 EAALIVPTTRGSRIVLTL-YGGPPLDTVVIDEAAQKYEPSSLEPLQLA--GYQHCILVGDLAQLPATVHSSPAGCFKYMT 590 (827)
T ss_pred cceeEeecccccceEeec-ccCCCceEEEEehhhhhcCccchhhhhhc--CCceEEEecccccCChhhccchhccccchh
Confidence 677888888766652221 23457999999999999999999999864 234689999999999999999999999999
Q ss_pred cHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcc
Q 038509 599 SYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCD 678 (806)
Q Consensus 599 Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~ 678 (806)
|+|+|+...... ...|+.+|||||+|..|+|+.||++.+..............|. ......|+.|+++.-..
T Consensus 591 slf~rl~l~~~~-------~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~-~~~~~~~y~f~~v~~g~ 662 (827)
T KOG1801|consen 591 SLFERLELAGHK-------TLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWH-SGETFGPYPFFNVHYGK 662 (827)
T ss_pred hHHHHHHHccCc-------cceecceeecCCccccCccccccccccccCcccchhhccccCc-CCCccCceEEEEecccc
Confidence 999999764321 2269999999999999999999999887666554332122222 22334588888887444
Q ss_pred cccCCCCCccCHHHHHHHHHHHHHHHHc---CCCCCCeEEEEcCChHHHHHHHHHhhcC------CCCCeEECccccccc
Q 038509 679 EREGNNPSWFNRFEVSKVVDIINKLREN---TELNETDIGVITPYRQQVLKIKKVLETW------DMPDVKVGTVEQFQG 749 (806)
Q Consensus 679 ~~~~~~~S~~N~~Ea~~V~~~v~~L~~~---~~~~~~dIgIItPy~~Qv~~i~~~L~~~------~~~~v~V~TVd~fQG 749 (806)
++.+.+.|..|..|+..+..++..+.+. ....+..+|||+||+.|+..+++..... +..++.+.|||.|||
T Consensus 663 e~~~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg 742 (827)
T KOG1801|consen 663 ERAGGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQG 742 (827)
T ss_pred cccCCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccC
Confidence 4455558999999999999999988763 2233778999999999999998877542 125789999999999
Q ss_pred ceeeEEEEEeccCCCcCcccccccccccCCCCCceeecccccccceEEEEcccccc
Q 038509 750 QEREVIIVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLIIVGNPHIVC 805 (806)
Q Consensus 750 ~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn~~~L~ 805 (806)
+|.|++|+|+||++.. ..+||+.+.+|+|||+||||..++++||...|.
T Consensus 743 ~e~diii~s~vrs~~~-------g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~ 791 (827)
T KOG1801|consen 743 GERDIIIISTVRSIDE-------GSIGFECNLRRLNVALTRARTCFWLVGNEITLA 791 (827)
T ss_pred CCCceeEEEEEEeccc-------CccchhhhHHHHHHhhcccccceEEecCccccc
Confidence 9999999999999753 458999999999999999999999999998875
No 10
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.97 E-value=7e-31 Score=315.97 Aligned_cols=283 Identities=19% Similarity=0.219 Sum_probs=170.1
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhcccc---
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLISNEV--- 473 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~~~~--- 473 (806)
+.||++|++||.+. .+|++|.|+||||||+||+.+|++|+... ++.+||++||||+||++|.+|+.+...
T Consensus 3 ~~Ln~~Q~~av~~~-----~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~~ 77 (715)
T TIGR01075 3 DGLNDKQREAVAAP-----PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSA 77 (715)
T ss_pred cccCHHHHHHHcCC-----CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcccc
Confidence 47999999999752 36799999999999999999999999742 788999999999999999999976421
Q ss_pred cCcccccEEEcccC-----------CCCCCCCChh-----hhhhh---chhh-----------------------hhccC
Q 038509 474 AGIKENEILRLNAT-----------SRPYEDVPTD-----FIRFC---FFEE-----------------------SIFKC 511 (806)
Q Consensus 474 ~~~~~~~i~Rl~~~-----------~r~~~~i~~~-----~~~~~---~~~~-----------------------~~~~~ 511 (806)
..+..+++|.++.. ...+.-+... +.... ...+ .....
T Consensus 78 ~~~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~ 157 (715)
T TIGR01075 78 RGMWIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAMWYINNQKDEGLRPSHIQAF 157 (715)
T ss_pred cCcEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHCCCCHHHHHhc
Confidence 11222333322110 0000000100 00000 0000 00000
Q ss_pred --Cch----hhhccc-------------eeeeeeecccc-cccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcccCCC
Q 038509 512 --PPR----EALGRY-------------RIIISTYMSSS-LLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLCTKQT 571 (806)
Q Consensus 512 --~~~----~~L~~~-------------~Vi~~T~~s~~-~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~ 571 (806)
... .....| +++..+..... ..........+|+||+|||+ ||++|.++..|..++..+.
T Consensus 158 ~~~~~~~~~~iy~~Y~~~~~~~~~lDfdDll~~~~~lL~~~~~~~~~~~~~~~~ilVDEf-QDtn~~Q~~ll~~L~~~~~ 236 (715)
T TIGR01075 158 DNPVERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEF-QDTNKIQYAWIRLLAGNTG 236 (715)
T ss_pred cChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEcc-ccCCHHHHHHHHHHhCCCC
Confidence 000 000000 00000000000 00000012358999999999 9999999999998887778
Q ss_pred EEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCcc
Q 038509 572 VVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDA 651 (806)
Q Consensus 572 ~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~ 651 (806)
++++|||++| .||+|++++. ..+.++... + .......|..||||+++|++++|.++-.+.-....
T Consensus 237 ~l~vVGD~~Q---sIY~fRGA~~----~~i~~f~~~--~---~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~--- 301 (715)
T TIGR01075 237 NVMIVGDDDQ---SIYGWRGAQV----ENIQKFLKD--F---PGAETIRLEQNYRSTANILAAANALIANNDERLGK--- 301 (715)
T ss_pred eEEEEeCCcc---cccccCCCCH----HHHHHHHHh--C---CCCeEEECcccCCCCHHHHHHHHHHHHhccccccc---
Confidence 9999999999 9999996554 344443321 1 11235679999999999999999988543211100
Q ss_pred ccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCCh
Q 038509 652 TSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPYR 721 (806)
Q Consensus 652 ~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~ 721 (806)
..+.. ...+.++.++.... ...||..|++.|..++.. |.+++||+||++.+
T Consensus 302 -----~~~~~-~~~g~~i~~~~~~~------------~~~Ea~~ia~~I~~l~~~-g~~~~diAVL~R~~ 352 (715)
T TIGR01075 302 -----NLWTD-GEVGEPISLYSAFN------------ELDEARFVVSRIKTWQRN-GGALDECAVLYRSN 352 (715)
T ss_pred -----cccCC-CCCCCceEEEeCCC------------HHHHHHHHHHHHHHHHHc-CCCccCEEEEEecC
Confidence 00100 01122333332211 235899999999999877 68899999998754
No 11
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.97 E-value=1.1e-30 Score=313.99 Aligned_cols=284 Identities=19% Similarity=0.214 Sum_probs=170.6
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHh--CCCCeEEEEecchHHHHHHHHHHhcccc--
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYST--REHSRILVCAASNSAADHMLERLISNEV-- 473 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~--~~~~rILv~apSN~Aad~l~erL~~~~~-- 473 (806)
++.||++|++||.+. .+|++|.|+||||||+||+++|++|+.. .++.+||++||||+||++|.+|+.+...
T Consensus 7 l~~Ln~~Q~~av~~~-----~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~ 81 (721)
T PRK11773 7 LDSLNDKQREAVAAP-----LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTS 81 (721)
T ss_pred HHhcCHHHHHHHhCC-----CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccC
Confidence 347999999999752 3579999999999999999999999974 3788999999999999999999976321
Q ss_pred -cCcccccEEEcccC-----------CCCCCCCChh-----hhhhhc---hh-----------------h------hhcc
Q 038509 474 -AGIKENEILRLNAT-----------SRPYEDVPTD-----FIRFCF---FE-----------------E------SIFK 510 (806)
Q Consensus 474 -~~~~~~~i~Rl~~~-----------~r~~~~i~~~-----~~~~~~---~~-----------------~------~~~~ 510 (806)
..+..+++|.++.. ...+.-+... +..... .. + ....
T Consensus 82 ~~~~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~ 161 (721)
T PRK11773 82 QGGMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDEGLRPQHIQS 161 (721)
T ss_pred CCCCEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHcCCCHHHHHh
Confidence 11222333332210 0000000000 000000 00 0 0000
Q ss_pred --CCch----hh-------hcc------ceeeeeeecccc-cccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcccCC
Q 038509 511 --CPPR----EA-------LGR------YRIIISTYMSSS-LLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLCTKQ 570 (806)
Q Consensus 511 --~~~~----~~-------L~~------~~Vi~~T~~s~~-~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~ 570 (806)
.+.. .. +.. .+++..++.... ..........+|+||+|||+ ||++|.++..|..++..+
T Consensus 162 ~~~~~~~~~~~iy~~Y~~~~~~~~~~DfdDll~~~~~lL~~~~~~~~~~~~~~~~IlVDEf-QDtn~~Q~~ll~~L~~~~ 240 (721)
T PRK11773 162 YGDPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEF-QDTNAIQYAWIRLLAGDT 240 (721)
T ss_pred ccChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEch-hcCCHHHHHHHHHHhCCC
Confidence 0000 00 000 000100000000 00000112357999999999 999999999999888777
Q ss_pred CEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCc
Q 038509 571 TVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDD 650 (806)
Q Consensus 571 ~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~ 650 (806)
.++++|||++| .||+|+++.. ..+.++... + .......|.+||||+++|++++|.++-++......
T Consensus 241 ~~l~vVGD~dQ---sIY~fRGA~~----~~~~~f~~~--~---~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k-- 306 (721)
T PRK11773 241 GKVMIVGDDDQ---SIYGWRGAQV----ENIQRFLND--F---PGAETIRLEQNYRSTANILKAANALIANNNGRLGK-- 306 (721)
T ss_pred CeEEEEecCcc---cccccCCCCh----HHHHHHHHh--C---CCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCc--
Confidence 89999999999 9999996544 344444221 1 12235679999999999999999988543211100
Q ss_pred cccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCCh
Q 038509 651 ATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPYR 721 (806)
Q Consensus 651 ~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~ 721 (806)
..+.. ...+.++.++... -...||..|++.|..++.. |.+++||+||++.+
T Consensus 307 ------~~~~~-~~~g~~v~~~~~~------------~~~~Ea~~ia~~I~~l~~~-g~~~~diAVL~R~~ 357 (721)
T PRK11773 307 ------ELWTD-GGDGEPISLYCAF------------NELDEARFVVERIKTWQDN-GGALSDCAILYRSN 357 (721)
T ss_pred ------ccccC-CCCCCeeEEEeCC------------CHHHHHHHHHHHHHHHHHc-CCCcccEEEEEecc
Confidence 00000 0111233332211 1235899999999999877 68899999998754
No 12
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.97 E-value=1e-30 Score=315.33 Aligned_cols=284 Identities=19% Similarity=0.211 Sum_probs=172.0
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhcccc---
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLISNEV--- 473 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~~~~--- 473 (806)
..||++|++||.+. .+|++|.|+||||||+||+++|.+++... ++.+||++||||+||.+|.+|+.+...
T Consensus 3 ~~Ln~~Q~~av~~~-----~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~ 77 (726)
T TIGR01073 3 AHLNPEQREAVKTT-----EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVA 77 (726)
T ss_pred cccCHHHHHHHhCC-----CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhcccc
Confidence 47999999999752 36799999999999999999999999743 678999999999999999999975311
Q ss_pred cCcccccEEEcccC-----------CCCCCCCChh----hh-hhhc--------------------hhhhh------ccC
Q 038509 474 AGIKENEILRLNAT-----------SRPYEDVPTD----FI-RFCF--------------------FEESI------FKC 511 (806)
Q Consensus 474 ~~~~~~~i~Rl~~~-----------~r~~~~i~~~----~~-~~~~--------------------~~~~~------~~~ 511 (806)
..+...++|+++.. ...+.-+... +. .... ..... ...
T Consensus 78 ~~~~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~ 157 (726)
T TIGR01073 78 EDIWISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNELLPPEDFAKE 157 (726)
T ss_pred CCcEEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHcCCCHHHHHHh
Confidence 12223344433211 0111101100 00 0000 00000 000
Q ss_pred C-c--h----hhhccc-------------eeeeeeecccc-cccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcccCC
Q 038509 512 P-P--R----EALGRY-------------RIIISTYMSSS-LLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLCTKQ 570 (806)
Q Consensus 512 ~-~--~----~~L~~~-------------~Vi~~T~~s~~-~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~ 570 (806)
. . . .....| +++..+..... ..........+|+||+|||+ ||+.+.++..|..++...
T Consensus 158 ~~~~~~~~~~~iy~~Y~~~l~~~~~lDfdDll~~~~~lL~~~~~v~~~~~~~~~~IlVDEf-QDtn~~Q~~ll~~L~~~~ 236 (726)
T TIGR01073 158 ATNYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEY-QDTNRAQYTLVRLLASRF 236 (726)
T ss_pred hcchHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEcc-ccCCHHHHHHHHHHhCCC
Confidence 0 0 0 000000 00000000000 00000011248999999999 999999999988888777
Q ss_pred CEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCc
Q 038509 571 TVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDD 650 (806)
Q Consensus 571 ~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~ 650 (806)
.++++|||++| .||+|+++.. ..+.++... + ....+..|.+||||+++|++++|.++-.+.-...
T Consensus 237 ~~l~vVGD~~Q---sIY~fRgA~~----~~~~~f~~~--~---~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~--- 301 (726)
T TIGR01073 237 RNLCVVGDADQ---SIYGWRGADI----QNILSFEKD--Y---PNATTILLEQNYRSTKNILQAANEVIEHNSNRKP--- 301 (726)
T ss_pred CEEEEEeCCCc---cccccCCCCh----HHHHHHHHh--C---CCCeEEECccCCCCCHHHHHHHHHHHHhcccccc---
Confidence 78999999999 9999986543 344443221 1 1223567999999999999999998854321100
Q ss_pred cccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCCh
Q 038509 651 ATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPYR 721 (806)
Q Consensus 651 ~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~ 721 (806)
...+...+ .+.++.++.... ...||..|+..|.+++..++++++||+||++.+
T Consensus 302 -----~~l~~~~~-~g~~v~~~~~~~------------~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~ 354 (726)
T TIGR01073 302 -----KNLWTENS-SGDKITYYEADT------------ERDEAQFVAGEIDKLVKNGERKYGDFAILYRTN 354 (726)
T ss_pred -----cccccCCC-CCcceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCc
Confidence 00011111 122344433211 235899999999999887667999999999865
No 13
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.97 E-value=1.2e-30 Score=310.29 Aligned_cols=283 Identities=17% Similarity=0.178 Sum_probs=164.1
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHh--CCCCeEEEEecchHHHHHHHHHHhcccc----
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYST--REHSRILVCAASNSAADHMLERLISNEV---- 473 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~--~~~~rILv~apSN~Aad~l~erL~~~~~---- 473 (806)
.||++|++||.+. .+|++|.|+||||||+||+.+|++++.. .++.+||++||||+||++|.+|+.....
T Consensus 2 ~Ln~~Q~~av~~~-----~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~ 76 (672)
T PRK10919 2 RLNPGQQQAVEFV-----TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEA 76 (672)
T ss_pred CCCHHHHHHHhCC-----CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccc
Confidence 5999999999752 3679999999999999999999999974 2678999999999999999999975311
Q ss_pred cCcccccEEEcccC-----------CCCCCCCChh----h-hh----h---------------hchhhhhcc--------
Q 038509 474 AGIKENEILRLNAT-----------SRPYEDVPTD----F-IR----F---------------CFFEESIFK-------- 510 (806)
Q Consensus 474 ~~~~~~~i~Rl~~~-----------~r~~~~i~~~----~-~~----~---------------~~~~~~~~~-------- 510 (806)
..+..+++|.++.. ...+.-+.+. + .. + +.+.+....
T Consensus 77 ~~v~i~TfHS~~~~iLr~~~~~~g~~~~~~i~d~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~ 156 (672)
T PRK10919 77 RGLMISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKNDLKTPAQAAAGA 156 (672)
T ss_pred cCcEEEcHHHHHHHHHHHHHHHhCCCCCCeeCCHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHcCCCHHHHHHHh
Confidence 11223333332210 0011101100 0 00 0 000000000
Q ss_pred CCc-h----hhhccc-------------eeeeeeeccc-ccccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcccCCC
Q 038509 511 CPP-R----EALGRY-------------RIIISTYMSS-SLLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLCTKQT 571 (806)
Q Consensus 511 ~~~-~----~~L~~~-------------~Vi~~T~~s~-~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~ 571 (806)
... . ..+..| +++.-+.... ...........+|+||+|||+ ||+++.++..|..++..+.
T Consensus 157 ~~~~~~~~~~~~~~Ye~~l~~~~~lDf~Dll~~~~~ll~~~~~~~~~~~~~~~~ilVDE~-QDtn~~Q~~ll~~l~~~~~ 235 (672)
T PRK10919 157 KGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEY-QDTNTSQYELVKLLVGSRA 235 (672)
T ss_pred cchhHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCHHHHHHHHhcCCEEEEEch-hcCCHHHHHHHHHHHcCCC
Confidence 000 0 000000 0000000000 000000112357999999999 9999999999998887778
Q ss_pred EEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCcc
Q 038509 572 VVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDA 651 (806)
Q Consensus 572 ~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~ 651 (806)
++++|||++| .||+|+++. ...+.++... | ....+..|.+||||+++|++++|.++-++.-... .
T Consensus 236 ~l~~VGD~~Q---sIY~frGA~----~~~~~~f~~~--~---~~~~~~~L~~NyRs~~~I~~~an~li~~n~~~~~--k- 300 (672)
T PRK10919 236 RFTVVGDDDQ---SIYSWRGAR----PQNLVLLSQD--F---PALQVIKLEQNYRSSGRILKAANILIANNPHVFE--K- 300 (672)
T ss_pred EEEEEcCCcc---cccccCCCC----hHHHHHHHHh--C---CCCcEEECCCCCCCcHHHHHHHHHHHhhCccccc--c-
Confidence 8999999999 999999654 4455444321 1 1223567999999999999999998854321100 0
Q ss_pred ccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCCh
Q 038509 652 TSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPYR 721 (806)
Q Consensus 652 ~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~ 721 (806)
. .+...+ .+.++.++.... ...||..|+..+.......+++.+||+||++.+
T Consensus 301 -~----~~~~~~-~g~~~~~~~~~~------------~~~ea~~i~~~i~~~~~~~~~~~~diAVL~Rs~ 352 (672)
T PRK10919 301 -R----LFSELG-YGDELKVLSANN------------EEHEAERVTGELIAHHFVNKTQYKDYAILYRGN 352 (672)
T ss_pred -c----cccCCC-CCCceEEEcCCC------------HHHHHHHHHHHHHHHHHhcCCCcCcEEEEEeCc
Confidence 0 000111 112233332211 124777776655443323367888899988754
No 14
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.97 E-value=3.3e-30 Score=304.06 Aligned_cols=356 Identities=18% Similarity=0.222 Sum_probs=210.7
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhcccc-cCc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLISNEV-AGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~~~~-~~~ 476 (806)
.||++|++||... .++++|.|+||||||+|+++++.+++... ++.+||++||||.||++|.+||..... ..+
T Consensus 196 ~L~~~Q~~av~~~-----~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg~~~v 270 (684)
T PRK11054 196 PLNPSQARAVVNG-----EDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGTEDI 270 (684)
T ss_pred CCCHHHHHHHhCC-----CCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcCCCCc
Confidence 6999999999742 24589999999999999999999999754 578999999999999999999976321 123
Q ss_pred ccccEEEcccC-------C-CCCCCC--Ch---------hhhhhhchhh--------------------hhcc-------
Q 038509 477 KENEILRLNAT-------S-RPYEDV--PT---------DFIRFCFFEE--------------------SIFK------- 510 (806)
Q Consensus 477 ~~~~i~Rl~~~-------~-r~~~~i--~~---------~~~~~~~~~~--------------------~~~~------- 510 (806)
...++|.++.. . ..+..+ .. .+...+.... ..+.
T Consensus 271 ~v~TFHSlal~Il~~~~~~~p~~s~~~~d~~~~~~~l~~~~~~~~~~~~~~~k~~~~wl~~~~~~~~~~~~~~~~~~~~~ 350 (684)
T PRK11054 271 TARTFHALALHIIQQGSKKVPVISKLENDSKARHALLIAEWRKQCSEKKAQAKGWRQWLTEELQWDVPEGNFWDDEKLQR 350 (684)
T ss_pred EEEeHHHHHHHHHHHhhhcCCCcCccccchHHHHHHHHHHHHHHhhhcccchhhhhhcchHHhhhcccchhhhhhhhHHH
Confidence 33444433210 0 000000 00 0000000000 0000
Q ss_pred -----------------CCchhhhccce----------e-eeeee--------cccccc------------cccCCcCCC
Q 038509 511 -----------------CPPREALGRYR----------I-IISTY--------MSSSLL------------NTNGIKRGN 542 (806)
Q Consensus 511 -----------------~~~~~~L~~~~----------V-i~~T~--------~s~~~l------------~~~~~~~~~ 542 (806)
....+.+.... . .+..+ ...+.+ ...+-....
T Consensus 351 ~l~~~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~l~~iy~~Ye~~L~~~~~iDf~Dml~~A~~lL~~~~~~~~ 430 (684)
T PRK11054 351 RLASRLERWVSLMRMHGGSQAEMIAQAPEEVRDLFQKRLKLMAPLLKAWKKALKAENAVDFSGLIHQAVNYLEKGRFISP 430 (684)
T ss_pred HHHHHHHHHHHHHHhcCCCHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhhhhhhc
Confidence 00000000000 0 00000 000000 000011235
Q ss_pred CcEEEEecCCCCcchhHHHHHhhccc--CCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceec
Q 038509 543 FSHIFLDEAGQASEPESMIPIANLCT--KQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTK 620 (806)
Q Consensus 543 Fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~ 620 (806)
|+||+|||+ ||+.|.++..|..++. ++.++++|||+.| .||++++++. +++..+... +. ......
T Consensus 431 ~~~IlVDE~-QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~Q---sIY~frGa~~----~~~~~f~~~--f~---~~~~~~ 497 (684)
T PRK11054 431 WKHILVDEF-QDISPQRAALLAALRKQNSQTTLFAVGDDWQ---AIYRFSGADL----SLTTAFHER--FG---EGDRCH 497 (684)
T ss_pred ccEEEEEcc-ccCCHHHHHHHHHHhccCCCCeEEEEECCCc---cccccCCCCh----HHHHHHHhh--cC---CCeEEE
Confidence 999999999 9999999999988864 3568999999999 9999986544 344443221 11 123567
Q ss_pred ccccccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHH
Q 038509 621 LVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDII 700 (806)
Q Consensus 621 L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v 700 (806)
|.+||||+++|++++|.++-.+.-. .. ...........|.+.... ..+.+.+++.+
T Consensus 498 L~~nYRs~~~I~~~An~~i~~n~~~-~~--------k~l~s~~~g~~p~v~~~~---------------~~~~~~il~~l 553 (684)
T PRK11054 498 LDTTYRFNSRIGEVANRFIQQNPHQ-LK--------KPLNSLTKGDKKAVTLLP---------------EDQLEALLDKL 553 (684)
T ss_pred eCCCCCCCHHHHHHHHHHHHhCccc-cC--------CcccccCCCCCceEEEeC---------------CHHHHHHHHHH
Confidence 9999999999999999976332110 00 000111122233332211 02455566666
Q ss_pred HHHHHcCCCCCCeEEEEcCChHHHHHHHHHhh-cCCCCCeEECcccccccceeeEEEEEeccCCCcCccccc--------
Q 038509 701 NKLRENTELNETDIGVITPYRQQVLKIKKVLE-TWDMPDVKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDR-------- 771 (806)
Q Consensus 701 ~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L~-~~~~~~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~-------- 771 (806)
..+.. +..+|+||++|+.+...+-+.+. .....+|.+.|+|.+||+|+|.|||..+.+...+.+...
T Consensus 554 ~~~~~----~~~~I~IL~R~~~~~~~~l~~~~~~~~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~ 629 (684)
T PRK11054 554 SGYAK----PDERILLLARYHHLRPALLDKAATRWPKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEA 629 (684)
T ss_pred HHhhc----CCCcEEEEEechhhHHHHHHHHHhhcccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhc
Confidence 55543 35799999999988765544443 233346999999999999999999987754321111000
Q ss_pred ----ccccccCCCCCceeecccccccceEEEEcc
Q 038509 772 ----TYCLGFLSNPRRFNVAITRARSLLIIVGNP 801 (806)
Q Consensus 772 ----~~~lgfl~~~rrlnVAlTRAK~~LiIvGn~ 801 (806)
....-.-.++|.||||+||||+.|+|+.+.
T Consensus 630 ~~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~ 663 (684)
T PRK11054 630 LLPPPEDFPDAEERRLLYVALTRAKHRVWLLFNK 663 (684)
T ss_pred ccccccccccHHHHHHHHHHhhhhhcEEEEEEcC
Confidence 000011235789999999999999999873
No 15
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.95 E-value=1e-27 Score=249.12 Aligned_cols=181 Identities=36% Similarity=0.522 Sum_probs=108.2
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH------HhCCCCeEEEEecchHHHHHHHHHHhc-c-
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY------STREHSRILVCAASNSAADHMLERLIS-N- 471 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll------~~~~~~rILv~apSN~Aad~l~erL~~-~- 471 (806)
.||++|++||.+++.... ..+|+||||||||+|++.++..++ ....+.+||+||+||.|+|++.+++.+ .
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~ 78 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLD 78 (236)
T ss_dssp ---HHHHHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC---
T ss_pred CCCHHHHHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhcc
Confidence 489999999999998433 489999999999999999999884 245889999999999999999999987 1
Q ss_pred cccCcccccEEEcccCCCCCCCCChhhhhhhchh------------------------------h--hhccC--------
Q 038509 472 EVAGIKENEILRLNATSRPYEDVPTDFIRFCFFE------------------------------E--SIFKC-------- 511 (806)
Q Consensus 472 ~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~------------------------------~--~~~~~-------- 511 (806)
.........++|++.... ...+.+..++... . ..+..
T Consensus 79 ~~~~~~~~~~ir~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (236)
T PF13086_consen 79 EDGKVYKPKIIRLGSEEE---KIHEDLQKFSLESKLEQRFESKLKRLREQLEELQQKIRLSELKEEKKKLKKSIKRLRKE 155 (236)
T ss_dssp -----TT--EEE---GGT---TS--TTGGGBHHHHHHTTT-----------THHHCHHHHHHHHHHHCCSSCHHHHHHHH
T ss_pred ccccccccchhhhccccc---ccccccccccccccccccccccchhhhHHHHHHHHhhhhhhhhhhhhhcchhccccccc
Confidence 112344557888887761 1111111111000 0 00000
Q ss_pred -------CchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCc
Q 038509 512 -------PPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGP 584 (806)
Q Consensus 512 -------~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~P 584 (806)
.....+..++||++|+.++....... ....||+||||||||+++++.+.||...+ .++||+|||+||||
T Consensus 156 ~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~~~~-~~~~~d~vIvDEAsq~~e~~~l~~l~~~~---~~~vlvGD~~QLpP 231 (236)
T PF13086_consen 156 LEKIREELRRFILKEADVIFTTLSSAASPFLSN-FKEKFDVVIVDEASQITEPEALIPLSRAP---KRIVLVGDPKQLPP 231 (236)
T ss_dssp HHHHHHHHHHHHHHT-SEEEEETCGGG-CCGTT------SEEEETTGGGS-HHHHHHHHTTTB---SEEEEEE-TTS---
T ss_pred ccccccchhhhhcccccccccccccchhhHhhh-hcccCCEEEEeCCCCcchHHHHHHHHHhC---CEEEEECChhhcCC
Confidence 01245678999999998884322111 11279999999999999999999996432 57999999999999
Q ss_pred eeecc
Q 038509 585 VIYSK 589 (806)
Q Consensus 585 vI~s~ 589 (806)
+++|.
T Consensus 232 ~v~s~ 236 (236)
T PF13086_consen 232 VVKSE 236 (236)
T ss_dssp --S--
T ss_pred eeCCC
Confidence 98863
No 16
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.95 E-value=9.3e-28 Score=287.78 Aligned_cols=281 Identities=18% Similarity=0.197 Sum_probs=165.5
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHh--CCCCeEEEEecchHHHHHHHHHHhccc----c
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYST--REHSRILVCAASNSAADHMLERLISNE----V 473 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~--~~~~rILv~apSN~Aad~l~erL~~~~----~ 473 (806)
.||++|++||.+. .+|++|.|+||||||+||+.+|.+++.. .++.+||++||||.||.+|.+|+.+.. .
T Consensus 1 ~Ln~~Q~~av~~~-----~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~ 75 (664)
T TIGR01074 1 KLNPQQQEAVEYV-----TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEA 75 (664)
T ss_pred CCCHHHHHHHhCC-----CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCcccc
Confidence 4899999998752 3579999999999999999999999964 267899999999999999999997631 1
Q ss_pred cCcccccEEEcccC-----------CCCCCCCChh----hh-hhh---------------c-hhhhh-ccCCchh-----
Q 038509 474 AGIKENEILRLNAT-----------SRPYEDVPTD----FI-RFC---------------F-FEESI-FKCPPRE----- 515 (806)
Q Consensus 474 ~~~~~~~i~Rl~~~-----------~r~~~~i~~~----~~-~~~---------------~-~~~~~-~~~~~~~----- 515 (806)
..+...++|+++.. ...+.-+.+. +. ... . ..... ....+.+
T Consensus 76 ~~v~v~TfHs~a~~il~~~~~~~g~~~~~~il~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~ 155 (664)
T TIGR01074 76 RGLTISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEGLIKDDKDLLDKLISTISNWKNDLLTPEQALASA 155 (664)
T ss_pred CCeEEEeHHHHHHHHHHHHHHHhCCCCCCEEeCHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHcCCCHHHHHHhc
Confidence 12333444444211 0000001000 00 000 0 00000 0000000
Q ss_pred ----------h-------hccceee-----eeeeccccccc-cc---CCcCCCCcEEEEecCCCCcchhHHHHHhhcccC
Q 038509 516 ----------A-------LGRYRII-----ISTYMSSSLLN-TN---GIKRGNFSHIFLDEAGQASEPESMIPIANLCTK 569 (806)
Q Consensus 516 ----------~-------L~~~~Vi-----~~T~~s~~~l~-~~---~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~ 569 (806)
. +.....+ +..+. ..+. .. .....+|+||+|||+ ||+.|.++..|..++..
T Consensus 156 ~~~~~~~~~~i~~~Y~~~l~~~~~ldf~Dll~~~~--~~L~~~~~i~~~~~~~~~~ilVDEf-QD~~~~Q~~ll~~L~~~ 232 (664)
T TIGR01074 156 RGEREQTFAHCYALYQAHLRAYNALDFDDLILLPT--LLLQQNEEVRNRWQNKIRYLLVDEY-QDTNTSQYELVKLLVGD 232 (664)
T ss_pred cChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH--HHHhhChHHHHHHHHhCCEEEEeeh-ccCCHHHHHHHHHHhcC
Confidence 0 0000000 00000 0000 00 012257899999999 99999999999988876
Q ss_pred CCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCC
Q 038509 570 QTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKD 649 (806)
Q Consensus 570 ~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~ 649 (806)
+..+++|||++| .||+++++.. ..|.++... + .......|.+||||+++|++++|.++-.+.-...
T Consensus 233 ~~~l~~vGD~~Q---sIY~frga~~----~~~~~~~~~--~---~~~~~~~L~~NyRs~~~Il~~~n~l~~~~~~~~~-- 298 (664)
T TIGR01074 233 RARFTVVGDDDQ---SIYSWRGARP----ENLVLLKED--F---PQLKVIKLEQNYRSTGRILKAANILIANNPHVFE-- 298 (664)
T ss_pred CCeEEEEcCCcc---cccCCCCCCH----HHHHHHHHh--C---CCCeEEECCCCCCChHHHHHHHHHHHhcCccccc--
Confidence 778999999999 9999986543 344444221 1 1223457999999999999999997643221000
Q ss_pred ccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCCh
Q 038509 650 DATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPYR 721 (806)
Q Consensus 650 ~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~ 721 (806)
. . .....+ .+.++.++.... ...|+..|+..|.......+++++||+||++.+
T Consensus 299 -~-~----~~~~~~-~g~~v~~~~~~~------------~~~Ea~~ia~~I~~~~~~~~~~~~diAVL~R~~ 351 (664)
T TIGR01074 299 -K-K----LFSELG-YGEKIKVIECNN------------EEHEAERIAGEIIAHKLVNKTQYKDYAILYRGN 351 (664)
T ss_pred -c-c----ccccCC-CCCceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCCcccEEEEEecC
Confidence 0 0 000011 122344433211 234888888877644333378889999998753
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=1.3e-26 Score=269.30 Aligned_cols=194 Identities=21% Similarity=0.173 Sum_probs=118.8
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCC---CCeEEEEecchHHHHHHHHHHhcccccC---
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTRE---HSRILVCAASNSAADHMLERLISNEVAG--- 475 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~---~~rILv~apSN~Aad~l~erL~~~~~~~--- 475 (806)
.++|+.|+..++. ...++|+|+||||||||+...+..+.+..+ +.+|+++|||++||..|.+.+.......
T Consensus 147 ~~~Qk~A~~~al~---~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~ 223 (586)
T TIGR01447 147 QNWQKVAVALALK---SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAA 223 (586)
T ss_pred cHHHHHHHHHHhh---CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccc
Confidence 3799999999997 356899999999999999998877765433 2589999999999999999886521000
Q ss_pred --------cccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEE
Q 038509 476 --------IKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIF 547 (806)
Q Consensus 476 --------~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~Vi 547 (806)
....+++|+..... .+.. +........++|+||
T Consensus 224 ~~~~~~~~~~a~TiHrlLg~~~--------------------------------------~~~~-~~~~~~~~l~~dvlI 264 (586)
T TIGR01447 224 EALIAALPSEAVTIHRLLGIKP--------------------------------------DTKR-FRHHERNPLPLDVLV 264 (586)
T ss_pred hhhhhccccccchhhhhhcccC--------------------------------------Ccch-hhhcccCCCcccEEE
Confidence 00111222111000 0000 000111234689999
Q ss_pred EecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhh------cCCCccHHHHHhhccccc--CC--Cccc
Q 038509 548 LDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAET------FGLGKSYLERLFECEFYR--NG--DEGY 617 (806)
Q Consensus 548 IDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~------~gl~~Sl~eRL~~~~~~~--~~--~~~~ 617 (806)
||||||...+.....+. ....++++||+||+.||||+--+..-.+ .++.......+.....-. .. -+..
T Consensus 265 iDEaSMvd~~l~~~ll~-al~~~~rlIlvGD~~QLpsV~~G~vl~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 343 (586)
T TIGR01447 265 VDEASMVDLPLMAKLLK-ALPPNTKLILLGDKNQLPSVEAGAVLGDLCELASIGYLFQSAQAYALCKKINSKTRNPLSDN 343 (586)
T ss_pred EcccccCCHHHHHHHHH-hcCCCCEEEEECChhhCCCCCCChhHHHHHHhhccccchhhhhhhcccccccccccCCCCCc
Confidence 99999999886555555 4456789999999999999833321110 000000000000000000 00 1233
Q ss_pred eecccccccChh--HHHHhhhhh
Q 038509 618 VTKLVRNYRCHP--AILDLPSKL 638 (806)
Q Consensus 618 v~~L~~nYRs~p--~I~~~~n~l 638 (806)
++.|+++||... .|..+++..
T Consensus 344 ~~~L~~~~R~~~~S~I~~lA~~I 366 (586)
T TIGR01447 344 VCFLKTSHRFGKDSGIGQLAKAI 366 (586)
T ss_pred EEEeceeecCCCCccHHHHHHHH
Confidence 779999999965 599987765
No 18
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.93 E-value=2.9e-25 Score=258.20 Aligned_cols=200 Identities=23% Similarity=0.234 Sum_probs=122.5
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhcccccC--
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLISNEVAG-- 475 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~~~~~~-- 475 (806)
...++|+.|+..++. .+..+|.|+||||||||+...+..+.+.. +..+|+++|||++||..|.+++.......
T Consensus 152 ~~~d~Qk~Av~~a~~---~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~ 228 (615)
T PRK10875 152 DEVDWQKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPL 228 (615)
T ss_pred CCCHHHHHHHHHHhc---CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhcccc
Confidence 345899999999887 35789999999999999999888776532 34689999999999999999886421000
Q ss_pred ---------cccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEE
Q 038509 476 ---------IKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHI 546 (806)
Q Consensus 476 ---------~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~V 546 (806)
....++||+.... ..+.. +......+.++|+|
T Consensus 229 ~~~~~~~~~~~a~TiHrlLg~~--------------------------------------~~~~~-~~~~~~~~l~~dvl 269 (615)
T PRK10875 229 TDEQKKRIPEEASTLHRLLGAQ--------------------------------------PGSQR-LRYHAGNPLHLDVL 269 (615)
T ss_pred chhhhhcCCCchHHHHHHhCcC--------------------------------------CCccc-hhhccccCCCCCeE
Confidence 0011111111110 00000 00011123467999
Q ss_pred EEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhh------cCCCccH---HHHHhhcccccC---CC
Q 038509 547 FLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAET------FGLGKSY---LERLFECEFYRN---GD 614 (806)
Q Consensus 547 iIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~------~gl~~Sl---~eRL~~~~~~~~---~~ 614 (806)
|||||||...+.....+.. ..+++++||+||+.||||+--+..-.+ .++.... +.++.....-.. ..
T Consensus 270 IvDEaSMvd~~lm~~ll~a-l~~~~rlIlvGD~~QL~sV~~G~VL~DL~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 348 (615)
T PRK10875 270 VVDEASMVDLPMMARLIDA-LPPHARVIFLGDRDQLASVEAGAVLGDICRFAEAGYSAERAQQLSRLTGCHLPAGTGTEA 348 (615)
T ss_pred EEChHhcccHHHHHHHHHh-cccCCEEEEecchhhcCCCCCCchHHHHHHhhhcccchhhhhHHhhhccccccccccccC
Confidence 9999999988866655654 456789999999999999833321111 1111111 112211100000 00
Q ss_pred ---ccceecccccccCh--hHHHHhhhhhhcCCc
Q 038509 615 ---EGYVTKLVRNYRCH--PAILDLPSKLFYGGE 643 (806)
Q Consensus 615 ---~~~v~~L~~nYRs~--p~I~~~~n~lfY~~~ 643 (806)
...++.|.++||.. ..|..++... .+|.
T Consensus 349 ~~~~~~~~~L~~~~Rf~~~SgI~~lA~~I-~~G~ 381 (615)
T PRK10875 349 ASVRDSLCLLRKSYRFGSDSGIGQLAAAV-NRGD 381 (615)
T ss_pred CccccceeecceeecCCCCCcHHHHHHHH-HCCC
Confidence 12346899999985 5688887664 3443
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=99.93 E-value=1.3e-24 Score=259.30 Aligned_cols=172 Identities=23% Similarity=0.253 Sum_probs=116.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEecchHHHHHHHHHHhcccccCccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCAASNSAADHMLERLISNEVAGIKE 478 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~apSN~Aad~l~erL~~~~~~~~~~ 478 (806)
.||++|++|+..++. .+.++|+|+||||||+++...+. ++... +..+|++||||+.||+.|.+.+. ...
T Consensus 323 ~l~~~Q~~Ai~~~~~---~~~~iitGgpGTGKTt~l~~i~~-~~~~~~~~~~v~l~ApTg~AA~~L~e~~g------~~a 392 (720)
T TIGR01448 323 GLSEEQKQALDTAIQ---HKVVILTGGPGTGKTTITRAIIE-LAEELGGLLPVGLAAPTGRAAKRLGEVTG------LTA 392 (720)
T ss_pred CCCHHHHHHHHHHHh---CCeEEEECCCCCCHHHHHHHHHH-HHHHcCCCceEEEEeCchHHHHHHHHhcC------Ccc
Confidence 799999999999875 34689999999999998765554 44432 23789999999999998866542 233
Q ss_pred ccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchh
Q 038509 479 NEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPE 558 (806)
Q Consensus 479 ~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe 558 (806)
.+++|+....... ... . ..-.....++||||||||...+.
T Consensus 393 ~Tih~lL~~~~~~----------------~~~--------------------~----~~~~~~~~~llIvDEaSMvd~~~ 432 (720)
T TIGR01448 393 STIHRLLGYGPDT----------------FRH--------------------N----HLEDPIDCDLLIVDESSMMDTWL 432 (720)
T ss_pred ccHHHHhhccCCc----------------cch--------------------h----hhhccccCCEEEEeccccCCHHH
Confidence 4555543221100 000 0 00012357999999998887765
Q ss_pred HHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccCh--hHHHHhhh
Q 038509 559 SMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCH--PAILDLPS 636 (806)
Q Consensus 559 ~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~--p~I~~~~n 636 (806)
....+. ....+.++||+||+.||||+ +.+ ..|..++... ...++.|+++||.. ..|..+++
T Consensus 433 ~~~Ll~-~~~~~~rlilvGD~~QLpsV---------~~G-~v~~dl~~~~------~~~~~~L~~i~RQ~~~s~i~~~a~ 495 (720)
T TIGR01448 433 ALSLLA-ALPDHARLLLVGDTDQLPSV---------GPG-QVLKDLILSQ------AIPVTRLTKVYRQAAGSPIITLAH 495 (720)
T ss_pred HHHHHH-hCCCCCEEEEECccccccCC---------CCC-chHHHHHhcC------CCCEEEeCeeeccCCCcHHHHHHH
Confidence 544444 44567899999999999998 433 3455555432 12466899999986 46888877
Q ss_pred hh
Q 038509 637 KL 638 (806)
Q Consensus 637 ~l 638 (806)
.+
T Consensus 496 ~i 497 (720)
T TIGR01448 496 GI 497 (720)
T ss_pred HH
Confidence 64
No 20
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.93 E-value=5.9e-26 Score=259.74 Aligned_cols=376 Identities=23% Similarity=0.297 Sum_probs=262.3
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
..|+.|-+|+.+-.. ++.+.+.||||||||.+.+..+.-++.+-|..|-|++|+||.|.+.+.+++.+. .+..+
T Consensus 738 ~ft~~qveai~sg~q---pgltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~---d~d~r 811 (1320)
T KOG1806|consen 738 KFTPTQVEAILSGMQ---PGLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMAL---DVDER 811 (1320)
T ss_pred ccCHHHHHHHHhcCC---CCceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhc---ccchh
Confidence 458899888876443 567999999999999999999998888889999999999999999999998763 12222
Q ss_pred cEEEcccCCCC------------------------------------CCC---------------CChhhhhhh------
Q 038509 480 EILRLNATSRP------------------------------------YED---------------VPTDFIRFC------ 502 (806)
Q Consensus 480 ~i~Rl~~~~r~------------------------------------~~~---------------i~~~~~~~~------ 502 (806)
++.|+++.... ..+ +...+..|.
T Consensus 812 hLlrlg~ge~eletd~dfsrygrvn~~l~~r~~ll~ev~rla~sl~~pgdv~ytcetagyf~~~~V~~~wee~l~~v~~~ 891 (1320)
T KOG1806|consen 812 HLLRLGHGEEELETDKDFSRYGRVNYVLSRRLELLREVERLAKSLQAPGDVDYTCETAGYFFLAYVKRRWEEYLAKVDKG 891 (1320)
T ss_pred hHHHhcccHHhhhcccchhheeeEeeeeccchHHHHHHHHhhhhhcCccccccccchhhhhhhhHHHhhhHHHHHHhccC
Confidence 22222210000 000 000000000
Q ss_pred --c--h----------------hhhhccCCc---------------------------------------hhhhccceee
Q 038509 503 --F--F----------------EESIFKCPP---------------------------------------REALGRYRII 523 (806)
Q Consensus 503 --~--~----------------~~~~~~~~~---------------------------------------~~~L~~~~Vi 523 (806)
+ . .+..+..-. .-..+.++++
T Consensus 892 ~~~~~~~~~~~~fpf~~~f~d~p~~vfeg~n~~~d~~~a~~cf~hl~~ifqqLee~rafellr~~~dr~~Yll~kqakii 971 (1320)
T KOG1806|consen 892 CDKDSVDIVSNRFPFHSYFGDKPKPPFEGYNKENDMDYATGCFRHLEYIFQQLEEFRAFELLRSGEDRELYLLVKQAKII 971 (1320)
T ss_pred CCchhhhhHhhhCcchhhhhcCCCccccccchhhhhhhhhhhHHHHHHHHHHHHhcccccccccchhHhhccCcccceee
Confidence 0 0 000000000 0012467889
Q ss_pred eeeecccccccccCC-cCCCCcEEEEecCCCCcchhHHHHHhhcccCC-----CEEEEecCCCCCCceeecc-hhhhcCC
Q 038509 524 ISTYMSSSLLNTNGI-KRGNFSHIFLDEAGQASEPESMIPIANLCTKQ-----TVVVLAGDPKQLGPVIYSK-DAETFGL 596 (806)
Q Consensus 524 ~~T~~s~~~l~~~~~-~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~-----~~lVLvGDp~QL~PvI~s~-~a~~~gl 596 (806)
.+||..+..-...-+ ..-.||-+++.|++|..|-+..+|+...+... +++++.||+.|+||++... .+.....
T Consensus 972 amtcthaalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm 1051 (1320)
T KOG1806|consen 972 AMTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNM 1051 (1320)
T ss_pred ecccCChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcc
Confidence 999988764332222 22368899999999999999999998776543 4899999999999998544 3344456
Q ss_pred CccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEec--
Q 038509 597 GKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGI-- 674 (806)
Q Consensus 597 ~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~-- 674 (806)
.+|+|.|+.... ...+.|..|+|.-+.|+.+.|..+-.-...+..+...... ..-.+..++..|+++
T Consensus 1052 ~qslf~r~vRl~-------ip~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f~----~aNagf~~~~qlinv~D 1120 (1320)
T KOG1806|consen 1052 EQSLFTRLVRLG-------VPIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPRFQ----YANAGFAYEFQFINVPD 1120 (1320)
T ss_pred hhhhhhcceecc-------cceecchhhhhHHHHHHHHHHhhhcccccCcCCccchhhh----ccccCceeeEEEecchh
Confidence 789999997643 2456799999999999999987542222222211111100 011122345666665
Q ss_pred -cCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCChHHHHHHHHHhhcCCC------CCeEECccccc
Q 038509 675 -QGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPYRQQVLKIKKVLETWDM------PDVKVGTVEQF 747 (806)
Q Consensus 675 -~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L~~~~~------~~v~V~TVd~f 747 (806)
.|..+.+.....+.|..||+.++.....+..- |.+.+.|.|+|.|++|...|++.+....- ..-+|+|||.|
T Consensus 1121 f~g~gEt~p~p~fyQnlgeaey~vAly~YMr~L-gypa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~ 1199 (1320)
T KOG1806|consen 1121 FKGSGETEPSPGFYQNLGEAEYAVALFQYMRLL-GYPANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKF 1199 (1320)
T ss_pred hccccccCCCcccccCCchhhhHHHHHHHHHHh-CCchhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccc
Confidence 35555555556688999999998887777655 78999999999999999999998876421 23679999999
Q ss_pred ccceeeEEEEEeccCCCcCcccccccccccCCCCCceeecccccccceEEEEcccc
Q 038509 748 QGQEREVIIVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLIIVGNPHI 803 (806)
Q Consensus 748 QG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn~~~ 803 (806)
||+.-|.||+|+|++. ..|.+.|.|||.||++||+-+|+|.++...
T Consensus 1200 qgqqndfiIlslv~tr----------~~gh~rdvrrlvva~srarlglyv~~r~~l 1245 (1320)
T KOG1806|consen 1200 QGQQNDFIILSLVRTR----------EVGHLRDVRRLVVAMSRARLGLYVLCRRSL 1245 (1320)
T ss_pred cccccceEEeeehhhh----------hhhhhccHHHHHHHHHHhhccchhHHHHHH
Confidence 9999999999999984 568899999999999999999999887543
No 21
>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=99.92 E-value=1.7e-24 Score=272.43 Aligned_cols=91 Identities=22% Similarity=0.323 Sum_probs=70.5
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC---CCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccC--CCc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK---QTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRN--GDE 615 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~---~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~--~~~ 615 (806)
.+|+||+|||+ ||+++.++..|..++.. ..++++|||++| +||+|++++ .++|.+.... |.. ...
T Consensus 387 ~rf~~ILVDEf-QDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQ---SIY~FRGAd----p~lf~~~~~~--f~~~~~~~ 456 (1232)
T TIGR02785 387 EKFKEVLVDEY-QDTNLLQESILQLLKRGEEDEGNLFMVGDVKQ---SIYRFRQAD----PSLFLEKYHR--FAQEGNEH 456 (1232)
T ss_pred hCCCEEEEECC-cCCCHHHHHHHHHHhccCCCCCeEEEEcCCcc---hhhhhcCCC----hHHHHHHHHH--hhhhccCC
Confidence 47999999999 99999998888877653 368999999999 999999654 4555544321 111 112
Q ss_pred cceecccccccChhHHHHhhhhhhcC
Q 038509 616 GYVTKLVRNYRCHPAILDLPSKLFYG 641 (806)
Q Consensus 616 ~~v~~L~~nYRs~p~I~~~~n~lfY~ 641 (806)
.....|.+||||+++|+++.|.+|..
T Consensus 457 ~~~i~L~~NfRS~~~Il~~~N~lF~~ 482 (1232)
T TIGR02785 457 GKRIDLAENFRSRKEVLDTTNYLFKQ 482 (1232)
T ss_pred ceEEECCcCCCCcHHHHHHHHHHHHH
Confidence 34568999999999999999999954
No 22
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.91 E-value=9e-25 Score=261.76 Aligned_cols=286 Identities=19% Similarity=0.207 Sum_probs=172.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhcccccC--
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLISNEVAG-- 475 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~~~~~~-- 475 (806)
.||++|++||... .+|++|.++||||||+|++++|++++... .+.+||++||||+||.+|.+|+.+.....
T Consensus 2 ~Ln~~Q~~av~~~-----~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~ 76 (655)
T COG0210 2 KLNPEQREAVLHP-----DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAA 76 (655)
T ss_pred CCCHHHHHHHhcC-----CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccc
Confidence 5999999999874 36899999999999999999999999864 56789999999999999999998743210
Q ss_pred --cccccEEEccc-------C----CCCCCCCCh-----hhhhhh---------------------chhhhhccC-----
Q 038509 476 --IKENEILRLNA-------T----SRPYEDVPT-----DFIRFC---------------------FFEESIFKC----- 511 (806)
Q Consensus 476 --~~~~~i~Rl~~-------~----~r~~~~i~~-----~~~~~~---------------------~~~~~~~~~----- 511 (806)
....++|.++. . ...+..+.. .+.... ...+.....
T Consensus 77 ~~~~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~ 156 (655)
T COG0210 77 EGLTVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASA 156 (655)
T ss_pred cCcEEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhh
Confidence 11222222210 0 000000000 000000 000000000
Q ss_pred -------Cc-hh----hhccce-------------eeeeeecccc-cccccCCcCCCCcEEEEecCCCCcchhHHHHHhh
Q 038509 512 -------PP-RE----ALGRYR-------------IIISTYMSSS-LLNTNGIKRGNFSHIFLDEAGQASEPESMIPIAN 565 (806)
Q Consensus 512 -------~~-~~----~L~~~~-------------Vi~~T~~s~~-~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~ 565 (806)
.. .. ....+. .+.-++.... ..........+|+||+|||+ ||+++.+...+..
T Consensus 157 ~~~~~~~~~~~~~~~~~y~~Y~~~~~~~~~~df~dll~~~~~l~~~~~~v~~~~~~rf~~iLvDE~-QDtn~~Q~~ll~~ 235 (655)
T COG0210 157 LLLAAIKSEAEKKLAELYEEYQELLRLNNALDFDDLLLLALRLLEENPEVLEALQARFRYILVDEF-QDTNPLQYELLKL 235 (655)
T ss_pred hhhhccccHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHhhCCEEEEeCc-CCCCHHHHHHHHH
Confidence 00 00 000000 0000000000 00000011368999999999 9999999999998
Q ss_pred cccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCccc
Q 038509 566 LCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELL 645 (806)
Q Consensus 566 l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~ 645 (806)
++.....+.+|||+.| +||+|+++ ....+.++... | ....+..|.+||||.+.|+..+|+++-.+.-.
T Consensus 236 la~~~~~l~~VGD~dQ---sIY~frGA----~~~ni~~f~~d--f---~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r 303 (655)
T COG0210 236 LAGNAANLFVVGDDDQ---SIYGFRGA----DPENILDFEKD--F---PAAKVIKLEQNYRSTPNILAAANKVIANNKKR 303 (655)
T ss_pred HhCCCCCEEEEcCCcc---ccceeCCC----ChHHHHHHHhh--C---CCCcEEEecCCCCCcHHHHHHHHHHHhcCCcc
Confidence 8887677889999999 99999954 44555554332 1 11356789999999999999999987522111
Q ss_pred ccCCcccccccccccc-CCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCChHHH
Q 038509 646 ACKDDATSLSSAKVDI-FPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPYRQQV 724 (806)
Q Consensus 646 ~~~~~~~~~~~~~~~~-lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~~Qv 724 (806)
.. ...|.. ......+..+. .+....||..+...+..+...++...+||+|+.+.+.|.
T Consensus 304 ~~--------k~l~~~~~~~~~~~~~~~-------------~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s 362 (655)
T COG0210 304 QA--------KTLRTEVEGSGEKVVLLL-------------ANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQS 362 (655)
T ss_pred CC--------CcceeccCCCCCCceEEe-------------CCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcch
Confidence 10 111111 11112222222 122456999999999999888558899999998865443
No 23
>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=2.6e-23 Score=259.10 Aligned_cols=170 Identities=21% Similarity=0.215 Sum_probs=103.9
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccCCC--EEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccce
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTKQT--VVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYV 618 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~--~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v 618 (806)
.+|++|+|||+ ||+.|.++..+..++.... .+++||||+| +||+|++++. ..+.+.... + + ..
T Consensus 295 ~ry~~vLVDEF-QDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ---SIY~FRGAD~----~~~~~~~~~--~----~-~~ 359 (1087)
T TIGR00609 295 EQYPIALIDEF-QDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ---AIYSFRGADI----FTYLQAKSK--A----D-AR 359 (1087)
T ss_pred hCCCEEEEECC-cCCCHHHHHHHHHHHhCCCCCeEEEEECCcc---ccccCCCCCH----HHHHHHHHh--c----C-cE
Confidence 58999999999 9999999999988765433 7999999999 9999997653 333333221 1 1 24
Q ss_pred ecccccccChhHHHHhhhhhhcCCcccccCC---cccccc-c--cccccCCC-CCCCEEEEeccCcccccCCCCCccCHH
Q 038509 619 TKLVRNYRCHPAILDLPSKLFYGGELLACKD---DATSLS-S--AKVDIFPN-KDFPVLFFGIQGCDEREGNNPSWFNRF 691 (806)
Q Consensus 619 ~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~---~~~~~~-~--~~~~~lp~-~~~pv~f~~~~g~~~~~~~~~S~~N~~ 691 (806)
..|.+||||+++|+++.|.+|-...-..... ...... . ......++ ...++.++....... +..-....
T Consensus 360 ~~L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~ 435 (1087)
T TIGR00609 360 YTLGTNWRSTPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE----GVDDYRQT 435 (1087)
T ss_pred EECCCCCCCcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc----ccchHHHH
Confidence 5799999999999999999985422110000 000000 0 00000011 123555554322111 00112234
Q ss_pred HHHHHHHHHHHHHHc--------------CCCCCCeEEEEcCChHHHHHHHH
Q 038509 692 EVSKVVDIINKLREN--------------TELNETDIGVITPYRQQVLKIKK 729 (806)
Q Consensus 692 Ea~~V~~~v~~L~~~--------------~~~~~~dIgIItPy~~Qv~~i~~ 729 (806)
+|..++..|.+++.. .+++++||+||++.+.|...|++
T Consensus 436 ~a~~~a~~I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~ 487 (1087)
T TIGR00609 436 IAQKCAREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRK 487 (1087)
T ss_pred HHHHHHHHHHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHH
Confidence 566777777776643 24678999999998766655543
No 24
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.89 E-value=8.5e-23 Score=254.82 Aligned_cols=179 Identities=22% Similarity=0.311 Sum_probs=110.1
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC----CCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCcc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK----QTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEG 616 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~----~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~ 616 (806)
.+|+||+|||+ |||.|.++..|..+... +..+++||||+| +||+|++++ ...|...... ....
T Consensus 377 ~~~~~iLIDEf-QDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ---SIY~FRgAD----~~~f~~a~~~-----~~~~ 443 (1139)
T COG1074 377 EQYPHILIDEF-QDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ---SIYRFRGAD----IFTFLEAASS-----EKAF 443 (1139)
T ss_pred hcCCeEEeecc-ccCCHHHHHHHHHHHhcCCCCCCceEEecCchH---HhhhhcCCC----hHHHHHHhhc-----cccC
Confidence 58999999999 99999999999887655 347999999999 999999654 4555544331 1123
Q ss_pred ceecccccccChhHHHHhhhhhhcCCc-ccc--cC-Ccccccccccccc-CCC-CCCCEE-EEeccCcccccCCCC--Cc
Q 038509 617 YVTKLVRNYRCHPAILDLPSKLFYGGE-LLA--CK-DDATSLSSAKVDI-FPN-KDFPVL-FFGIQGCDEREGNNP--SW 687 (806)
Q Consensus 617 ~v~~L~~nYRs~p~I~~~~n~lfY~~~-L~~--~~-~~~~~~~~~~~~~-lp~-~~~pv~-f~~~~g~~~~~~~~~--S~ 687 (806)
....|.+||||.+++++..|.+|-.-. ... .. .+........... ..+ ...|.. ++..........+.. ..
T Consensus 444 ~~~~L~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~ 523 (1139)
T COG1074 444 ARITLETNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGEPLPALKFWEEEDDWTAPENEEDERE 523 (1139)
T ss_pred ceeecccccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCcccchhhhhhcCcccccCCCCchhHHH
Confidence 355799999999999999999996321 000 00 0000000000000 000 011111 111110000011111 34
Q ss_pred cCHHHHHHHHHHHHHHHHc-------CCCCCCeEEEEcCChHHHHHHHHHhh
Q 038509 688 FNRFEVSKVVDIINKLREN-------TELNETDIGVITPYRQQVLKIKKVLE 732 (806)
Q Consensus 688 ~N~~Ea~~V~~~v~~L~~~-------~~~~~~dIgIItPy~~Qv~~i~~~L~ 732 (806)
....+|..|...+..+... ..+.++||+|+++.+++...|+++|+
T Consensus 524 ~~~~~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~ 575 (1139)
T COG1074 524 IADLEARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALK 575 (1139)
T ss_pred HHHHHHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHH
Confidence 4566788888888888752 25889999999999877766655443
No 25
>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=99.89 E-value=2.7e-22 Score=240.43 Aligned_cols=171 Identities=23% Similarity=0.248 Sum_probs=112.3
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.||++|++|+..++... ..++|+|+||||||+++.. +..++.. .+.+|++||||+.||..|.+... ....
T Consensus 352 ~Ls~~Q~~Av~~i~~s~--~~~il~G~aGTGKTtll~~-i~~~~~~-~g~~V~~~ApTg~Aa~~L~~~~g------~~a~ 421 (744)
T TIGR02768 352 RLSEEQYEAVRHVTGSG--DIAVVVGRAGTGKSTMLKA-AREAWEA-AGYRVIGAALSGKAAEGLQAESG------IESR 421 (744)
T ss_pred CCCHHHHHHHHHHhcCC--CEEEEEecCCCCHHHHHHH-HHHHHHh-CCCeEEEEeCcHHHHHHHHhccC------Ccee
Confidence 69999999999998642 4689999999999987665 4445543 46899999999999999865422 2222
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhH
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPES 559 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~ 559 (806)
+++++.. .+ . .........++|||||||+......
T Consensus 422 Ti~~~~~-------------~~--------~------------------------~~~~~~~~~~llIvDEasMv~~~~~ 456 (744)
T TIGR02768 422 TLASLEY-------------AW--------A------------------------NGRDLLSDKDVLVIDEAGMVGSRQM 456 (744)
T ss_pred eHHHHHh-------------hh--------c------------------------cCcccCCCCcEEEEECcccCCHHHH
Confidence 3322210 00 0 0000123569999999999887765
Q ss_pred HHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhh
Q 038509 560 MIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLF 639 (806)
Q Consensus 560 li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lf 639 (806)
...+......+.++||+||+.||||+-- + ..|..+... .....|+..||....-..-+...+
T Consensus 457 ~~Ll~~~~~~~~kliLVGD~~QLpsVga---------G-~~f~~l~~~--------~~~~~Lt~I~RQ~~~~~~~aa~~i 518 (744)
T TIGR02768 457 ARVLKEAEEAGAKVVLVGDPEQLQPIEA---------G-AAFRAIAER--------IGYAELETIRRQREAWARQASLEL 518 (744)
T ss_pred HHHHHHHHhcCCEEEEECChHHcccccc---------C-cHHHHHHHh--------hCeEEeeeEEecCCHHHHHHHHHH
Confidence 5555434446789999999999999933 3 344444431 124579999997654333333444
Q ss_pred cCCc
Q 038509 640 YGGE 643 (806)
Q Consensus 640 Y~~~ 643 (806)
-.|.
T Consensus 519 ~~G~ 522 (744)
T TIGR02768 519 ARGD 522 (744)
T ss_pred HcCC
Confidence 4443
No 26
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.88 E-value=1.5e-22 Score=248.81 Aligned_cols=156 Identities=22% Similarity=0.258 Sum_probs=103.8
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc-----C----CCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhccccc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT-----K----QTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYR 611 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~-----~----~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~ 611 (806)
.+|+||+|||+ ||+.|.++..|..+.. . .+.+++|||++| +||+|++++ ..+|.++... +.
T Consensus 327 ~~~~~ilVDEf-QDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ---SIY~FRGA~----~~~f~~~~~~--~~ 396 (910)
T PRK13909 327 SKISHILIDEF-QDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ---SIYRFRGGK----KELFDKVSKD--FK 396 (910)
T ss_pred cCCCEEEEECc-cCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh---hhhhhcCCC----hHHHHHHHHH--hh
Confidence 47999999999 9999999988776531 1 357999999999 999998554 4566665432 11
Q ss_pred CCCccceecccccccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHH
Q 038509 612 NGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRF 691 (806)
Q Consensus 612 ~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~ 691 (806)
.....|.+||||+++|+++.|.+|-... .... .. . ......+..+.++.... ....
T Consensus 397 ----~~~~~L~~NyRS~~~Iv~~~N~~f~~~~-~~~~-~~----~---~~~~~~~g~v~i~~~~~-----------~~~~ 452 (910)
T PRK13909 397 ----QKVDNLDTNYRSAPLIVDFVNEVFKKKY-KNYK-TQ----Y---AEQHKSGGYVEVVEVAD-----------ESEE 452 (910)
T ss_pred ----hhhcccccCCCCChHHHHHHHHHHHHHH-Hhhh-hh----h---cccccCCCcEEEEECCC-----------ccHH
Confidence 1245799999999999999999984311 0000 00 0 00011112233332110 1234
Q ss_pred HHHHHHHHHHHHHHcCCCCCCeEEEEcCChHHHHHHHHHh
Q 038509 692 EVSKVVDIINKLRENTELNETDIGVITPYRQQVLKIKKVL 731 (806)
Q Consensus 692 Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L 731 (806)
++..++..|..+++. |++++||+||++.+.|...+.+.|
T Consensus 453 ~a~~ia~~I~~l~~~-g~~~~dIaILvR~~~~~~~l~~~L 491 (910)
T PRK13909 453 LLEQLLQEIQFLLEK-GIDPDDIAILCWTNDDALEIKEFL 491 (910)
T ss_pred HHHHHHHHHHHHHHc-CCCcCCEEEEEecCccHHHHHHHH
Confidence 678899999999887 789999999999887665554443
No 27
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.86 E-value=5.1e-21 Score=231.23 Aligned_cols=172 Identities=20% Similarity=0.204 Sum_probs=114.8
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.||++|++||..+++..+ .++|+|+|||||||++. .+.+++.. .+.+|++||||+.||..|.+.. ++...
T Consensus 346 ~Ls~eQr~Av~~il~s~~--v~vv~G~AGTGKTT~l~-~~~~~~e~-~G~~V~~~ApTGkAA~~L~e~t------Gi~a~ 415 (988)
T PRK13889 346 VLSGEQADALAHVTDGRD--LGVVVGYAGTGKSAMLG-VAREAWEA-AGYEVRGAALSGIAAENLEGGS------GIASR 415 (988)
T ss_pred CCCHHHHHHHHHHhcCCC--eEEEEeCCCCCHHHHHH-HHHHHHHH-cCCeEEEecCcHHHHHHHhhcc------Ccchh
Confidence 699999999999997543 58999999999999754 45556654 4789999999999999885421 22222
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhH
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPES 559 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~ 559 (806)
+++++.. .+ .. ........++|||||||+......
T Consensus 416 TI~sll~-------------~~---~~-----------------------------~~~~l~~~~vlIVDEASMv~~~~m 450 (988)
T PRK13889 416 TIASLEH-------------GW---GQ-----------------------------GRDLLTSRDVLVIDEAGMVGTRQL 450 (988)
T ss_pred hHHHHHh-------------hh---cc-----------------------------cccccccCcEEEEECcccCCHHHH
Confidence 3322210 00 00 000122458999999999988866
Q ss_pred HHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhh
Q 038509 560 MIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLF 639 (806)
Q Consensus 560 li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lf 639 (806)
...|......+.++|||||+.||||+ +.+ ..|..|... .....|++.+|...+...-....+
T Consensus 451 ~~LL~~a~~~garvVLVGD~~QLpsV---------~aG-~~f~~L~~~--------~~~a~LteI~RQ~~~~~r~aa~~i 512 (988)
T PRK13889 451 ERVLSHAADAGAKVVLVGDPQQLQAI---------EAG-AAFRSIHER--------HGGAEIGEVRRQREDWQRDATRDL 512 (988)
T ss_pred HHHHHhhhhCCCEEEEECCHHHcCCC---------CCC-chHHHHHHh--------cCeEEeceeecCCCHHHHHHHHHH
Confidence 66665444567899999999999999 333 345544331 113579999998655443444455
Q ss_pred cCCcc
Q 038509 640 YGGEL 644 (806)
Q Consensus 640 Y~~~L 644 (806)
..|..
T Consensus 513 ~~G~~ 517 (988)
T PRK13889 513 ATGRT 517 (988)
T ss_pred HcCCc
Confidence 55543
No 28
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.86 E-value=8.9e-21 Score=229.92 Aligned_cols=171 Identities=23% Similarity=0.311 Sum_probs=113.7
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.||++|++||.++... ....+|+|+|||||||++..+ .+++.. .+.+|+.+|||+.||..|.+.. ++...
T Consensus 381 ~Ls~eQ~~Av~~i~~~--~r~~~v~G~AGTGKTt~l~~~-~~~~e~-~G~~V~g~ApTgkAA~~L~e~~------Gi~a~ 450 (1102)
T PRK13826 381 RLSDEQKTAIEHVAGP--ARIAAVVGRAGAGKTTMMKAA-REAWEA-AGYRVVGGALAGKAAEGLEKEA------GIQSR 450 (1102)
T ss_pred CCCHHHHHHHHHHhcc--CCeEEEEeCCCCCHHHHHHHH-HHHHHH-cCCeEEEEcCcHHHHHHHHHhh------CCCee
Confidence 6999999999998643 356899999999999987664 445543 5789999999999999986543 22233
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhH
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPES 559 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~ 559 (806)
++.++.. .+ .. + ......-++|||||||+......
T Consensus 451 TIas~ll-------------~~---~~------------------------~-----~~~l~~~~vlVIDEAsMv~~~~m 485 (1102)
T PRK13826 451 TLSSWEL-------------RW---NQ------------------------G-----RDQLDNKTVFVLDEAGMVASRQM 485 (1102)
T ss_pred eHHHHHh-------------hh---cc------------------------C-----ccCCCCCcEEEEECcccCCHHHH
Confidence 3333210 00 00 0 00111347999999999988877
Q ss_pred HHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhh
Q 038509 560 MIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLF 639 (806)
Q Consensus 560 li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lf 639 (806)
...|......+.++|||||+.||+|+ +.+ ..|..+... .....|++.||...+-..-++..+
T Consensus 486 ~~Ll~~~~~~garvVLVGD~~QL~~V---------~aG-~~f~~l~~~--------i~~a~LteI~RQ~~~~~r~Aa~~i 547 (1102)
T PRK13826 486 ALFVEAVTRAGAKLVLVGDPEQLQPI---------EAG-AAFRAIADR--------IGYAELETIYRQREQWMRDASLDL 547 (1102)
T ss_pred HHHHHHHHhcCCEEEEECCHHHcCCC---------CCC-cHHHHHHhh--------cCEEEeeeeeecCChHHHHHHHHH
Confidence 66666444467899999999999999 333 344545431 114579999998655323334445
Q ss_pred cCCc
Q 038509 640 YGGE 643 (806)
Q Consensus 640 Y~~~ 643 (806)
..|.
T Consensus 548 ~~G~ 551 (1102)
T PRK13826 548 ARGN 551 (1102)
T ss_pred HcCC
Confidence 5554
No 29
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.86 E-value=1e-21 Score=245.26 Aligned_cols=168 Identities=18% Similarity=0.278 Sum_probs=103.3
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc--CCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccce
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT--KQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYV 618 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v 618 (806)
.+|++|+|||+ ||+.|.++..+..++. +...+++||||+| +||+|++++.. .+++. .. .....
T Consensus 376 ~~y~~ilIDEf-QDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ---sIY~FRGAd~~---~~l~~-~~-------~~~~~ 440 (1181)
T PRK10876 376 TRYPVAMIDEF-QDTDPQQYRIFRRIYRHQPETALLLIGDPKQ---AIYAFRGADIF---TYMKA-RS-------EVSAH 440 (1181)
T ss_pred hCCCEEEEECC-ccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc---ccccCCCCCch---HHHHH-Hh-------ccCCe
Confidence 58999999999 9999999999988764 2457999999999 99999976431 22221 11 01123
Q ss_pred ecccccccChhHHHHhhhhhhcCCcccccCCc----cccc--ccccccc-CCCC-CCCEEEEeccCcccccCCCCCccCH
Q 038509 619 TKLVRNYRCHPAILDLPSKLFYGGELLACKDD----ATSL--SSAKVDI-FPNK-DFPVLFFGIQGCDEREGNNPSWFNR 690 (806)
Q Consensus 619 ~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~----~~~~--~~~~~~~-lp~~-~~pv~f~~~~g~~~~~~~~~S~~N~ 690 (806)
..|.+||||+++|++++|.+|-...-...... .... ....... ..+. ..|+.++...+. +.+......
T Consensus 441 ~~L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~~~~ 516 (1181)
T PRK10876 441 YTLDTNWRSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLMEGE----GVGVGDYQQ 516 (1181)
T ss_pred eECCCCcCcCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeecCCC----ccCcchHHH
Confidence 57999999999999999999864321000000 0000 0000000 0011 123333332221 111123345
Q ss_pred HHHHHHHHHHHHHHHcC--------------CCCCCeEEEEcCChHHHHHH
Q 038509 691 FEVSKVVDIINKLRENT--------------ELNETDIGVITPYRQQVLKI 727 (806)
Q Consensus 691 ~Ea~~V~~~v~~L~~~~--------------~~~~~dIgIItPy~~Qv~~i 727 (806)
.||..++..|.+++..+ ++.++||+|+++.+.|...+
T Consensus 517 ~eA~~iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i 567 (1181)
T PRK10876 517 TMAQQCAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALI 567 (1181)
T ss_pred HHHHHHHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHH
Confidence 68889999998887531 36789999999987555444
No 30
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.81 E-value=1.4e-19 Score=183.77 Aligned_cols=177 Identities=26% Similarity=0.291 Sum_probs=107.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.||++|++|+..++...+ ...+|+||||||||+++...+. .+.. .+.+|+++||||.|+++|.+++.. ...
T Consensus 1 ~L~~~Q~~a~~~~l~~~~-~~~~l~G~aGtGKT~~l~~~~~-~~~~-~g~~v~~~apT~~Aa~~L~~~~~~------~a~ 71 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGD-RVSVLQGPAGTGKTTLLKALAE-ALEA-AGKRVIGLAPTNKAAKELREKTGI------EAQ 71 (196)
T ss_dssp -S-HHHHHHHHHHHHCTC-SEEEEEESTTSTHHHHHHHHHH-HHHH-TT--EEEEESSHHHHHHHHHHHTS-------EE
T ss_pred CCCHHHHHHHHHHHhcCC-eEEEEEECCCCCHHHHHHHHHH-HHHh-CCCeEEEECCcHHHHHHHHHhhCc------chh
Confidence 489999999999987543 3589999999999998877554 4443 368999999999999999888532 112
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhH
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPES 559 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~ 559 (806)
+++++...... .... .......+++||||||||......
T Consensus 72 Ti~~~l~~~~~----------------~~~~-------------------------~~~~~~~~~vliVDEasmv~~~~~ 110 (196)
T PF13604_consen 72 TIHSFLYRIPN----------------GDDE-------------------------GRPELPKKDVLIVDEASMVDSRQL 110 (196)
T ss_dssp EHHHHTTEECC----------------EECC-------------------------SSCC-TSTSEEEESSGGG-BHHHH
T ss_pred hHHHHHhcCCc----------------cccc-------------------------ccccCCcccEEEEecccccCHHHH
Confidence 22222111000 0000 000023568999999999988866
Q ss_pred HHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccCh-hHHHHhhhhh
Q 038509 560 MIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCH-PAILDLPSKL 638 (806)
Q Consensus 560 li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~-p~I~~~~n~l 638 (806)
...+......+.++|++|||+||+|+ +.+ +.|..+.... .....|++.+|.. +.+.+. ...
T Consensus 111 ~~ll~~~~~~~~klilvGD~~QL~pV---------~~g-~~~~~l~~~~-------~~~~~L~~i~Rq~~~~~~~~-~~~ 172 (196)
T PF13604_consen 111 ARLLRLAKKSGAKLILVGDPNQLPPV---------GAG-SPFADLQESG-------GITVELTEIRRQKDPELREA-AKA 172 (196)
T ss_dssp HHHHHHS-T-T-EEEEEE-TTSHHHC---------STT-CHHHHHCGCS-------TTEEEE---SCCCCTHHHHH-HHH
T ss_pred HHHHHHHHhcCCEEEEECCcchhcCC---------cCC-cHHHHHHhcC-------CCeEEeChhhcCCChHHHHH-HHH
Confidence 66665444447899999999999999 322 4555554421 1156799999987 455544 455
Q ss_pred hcCCcc
Q 038509 639 FYGGEL 644 (806)
Q Consensus 639 fY~~~L 644 (806)
+.+|..
T Consensus 173 ~~~g~~ 178 (196)
T PF13604_consen 173 IREGDA 178 (196)
T ss_dssp HCTT--
T ss_pred HHcCCC
Confidence 555543
No 31
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.80 E-value=5.6e-19 Score=195.28 Aligned_cols=207 Identities=23% Similarity=0.266 Sum_probs=143.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceec
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTK 620 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~ 620 (806)
..+.|++|||| |+..+.++..+..++.. .+...+||-.| +||.... ..+.++|.... + .+.+.-...
T Consensus 527 ~~~kh~vIDea-qdys~~q~~~~r~l~~~-as~tivgd~gq---~i~~~~~-----e~~~~e~~~~~--f-ed~~~e~v~ 593 (747)
T COG3973 527 RRLKHTVIDEA-QDYSRFQFTDNRTLAER-ASMTIVGDYGQ---VIYDEAQ-----ELSPMERMDVF--F-EDPSFEYVG 593 (747)
T ss_pred ccccceeechh-hhcchhhhHHHhhhhhh-ccceEeccCCc---eehhhhc-----ccCHHHHHHHH--H-hCCCchhhh
Confidence 46899999999 99999999999988854 57899999999 9887653 23556665432 1 112233457
Q ss_pred ccccccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHH
Q 038509 621 LVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDII 700 (806)
Q Consensus 621 L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v 700 (806)
|..+|||+.+|.+|+|.+.-++ .. . .....+...|..... -.|..-.+.+.+++
T Consensus 594 l~~syrSt~eI~efan~~l~d~--~~------~-----~p~~rsge~p~~i~~-------------~~ne~l~qr~~~ii 647 (747)
T COG3973 594 LIASYRSTAEIDEFANSLLPDR--FR------I-----HPLTRSGEKPAVIMS-------------VANEELVQRNPDII 647 (747)
T ss_pred hhhhhcChHHHHHHHHHhccCC--Cc------c-----chhhcCCCCceeeec-------------cchHHHHHhhHHHH
Confidence 9999999999999999876310 00 0 001112223332221 12344455556666
Q ss_pred HHHHHcCCCCCCeEEEEcCChHHHHHHHHHhhcCCC------------CCeEECcccccccceeeEEEEEeccCCCcCcc
Q 038509 701 NKLRENTELNETDIGVITPYRQQVLKIKKVLETWDM------------PDVKVGTVEQFQGQEREVIIVSTVRSTVKHNE 768 (806)
Q Consensus 701 ~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L~~~~~------------~~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~ 768 (806)
.++.+. ..+.||||++.-.|+..+...|++.+. .+..|--|...||.|||.||+.... ...+.
T Consensus 648 ~~mkk~---~~etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~e~t- 722 (747)
T COG3973 648 PRMKKR---GSETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IVEET- 722 (747)
T ss_pred HHHHhc---CCCceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hhccc-
Confidence 666554 257899999999999999999976421 3466888999999999999985432 21111
Q ss_pred cccccccccCCCCCceeecccccccceEEEEc
Q 038509 769 FDRTYCLGFLSNPRRFNVAITRARSLLIIVGN 800 (806)
Q Consensus 769 ~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn 800 (806)
-.+.|.||||+|||-+.|+|+|-
T Consensus 723 ---------e~~~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 723 ---------EQDLRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred ---------ccchhhHHHHHHHHHHHHHHhhc
Confidence 14678899999999999999874
No 32
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.76 E-value=2.6e-17 Score=207.69 Aligned_cols=178 Identities=16% Similarity=0.197 Sum_probs=119.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHH--hCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYS--TREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~--~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
.||++|++|+..++...+ ..++|+|+|||||||++...+..+-. ...+.+|+.+|||+.||..|.+ . ++.
T Consensus 967 ~Lt~~Q~~Av~~il~s~d-r~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e--~-----Gi~ 1038 (1747)
T PRK13709 967 GLTSGQRAATRMILESTD-RFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS--A-----GVD 1038 (1747)
T ss_pred CCCHHHHHHHHHHHhCCC-cEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh--c-----Ccc
Confidence 699999999999997543 47899999999999987654443221 2245689999999999998864 1 334
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcch
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
..+|+++...... +. .....+....+++||||||+....
T Consensus 1039 A~TI~s~L~~~~~------------------~~-----------------------~~~~~~~~~~~llIVDEaSMv~~~ 1077 (1747)
T PRK13709 1039 AQTLASFLHDTQL------------------QQ-----------------------RSGETPDFSNTLFLLDESSMVGNT 1077 (1747)
T ss_pred hhhHHHHhccccc------------------cc-----------------------ccccCCCCCCcEEEEEccccccHH
Confidence 4455554321100 00 000011123489999999999988
Q ss_pred hHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhh
Q 038509 558 ESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSK 637 (806)
Q Consensus 558 e~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~ 637 (806)
.+...+......++++|||||++||+|+ +.+ ..|..+.... ...+..|.+.+|-.+++.... .
T Consensus 1078 ~m~~Ll~~~~~~garvVLVGD~~QL~sV---------~aG-~~f~~l~~~~------~i~~~~L~eI~RQ~~~lr~Av-~ 1140 (1747)
T PRK13709 1078 DMARAYALIAAGGGRAVSSGDTDQLQAI---------APG-QPFRLMQTRS------AADVAIMKEIVRQTPELREAV-Y 1140 (1747)
T ss_pred HHHHHHHhhhcCCCEEEEecchHhcCCC---------CCC-hHHHHHHHhC------CCCeEEeCeEEcCcHHHHHHH-H
Confidence 7777666544446899999999999999 444 5566665431 123567999999987544443 4
Q ss_pred hhcCCc
Q 038509 638 LFYGGE 643 (806)
Q Consensus 638 lfY~~~ 643 (806)
.+..|.
T Consensus 1141 ~~~~g~ 1146 (1747)
T PRK13709 1141 SLINRD 1146 (1747)
T ss_pred HHHccC
Confidence 455554
No 33
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.76 E-value=3.2e-17 Score=204.13 Aligned_cols=174 Identities=17% Similarity=0.191 Sum_probs=118.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH--HhCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY--STREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll--~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
.||+.|++|+..++...+ ..++|+|+||||||+++...+..+. ....+.+|+.+|||+.||..|.+. ++.
T Consensus 835 ~Lt~~Qr~Av~~iLts~d-r~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e~-------Gi~ 906 (1623)
T PRK14712 835 KLTSGQRAATRMILETSD-RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSA-------GVD 906 (1623)
T ss_pred ccCHHHHHHHHHHHhCCC-ceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHHh-------Cch
Confidence 799999999999997544 4799999999999998755433221 123467899999999999999641 234
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcch
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
..+++++...... +.. ....+....+++||||||+....
T Consensus 907 A~TIasfL~~~~~------------------~~~-----------------------~~~~~~~~~~llIVDEASMV~~~ 945 (1623)
T PRK14712 907 AQTLASFLHDTQL------------------QQR-----------------------SGETPDFSNTLFLLDESSMVGNT 945 (1623)
T ss_pred HhhHHHHhccccc------------------hhh-----------------------cccCCCCCCcEEEEEccccccHH
Confidence 4455554321100 000 00001123589999999999988
Q ss_pred hHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhh
Q 038509 558 ESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSK 637 (806)
Q Consensus 558 e~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~ 637 (806)
.+...+..+...++++||+||++||+|+ +.+ +.|+.+.... ...+..|.+.+|-.+++......
T Consensus 946 ~m~~ll~~~~~~garvVLVGD~~QL~sV---------~aG-~~F~~lq~~~------~~~ta~L~eI~RQ~~elr~AV~~ 1009 (1623)
T PRK14712 946 DMARAYALIAAGGGRAVASGDTDQLQAI---------APG-QPFRLQQTRS------AADVVIMKEIVRQTPELREAVYS 1009 (1623)
T ss_pred HHHHHHHhhhhCCCEEEEEcchhhcCCC---------CCC-HHHHHHHHcC------CCCeEEeCeeecCCHHHHHHHHH
Confidence 7766666444446899999999999999 433 5566665431 12356799999998887776654
Q ss_pred h
Q 038509 638 L 638 (806)
Q Consensus 638 l 638 (806)
+
T Consensus 1010 ~ 1010 (1623)
T PRK14712 1010 L 1010 (1623)
T ss_pred H
Confidence 3
No 34
>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=99.71 E-value=9.3e-17 Score=202.80 Aligned_cols=174 Identities=20% Similarity=0.173 Sum_probs=102.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC-----------CCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhccc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK-----------QTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEF 609 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~-----------~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~ 609 (806)
.+|+||+|||+ |||++.++..|..++.. ...+++|||++| +||+|++++. .+|.++.....
T Consensus 390 ~r~~~iLVDEF-QDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ---SIY~FRGAd~----~~f~~~~~~~~ 461 (1141)
T TIGR02784 390 RGIDHILVDEA-QDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ---SIYSFQGADP----DRFAEERREFN 461 (1141)
T ss_pred cCCCEEEEECC-cCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc---cCccccCCCH----HHHHHHHHHHH
Confidence 58999999999 99999999988877641 357999999999 9999996544 45544322100
Q ss_pred --cc-CCCccceecccccccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCC---
Q 038509 610 --YR-NGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGN--- 683 (806)
Q Consensus 610 --~~-~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~--- 683 (806)
+. ...+.....|..||||+++|+++.|.+|-+............. ......-+....++.++.....+..+..
T Consensus 462 ~~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~~~~~-~~~~~~~~~~~g~v~l~~~~~~~~~~~~~~~ 540 (1141)
T TIGR02784 462 RKVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDL-VVHEAIRSDLPGEVELWDLISPEEGEDPEDW 540 (1141)
T ss_pred HhhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCCcchh-hcccccccCCCCceEEEeccCcccccccccc
Confidence 00 0012234679999999999999999999652211100000000 0000000011112333321111000000
Q ss_pred -------CCCccCHHHHHHHHHHHHHHHHcCC---------CCCCeEEEEcCChHH
Q 038509 684 -------NPSWFNRFEVSKVVDIINKLRENTE---------LNETDIGVITPYRQQ 723 (806)
Q Consensus 684 -------~~S~~N~~Ea~~V~~~v~~L~~~~~---------~~~~dIgIItPy~~Q 723 (806)
........||..|++.|..++..+. +.++||+||++.+.+
T Consensus 541 ~~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~ 596 (1141)
T TIGR02784 541 TAPVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDA 596 (1141)
T ss_pred ccccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCch
Confidence 0000122489999999999987632 578999999997643
No 35
>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=99.70 E-value=1.3e-17 Score=181.41 Aligned_cols=66 Identities=35% Similarity=0.447 Sum_probs=57.5
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhcc
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
||++|+++|.. . .++++|.|+||||||+||++++.+++... ++.+||++||||+||++|.+|+...
T Consensus 1 l~~eQ~~~i~~-~----~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 1 LTDEQRRIIRS-T----EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp S-HHHHHHHHS------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-C----CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHh
Confidence 79999999987 3 36799999999999999999999999865 6789999999999999999999763
No 36
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.68 E-value=1.4e-16 Score=172.49 Aligned_cols=355 Identities=17% Similarity=0.151 Sum_probs=203.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhccc-----cc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNE-----VA 474 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~-----~~ 474 (806)
+++..|++|+-.+. .++-.|.|-+|||||.+|+..++.+...+|+.+|+++.+|...+..+..++.+.- ..
T Consensus 162 nfD~~Q~kaa~~~~----~G~qrIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~~~e~~ 237 (660)
T COG3972 162 NFDTDQTKAAFQSG----FGKQRIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFMRVEKQ 237 (660)
T ss_pred cccchhheeeeecC----CchhhhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHHHhhcC
Confidence 67888888765433 2456899999999999999999999998999999999999999999988876521 11
Q ss_pred CcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCC
Q 038509 475 GIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQA 554 (806)
Q Consensus 475 ~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~ 554 (806)
.-....+++.+......+.....+...|...+..|..... .++-.|..+..+ .-...-||||+|||+ |+
T Consensus 238 pdW~~~l~~h~wgG~t~~g~y~~~~~~~~~~~~~fsg~g~----~F~~aC~eli~~------~~~~~~yD~ilIDE~-QD 306 (660)
T COG3972 238 PDWGTKLFCHNWGGLTKEGFYGMYRYICHYYEIPFSGFGN----GFDAACKELIAD------INNKKAYDYILIDES-QD 306 (660)
T ss_pred CCccceEEEeccCCCCCCcchHHHHHHhcccccccCCCCc----chHHHHHHHHHh------hhccccccEEEeccc-cc
Confidence 1112234455444433333333333333222222211000 011111111111 112456899999999 99
Q ss_pred cchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhccc-------ccCCCccceecccccccC
Q 038509 555 SEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEF-------YRNGDEGYVTKLVRNYRC 627 (806)
Q Consensus 555 ~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~-------~~~~~~~~v~~L~~nYRs 627 (806)
...+.+...-.+....+++|.++|.-| .+-... .---+.++.... .+. .+..-+.|.+.||.
T Consensus 307 FP~~F~~Lcf~~tkd~KrlvyAyDelQ---nls~~~-------m~ppe~iFg~d~dg~P~V~l~r-adr~DiVL~kCYRn 375 (660)
T COG3972 307 FPQSFIDLCFMVTKDKKRLVYAYDELQ---NLSNVK-------MRPPEEIFGPDSDGEPRVNLAR-ADRNDIVLKKCYRN 375 (660)
T ss_pred CCHHHHHHHHHHhcCcceEEEehHhhh---cccccC-------CCCHHHhcCcCCCCCccccccc-CccccchHHHHhcC
Confidence 966555544445556689999999999 422211 001111111100 000 11122469999999
Q ss_pred hhHHHHhhhhh---hcCCccc---------------------ccCCcc-ccccccccccCCCCCCCEEEEeccCcccccC
Q 038509 628 HPAILDLPSKL---FYGGELL---------------------ACKDDA-TSLSSAKVDIFPNKDFPVLFFGIQGCDEREG 682 (806)
Q Consensus 628 ~p~I~~~~n~l---fY~~~L~---------------------~~~~~~-~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~ 682 (806)
.|..+-++-.+ .|.+-.+ .+.... .+........++....|-..+..-+.+
T Consensus 376 sp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~p~~i~~fi~fd---- 451 (660)
T COG3972 376 SPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHKPTAIHLFIGFD---- 451 (660)
T ss_pred CchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCChhhhheeeccC----
Confidence 88876654433 1221110 000000 000000111112111111111111111
Q ss_pred CCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcCC----hHHHHHHHHHhhcCCC------------------CCeE
Q 038509 683 NNPSWFNRFEVSKVVDIINKLRENTELNETDIGVITPY----RQQVLKIKKVLETWDM------------------PDVK 740 (806)
Q Consensus 683 ~~~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPy----~~Qv~~i~~~L~~~~~------------------~~v~ 740 (806)
--+.|+.+++..|++..+ .++.++||.||.+- |.-...+...|.++++ ..|.
T Consensus 452 -----~~~deivwi~~qI~~~~e-deLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dgkvt 525 (660)
T COG3972 452 -----NGPDEIVWIIIQIKEFRE-DELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDGKVT 525 (660)
T ss_pred -----CcchhhHHHHHHHHHhcc-cccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCceEE
Confidence 134589999998888444 47999999999763 3344555555554322 1478
Q ss_pred ECcccccccceeeEEEEEeccCCCcCcccccccccccCCCCCceeecccccccceEEEEc
Q 038509 741 VGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLIIVGN 800 (806)
Q Consensus 741 V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn 800 (806)
+.+|...+|.|+.+|+.-.+..- +.|....++-+++||||.|.-+-|+|-
T Consensus 526 is~IyrAKGnEapfV~aL~a~~l----------s~~la~~RN~LfTamTRSkawvrv~gl 575 (660)
T COG3972 526 ISRIYRAKGNEAPFVYALGAAYL----------STGLADWRNILFTAMTRSKAWVRVVGL 575 (660)
T ss_pred eeeehhccCCCCcEEEEehhhhh----------CccchhHHhHHHHHHhhhhhhhhhhcc
Confidence 89999999999999998766542 245556677999999999999988883
No 37
>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=99.68 E-value=1.5e-16 Score=166.10 Aligned_cols=49 Identities=24% Similarity=0.276 Sum_probs=38.6
Q ss_pred EECcccccccceeeEEEEEeccCCCcCcccccccccccC-CCCCceeecccccccceEEE
Q 038509 740 KVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFL-SNPRRFNVAITRARSLLIIV 798 (806)
Q Consensus 740 ~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl-~~~rrlnVAlTRAK~~LiIv 798 (806)
.+.|++++||+|+|.|++....... .... .+++++|||+||||..|+|+
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 6999999999999999875543321 1223 36899999999999999986
No 38
>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=99.67 E-value=8.5e-16 Score=199.35 Aligned_cols=175 Identities=17% Similarity=0.205 Sum_probs=115.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHH---HHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVE---AILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~---~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.||++|++|+..++...+ ..++|+|+||||||+++.. .+.+++.. .+.+|+.+|||+.||.+|.+. ++
T Consensus 1019 ~Lt~~Q~~Ai~~il~~~~-~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~-~g~~v~glApT~~Aa~~L~~~-------g~ 1089 (1960)
T TIGR02760 1019 RLTHGQKQAIHLIISTKD-RFVAVQGLAGVGKTTMLESRYKPVLQAFES-EQLQVIGLAPTHEAVGELKSA-------GV 1089 (1960)
T ss_pred CCCHHHHHHHHHHHhCCC-cEEEEEeCCCCCHHHhHHHHHHHHHHHHHh-cCCeEEEEeChHHHHHHHHhc-------CC
Confidence 699999999999997554 3689999999999999854 34444443 467899999999999999641 23
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcc
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASE 556 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~e 556 (806)
...+++++..... .... .. .....+++||||||+...
T Consensus 1090 ~a~Ti~s~l~~~~------------------~~~~-----------------------~~--~~~~~~v~ivDEasMv~~ 1126 (1960)
T TIGR02760 1090 QAQTLDSFLTDIS------------------LYRN-----------------------SG--GDFRNTLFILDESSMVSN 1126 (1960)
T ss_pred chHhHHHHhcCcc------------------cccc-----------------------cC--CCCcccEEEEEccccccH
Confidence 3334433321000 0000 00 012458999999999998
Q ss_pred hhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccCh--hHHHHh
Q 038509 557 PESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCH--PAILDL 634 (806)
Q Consensus 557 pe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~--p~I~~~ 634 (806)
..+...+......+.++||+||++||+|+ +.+.. |+.+.... ......|.+.+|-. +++.+.
T Consensus 1127 ~~~~~l~~~~~~~~ak~vlvGD~~QL~sV---------~aG~~-f~~~~~~~------~~~~~~L~~I~RQ~~~~~l~~a 1190 (1960)
T TIGR02760 1127 FQLTHATELVQKSGSRAVSLGDIAQLQSL---------AAGKP-FELAITFD------IIDTAIMKEIVRQNNSAELKAA 1190 (1960)
T ss_pred HHHHHHHHhccCCCCEEEEeCChhhcCCC---------CCCcC-HHHHHhcC------CCCeEEeeeEecCCCCHHHHHH
Confidence 87777666544566899999999999998 44433 34343321 12245799999983 555444
Q ss_pred hhhhhcCCc
Q 038509 635 PSKLFYGGE 643 (806)
Q Consensus 635 ~n~lfY~~~ 643 (806)
. ..+-++.
T Consensus 1191 ~-~~~~~~~ 1198 (1960)
T TIGR02760 1191 H-NSLDKRS 1198 (1960)
T ss_pred H-HHHhcCc
Confidence 3 3443443
No 39
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.62 E-value=1.3e-16 Score=186.07 Aligned_cols=436 Identities=28% Similarity=0.378 Sum_probs=297.3
Q ss_pred ceEEEEEEecchhHHHHHHHHHHhhccCCce----ecCCCCcccccccCCCCCCCC--CCCHHHHHHHHHHHh--CCCCC
Q 038509 348 SLYNVSFTYNRINMRRMYQAVQAAENLEPNL----LFPSQSTKRRSIKAAPFVPFN--SLNEEQTRSVEIILG--CKGAP 419 (806)
Q Consensus 348 ~~~~v~f~~~r~~~~r~~~Al~~~~~l~~~~----lfp~~~~~~~~~~~~~~~~~~--~LN~eQ~~AV~~il~--~~~~~ 419 (806)
..++..|..++..+..++.|++......-.+ +.|.... .....+.... .+|..|+.++..+.- ....+
T Consensus 66 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~e~~ 141 (775)
T KOG1804|consen 66 LEVELQFQLNRAPLCESSFAVERISDSTYKFPFSSLLPSIEW----YPEVQWAEKCEPRLNALQKGALLAITVPLLRELP 141 (775)
T ss_pred chhhHHHhhhhhhhccccchhhhcccccceeeeeccCCCCCC----ccccccchhcchhhhhhhcccccceeccccccCC
Confidence 3455666777777888888887654322111 1222111 1111122222 788888888776542 33457
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc-cccCcccccEEEcccCCCCCCCCChhh
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN-EVAGIKENEILRLNATSRPYEDVPTDF 498 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~-~~~~~~~~~i~Rl~~~~r~~~~i~~~~ 498 (806)
|.++.|+ |+|+|.+++..+....... ..+++++.++++|+|...+.+... .....+..+-+|+....+.....++.+
T Consensus 142 P~L~~G~-~~~~~~~~~~~~~~~~~~~-~~k~~~~l~~~~~~~~~ir~y~~~~v~~~~~~~~~~r~~~~~r~l~~~~pvv 219 (775)
T KOG1804|consen 142 PSLLIGP-GTGETLELAQAVKSLLQQE-EAKILILLHSESAADIYIREYLHPYVEEGLPEATPLRVYSRKRPLAQVNPVV 219 (775)
T ss_pred cccccCC-ccccceeecchhhcccccc-cccceEeechhHHHHHHHHHhhcccccccccccccccceeecccccccCCce
Confidence 8999999 9999999998888777654 789999999999988887776542 112233333348877777777777888
Q ss_pred hhhhch-h-hhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcccCCCEEEEe
Q 038509 499 IRFCFF-E-ESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLCTKQTVVVLA 576 (806)
Q Consensus 499 ~~~~~~-~-~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLv 576 (806)
.++|.. + ...+..+....+.+++|++.|...+......+...+.|+|++.|||.|+++++.+.||+ +...+.+++|+
T Consensus 220 ~~~~~if~~~~~~~~pq~~~~~~Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~-~~~~~~~~~L~ 298 (775)
T KOG1804|consen 220 LQYCFIFDSHITFRRPQVEDLFKHRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLA-LPSSGTRIVLA 298 (775)
T ss_pred eeeeeeccchhhhccchhhhhcccceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccc-cCCCCceeeec
Confidence 888743 2 23344466666777999999988877666677888999999999999999999999997 55577899999
Q ss_pred cCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccChhHHHHhhhhhhcCCcccccCCccccccc
Q 038509 577 GDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCHPAILDLPSKLFYGGELLACKDDATSLSS 656 (806)
Q Consensus 577 GDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~ 656 (806)
||+.||-|.+++.......+. .+..++.. .|.- ....-+-.+.|||++-.|..+.+..||...........+..
T Consensus 299 ~~~~ql~~~l~s~~~~~~~~~-~~~~~~~~--~y~~-~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~-- 372 (775)
T KOG1804|consen 299 GPHLQLTPFLNSVAREEQALH-LLLCRLPE--PYIV-FGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQP-- 372 (775)
T ss_pred ccccccccchhhhhhhhhhhh-hccccccc--cccc-ccCCCcCCccchHHHHHHHHhcchHHHhhcccccccccccc--
Confidence 999999999888765544443 33333321 1211 12233457899999999999999999965433322211110
Q ss_pred cccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHHHHc-----CCCCCCeEEEEcCChHHHHHHHHHh
Q 038509 657 AKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKLREN-----TELNETDIGVITPYRQQVLKIKKVL 731 (806)
Q Consensus 657 ~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L~~~-----~~~~~~dIgIItPy~~Qv~~i~~~L 731 (806)
......|..|....+.+.+..++..|+|..|...++..+..+.+. .......+|++++|..|+..++..|
T Consensus 373 -----~~rl~~p~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil 447 (775)
T KOG1804|consen 373 -----AHRLHYPLTFSTARGEDVRAKSSTAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHIL 447 (775)
T ss_pred -----cccccccccccccccccccccchhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeee
Confidence 011145788888888888888888999999999999988888642 1224567999999999999999988
Q ss_pred hcCCCCCeEECcccccccceee---EEEEEeccCCCcCc-ccccccccccCCCCCceeecccccccceEEEEcccccc
Q 038509 732 ETWDMPDVKVGTVEQFQGQERE---VIIVSTVRSTVKHN-EFDRTYCLGFLSNPRRFNVAITRARSLLIIVGNPHIVC 805 (806)
Q Consensus 732 ~~~~~~~v~V~TVd~fQG~E~d---vVIiS~vrs~~~~~-~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn~~~L~ 805 (806)
.+ ..++.+...--.+|..+. .|++++........ .......+| .+...||.|+|||-...-.+|+++.|+
T Consensus 448 ~D--eAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~g--l~rsLler~l~r~~~~~~~~g~~~~l~ 521 (775)
T KOG1804|consen 448 VD--EAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELG--LDRSLLERALTRAQSLVAVVGDYNALC 521 (775)
T ss_pred ec--ccccccCcccccccccccceeEEEEccCcccccccccchhhhhhc--ccHHHHHHHHHHHhhccccCCCccccc
Confidence 43 344444445555555544 67777654432111 001111222 347889999999999999999998875
No 40
>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=99.51 E-value=1.1e-13 Score=153.52 Aligned_cols=168 Identities=20% Similarity=0.259 Sum_probs=104.8
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChhhh
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTDFI 499 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~ 499 (806)
.++|.|.||||||.++..++.++.....+.++++++++....+.+.+.+...... ......+.
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~-----------------~~~~~~~~ 65 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNP-----------------KLKKSDFR 65 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhccc-----------------chhhhhhh
Confidence 3799999999999999999988843346788999999999999998888752100 00000000
Q ss_pred hhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcch-----------hHHHHHhhccc
Q 038509 500 RFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEP-----------ESMIPIANLCT 568 (806)
Q Consensus 500 ~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~ep-----------e~li~L~~l~~ 568 (806)
.... .+.... ........||+|||||| |.+.. .++.-+..
T Consensus 66 ~~~~------------~i~~~~-------------~~~~~~~~~DviivDEA-qrl~~~~~~~~~~~~~~~L~~i~~--- 116 (352)
T PF09848_consen 66 KPTS------------FINNYS-------------ESDKEKNKYDVIIVDEA-QRLRTKGDQYNNFSEPNQLDEIIK--- 116 (352)
T ss_pred hhHH------------HHhhcc-------------cccccCCcCCEEEEehh-HhhhhccccccccccHHHHHHHHh---
Confidence 0000 000000 12234568999999999 65554 33433332
Q ss_pred CCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccccccC--hhHHHHhhhhhhcCCc
Q 038509 569 KQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRC--HPAILDLPSKLFYGGE 643 (806)
Q Consensus 569 ~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs--~p~I~~~~n~lfY~~~ 643 (806)
....+|++-|+.| +|+.... .....++.+...... .......|..|||| .+++.+|.+.+++...
T Consensus 117 ~~kv~v~f~D~~Q---~i~~~e~----~~~~~l~~~~~~~~~---~~~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 117 RAKVVVFFYDENQ---SIRPSEI----GTLENLEEIAENLGI---EVRHFFELKTQFRCHGSKEYIDWIDNLLDNKN 183 (352)
T ss_pred cCCEEEEEEcccc---EeecccC----CCHHHHHHHHHhcCC---ccccCcCcCcceecCCCHHHHHHHHHHHhccc
Confidence 3446888999999 8776541 122334444332110 00111279999999 9999999999987543
No 41
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.35 E-value=8.3e-13 Score=159.52 Aligned_cols=135 Identities=22% Similarity=0.227 Sum_probs=91.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.++++|.+++..++.. +..+|.|+||||||+++...+. ++... ...+++.+++..|+-.+.+--. ....
T Consensus 319 ~~~~~q~~a~~vl~~d---e~smlt~~~~~~~~~~~~~~~~-l~~~~-~~~~l~aa~tG~a~~~l~e~tg------~~a~ 387 (696)
T COG0507 319 RLSLEQKEALDVLVVD---EVSMLTGGPGTGKTTAIKAIAR-LIKEG-DGDQLLAAPTGKAAKRLNESTG------LEAR 387 (696)
T ss_pred CcCcccHHHHHHHhcC---CeeEEeccCCcchHHHHHHHHH-HHHhc-CCcEEeechhhHHHHHHHHhhC------cchh
Confidence 7899999999999874 3469999999999998766554 44433 3459999999999988877531 1122
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhH
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPES 559 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~ 559 (806)
+++|......... ........|.+||||+++... ..
T Consensus 388 ti~~~~~~~~~~~-------------------------------------------~~~~~~~~d~~iiDe~~ml~~-~~ 423 (696)
T COG0507 388 TIHRLLGLWEKTG-------------------------------------------NNEEPLDGDLLIIDEASMLDT-SL 423 (696)
T ss_pred HHHHHHhccccCC-------------------------------------------CCCCccccceeEEehhhhHHH-HH
Confidence 3333322111000 001223569999999988877 33
Q ss_pred HHHHhhcccCCCEEEEecCCCCCCceeecc
Q 038509 560 MIPIANLCTKQTVVVLAGDPKQLGPVIYSK 589 (806)
Q Consensus 560 li~L~~l~~~~~~lVLvGDp~QL~PvI~s~ 589 (806)
..-+.....+..++|++||..||+++.-+.
T Consensus 424 ~~~l~~~i~~~a~~i~vGD~~ql~~v~~g~ 453 (696)
T COG0507 424 AFGLLSAIGKLAKVILVGDVDQLPSVGAGA 453 (696)
T ss_pred hhhhhcccccCCeEEEeCCHHhcCCCCCCc
Confidence 333333445678999999999999985554
No 42
>PF13245 AAA_19: Part of AAA domain
Probab=99.29 E-value=7e-12 Score=106.95 Aligned_cols=59 Identities=44% Similarity=0.710 Sum_probs=50.1
Q ss_pred HHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHh--CCCCeEEEEecchHHHHHHHHHH
Q 038509 408 SVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYST--REHSRILVCAASNSAADHMLERL 468 (806)
Q Consensus 408 AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~--~~~~rILv~apSN~Aad~l~erL 468 (806)
||..++. +.+.++|+||||||||+|+++++..++.. .++++||++||||.|+|+|.+|+
T Consensus 2 av~~al~--~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALA--GSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHh--hCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 5666665 23457789999999999999999999853 34789999999999999999999
No 43
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=99.27 E-value=7.5e-12 Score=139.40 Aligned_cols=63 Identities=29% Similarity=0.449 Sum_probs=49.2
Q ss_pred CCCHHHHHHHHHHHh---CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHH
Q 038509 400 SLNEEQTRSVEIILG---CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHM 464 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~---~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l 464 (806)
.||++|++++..++. ......+.|.||+|||||+++-..+.. +.. .+..++++|||..||.++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~-~~~-~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDY-LRS-RGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHH-hcc-ccceEEEecchHHHHHhc
Confidence 489999999888743 233345799999999999987665554 432 467899999999999887
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=99.26 E-value=3.3e-11 Score=122.00 Aligned_cols=153 Identities=24% Similarity=0.341 Sum_probs=78.0
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.+|.+|+.++..++. ...+++.||+|||||...+.++++++..+.-.+|+++-|+-.+-+.+ +.-++
T Consensus 4 p~~~~Q~~~~~al~~---~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~l----------GflpG 70 (205)
T PF02562_consen 4 PKNEEQKFALDALLN---NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDL----------GFLPG 70 (205)
T ss_dssp --SHHHHHHHHHHHH----SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT--------------SS--
T ss_pred CCCHHHHHHHHHHHh---CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCcccc----------ccCCC
Confidence 579999999999995 45689999999999999999999998877777888887765442222 11111
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCc-hhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchh
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPP-REALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPE 558 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~-~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe 558 (806)
++ .+.+.+.+.++...-+..+.... ...+.+..|-+...... ....+ .-.+|||||| |-+.|+
T Consensus 71 ~~---------~eK~~p~~~p~~d~l~~~~~~~~~~~~~~~~~Ie~~~~~~i---RGrt~---~~~~iIvDEa-QN~t~~ 134 (205)
T PF02562_consen 71 DL---------EEKMEPYLRPIYDALEELFGKEKLEELIQNGKIEIEPLAFI---RGRTF---DNAFIIVDEA-QNLTPE 134 (205)
T ss_dssp ----------------TTTHHHHHHHTTTS-TTCHHHHHHTTSEEEEEGGGG---TT--B----SEEEEE-SG-GG--HH
T ss_pred CH---------HHHHHHHHHHHHHHHHHHhChHhHHHHhhcCeEEEEehhhh---cCccc---cceEEEEecc-cCCCHH
Confidence 10 00111111111100011111111 22333444444433221 11222 2379999999 888888
Q ss_pred HHHHHhhcccCCCEEEEecCCCC
Q 038509 559 SMIPIANLCTKQTVVVLAGDPKQ 581 (806)
Q Consensus 559 ~li~L~~l~~~~~~lVLvGDp~Q 581 (806)
.+.-+..-.+.+.++|+.||+.|
T Consensus 135 ~~k~ilTR~g~~skii~~GD~~Q 157 (205)
T PF02562_consen 135 ELKMILTRIGEGSKIIITGDPSQ 157 (205)
T ss_dssp HHHHHHTTB-TT-EEEEEE----
T ss_pred HHHHHHcccCCCcEEEEecCcee
Confidence 88877766778899999999999
No 45
>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=99.25 E-value=2.4e-11 Score=158.52 Aligned_cols=144 Identities=16% Similarity=0.154 Sum_probs=98.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.||++|++||..++...+ ...+|+|+||||||+++..++ ++++. .+.+|.++|||+.||..|.+.... ...
T Consensus 429 ~Ls~~Q~~Av~~il~s~~-~v~ii~G~aGTGKTt~l~~l~-~~~~~-~G~~V~~lAPTgrAA~~L~e~~g~------~A~ 499 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTK-RFIIINGFGGTGSTEIAQLLL-HLASE-QGYEIQIITAGSLSAQELRQKIPR------LAS 499 (1960)
T ss_pred CCCHHHHHHHHHHHhCCC-CeEEEEECCCCCHHHHHHHHH-HHHHh-cCCeEEEEeCCHHHHHHHHHHhcc------hhh
Confidence 699999999999997543 468999999999998766544 55554 478999999999999999876532 122
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhH
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPES 559 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~ 559 (806)
+++++......... ...+..| + ....+...-++|||||||+....++
T Consensus 500 Ti~~~l~~l~~~~~-~~tv~~f-------------------------------l-~~~~~l~~~~vlIVDEAsMl~~~~~ 546 (1960)
T TIGR02760 500 TFITWVKNLFNDDQ-DHTVQGL-------------------------------L-DKSSPFSNKDIFVVDEANKLSNNEL 546 (1960)
T ss_pred hHHHHHHhhccccc-chhHHHh-------------------------------h-cccCCCCCCCEEEEECCCCCCHHHH
Confidence 33332211000000 0000000 0 0011112458999999999999887
Q ss_pred HHHHhhcccCCCEEEEecCCCCCCce
Q 038509 560 MIPIANLCTKQTVVVLAGDPKQLGPV 585 (806)
Q Consensus 560 li~L~~l~~~~~~lVLvGDp~QL~Pv 585 (806)
...|......+.++||+||+.||+++
T Consensus 547 ~~Ll~~a~~~garvVlvGD~~QL~sV 572 (1960)
T TIGR02760 547 LKLIDKAEQHNSKLILLNDSAQRQGM 572 (1960)
T ss_pred HHHHHHHhhcCCEEEEEcChhhcCcc
Confidence 77776555578899999999999997
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=7.5e-11 Score=129.85 Aligned_cols=64 Identities=20% Similarity=0.194 Sum_probs=43.2
Q ss_pred CeEECcccccccceeeEEEEEeccCCCcCcccccccccccCCCCCceeecccccccceEEEEcc
Q 038509 738 DVKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLIIVGNP 801 (806)
Q Consensus 738 ~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIvGn~ 801 (806)
.|.+.|+|++||.|||+||+.......-+........-.+-.+.|.|||||||||+.|+|++..
T Consensus 287 ~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 287 GVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp SEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred CcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 4778899999999999999987654421100000011123356789999999999999999864
No 47
>PRK10536 hypothetical protein; Provisional
Probab=99.07 E-value=6.6e-10 Score=115.44 Aligned_cols=152 Identities=18% Similarity=0.223 Sum_probs=85.4
Q ss_pred CCCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 397 PFNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 397 ~~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.+..+|..|..++..+.. ...+++.||+|||||+.+.....+.+....-.+|+++-|+=.+.+.+ . .
T Consensus 56 ~i~p~n~~Q~~~l~al~~---~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~L-G---------f 122 (262)
T PRK10536 56 PILARNEAQAHYLKAIES---KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDL-G---------F 122 (262)
T ss_pred cccCCCHHHHHHHHHHhc---CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhh-C---------c
Confidence 344789999999987765 34789999999999999888888666443445566655554443332 1 1
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhch--h--hhhccCCchhh-h--ccceeeeeeecccccccccCCcCCCCcEEEEe
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFF--E--ESIFKCPPREA-L--GRYRIIISTYMSSSLLNTNGIKRGNFSHIFLD 549 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~--~--~~~~~~~~~~~-L--~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViID 549 (806)
-+++ +.+.+.+|... + +........+. + ....|-+... ..+....+ .-++||||
T Consensus 123 LPG~-------------~~eK~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l---~ymRGrtl---~~~~vIvD 183 (262)
T PRK10536 123 LPGD-------------IAEKFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPF---AYMRGRTF---ENAVVILD 183 (262)
T ss_pred CCCC-------------HHHHHHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecH---HHhcCCcc---cCCEEEEe
Confidence 1111 11111111100 0 00000000111 1 1222322222 11111111 23799999
Q ss_pred cCCCCcchhHHHHHhhcccCCCEEEEecCCCC
Q 038509 550 EAGQASEPESMIPIANLCTKQTVVVLAGDPKQ 581 (806)
Q Consensus 550 EAsQ~~epe~li~L~~l~~~~~~lVLvGDp~Q 581 (806)
|| |-+.+..+..+..-.+.+.++|++||+.|
T Consensus 184 Ea-qn~~~~~~k~~ltR~g~~sk~v~~GD~~Q 214 (262)
T PRK10536 184 EA-QNVTAAQMKMFLTRLGENVTVIVNGDITQ 214 (262)
T ss_pred ch-hcCCHHHHHHHHhhcCCCCEEEEeCChhh
Confidence 99 66667676666656668889999999999
No 48
>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=98.99 E-value=2.8e-09 Score=135.55 Aligned_cols=168 Identities=17% Similarity=0.139 Sum_probs=104.0
Q ss_pred CCcEEEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhh----cCCCccHHHHHhhcccccCCCccc
Q 038509 542 NFSHIFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAET----FGLGKSYLERLFECEFYRNGDEGY 617 (806)
Q Consensus 542 ~Fd~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~----~gl~~Sl~eRL~~~~~~~~~~~~~ 617 (806)
.+.+|+|||+ |+++|.++..|..++.....++++||..|- +.++. +......+.++.....-.......
T Consensus 196 ~~~~I~VDeF-qdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~------~~~~~~~~lf~~~~~~~~~l~~~~~~~~~~~~~ 268 (1158)
T TIGR02773 196 KGAEIYIDGF-HSFTPQEYSVIGALMKKAKKVTVTLTLDGP------KSLEDELSLFRATSETYYRLKELAKELGIEVEE 268 (1158)
T ss_pred CCCEEEEccC-CCCCHHHHHHHHHHHHhCCcEEEEEEeCCc------cccCCccccchhHHHHHHHHHHHHHHcCCCccc
Confidence 3579999999 999999999999888877889999999993 11111 111112222332110000000001
Q ss_pred eecccccccC--hhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHH
Q 038509 618 VTKLVRNYRC--HPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSK 695 (806)
Q Consensus 618 v~~L~~nYRs--~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~ 695 (806)
...+..+++. ++++..+...++-.. ... ....+.++.++.... -..|++.
T Consensus 269 ~i~~~~~~~~~~~~~l~~Lek~l~~~~-~~~---------------~~~~~~~I~i~~~~~------------~~~Eae~ 320 (1158)
T TIGR02773 269 PIFLNEYRPNKKNKELAHLEKQFDARP-FNA---------------YIEEDGSISIFEANN------------RRAEVEG 320 (1158)
T ss_pred ccccccccCCCCCHHHHHHHHHHhhCC-CCC---------------CCCCCCCeEEEEcCC------------HHHHHHH
Confidence 1224455553 667777766555211 000 011122344443322 2249999
Q ss_pred HHHHHHHHHHcCCCCCCeEEEEcCC-hHHHHHHHHHhhcCCCCCeEECcc
Q 038509 696 VVDIINKLRENTELNETDIGVITPY-RQQVLKIKKVLETWDMPDVKVGTV 744 (806)
Q Consensus 696 V~~~v~~L~~~~~~~~~dIgIItPy-~~Qv~~i~~~L~~~~~~~v~V~TV 744 (806)
|+..|.+++...|+.++||+|+++. +.+...|...|.+.++|....+..
T Consensus 321 va~~I~~l~~~~g~~~~DIAVL~R~~~~y~~~i~~~f~~~~IP~~i~~~~ 370 (1158)
T TIGR02773 321 VARQILRLTRDKQYRYQDIAILTRDLEDYAKLVEAVFSDYEIPYFIDKKR 370 (1158)
T ss_pred HHHHHHHHHHcCCCChhheEEEeCCHHHHHHHHHHHHHhCCCCeEEecCc
Confidence 9999999988668999999999999 899999999999988886544443
No 49
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.89 E-value=6.2e-09 Score=104.18 Aligned_cols=69 Identities=23% Similarity=0.362 Sum_probs=60.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.+++.|.+++..++... ..++|.||+|||||++++..+.+.+...+..++|+++|++.++.++..++..
T Consensus 8 ~~~~~Q~~~~~~~~~~~--~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~ 76 (201)
T smart00487 8 PLRPYQKEAIEALLSGL--RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKK 76 (201)
T ss_pred CCCHHHHHHHHHHHcCC--CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHH
Confidence 78999999999988742 4589999999999999999888887765568999999999999999988875
No 50
>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=98.82 E-value=1.8e-08 Score=94.81 Aligned_cols=119 Identities=18% Similarity=0.164 Sum_probs=75.7
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChhhhh
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTDFIR 500 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~ 500 (806)
++|.||||||||+++...+.++.......++++++|++..++...+++...... ..-+.+...... .....
T Consensus 3 ~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~----~~~~~~~~~~~~---~~~~~-- 73 (144)
T cd00046 3 VLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE----GIKVGYLIGGTS---IKQQE-- 73 (144)
T ss_pred EEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhC----CcEEEEEecCcc---hhHHH--
Confidence 699999999999999999998887656789999999999999999988763210 011111111000 00000
Q ss_pred hhchhhhhccCCchhhhccceeeeeeecccccccc-cCCcCCCCcEEEEecCCCCcchhHHHH
Q 038509 501 FCFFEESIFKCPPREALGRYRIIISTYMSSSLLNT-NGIKRGNFSHIFLDEAGQASEPESMIP 562 (806)
Q Consensus 501 ~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~-~~~~~~~Fd~ViIDEAsQ~~epe~li~ 562 (806)
........++++|......... .......+++|||||+ |.........
T Consensus 74 -------------~~~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~-h~~~~~~~~~ 122 (144)
T cd00046 74 -------------KLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEA-HRLLNQGFGL 122 (144)
T ss_pred -------------HHhcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCH-HHHhhcchHH
Confidence 1123456777777764432211 1123457899999999 6665554443
No 51
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.62 E-value=1.5e-07 Score=93.78 Aligned_cols=65 Identities=22% Similarity=0.375 Sum_probs=54.6
Q ss_pred CCCHHHHHHHHHHHhC---C-CCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 400 SLNEEQTRSVEIILGC---K-GAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~---~-~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
.|.+.|.+|+..++.. . ....++|.+|+|||||.+++.++.++.. ++++++|+.+.++.+.+.+.
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 4789999999999842 1 1345899999999999999998888874 99999999999999988884
No 52
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=98.62 E-value=2.4e-07 Score=98.88 Aligned_cols=188 Identities=24% Similarity=0.299 Sum_probs=101.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHH-HHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLV-EAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKE 478 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv-~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~ 478 (806)
..|.+|+-|+...+.. +.+.+.+.|.+|||||-... ..+.|.+....-.+|+|.-|+-.--..| ..++.
T Consensus 228 prn~eQ~~ALdlLld~-dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dI---------GfLPG 297 (436)
T COG1875 228 PRNAEQRVALDLLLDD-DIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDI---------GFLPG 297 (436)
T ss_pred cccHHHHHHHHHhcCC-CCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCccccc---------CcCCC
Confidence 7899999999987763 34678899999999997643 3445565554556777766543221111 01111
Q ss_pred ccEEEcccCCCCCCCCChhhhhhhchhhhhccCC--c----hhhhccceeee--eeecccccccccCCcCCCCcEEEEec
Q 038509 479 NEILRLNATSRPYEDVPTDFIRFCFFEESIFKCP--P----REALGRYRIII--STYMSSSLLNTNGIKRGNFSHIFLDE 550 (806)
Q Consensus 479 ~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~--~----~~~L~~~~Vi~--~T~~s~~~l~~~~~~~~~Fd~ViIDE 550 (806)
.. .+.+.+.+......-+.++... . ...+.+..+=+ -|+. ....+ +=..|||||
T Consensus 298 ~e----------EeKm~PWmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~I-----RGRSl---~~~FiIIDE 359 (436)
T COG1875 298 TE----------EEKMGPWMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYI-----RGRSL---PDSFIIIDE 359 (436)
T ss_pred ch----------hhhccchHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeee-----ccccc---ccceEEEeh
Confidence 00 0111111111110001111111 0 11122222211 1211 11122 226899999
Q ss_pred CCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchh-h-hcCCCccHHHHHhhcccccCCCccceecccccccC
Q 038509 551 AGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDA-E-TFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRC 627 (806)
Q Consensus 551 AsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a-~-~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs 627 (806)
| |-.+|..+.-+..-++.++++|+.|||.|.- +..- . ..|+ ..+.+|+...+.+. ...|.+.=||
T Consensus 360 a-QNLTpheikTiltR~G~GsKIVl~gd~aQiD----~~yl~~~snGL-tyvverfk~~~l~~------hi~L~r~eRS 426 (436)
T COG1875 360 A-QNLTPHELKTILTRAGEGSKIVLTGDPAQID----TPYLDETSNGL-TYVVEKFKGHPLSA------HITLQRGERS 426 (436)
T ss_pred h-hccCHHHHHHHHHhccCCCEEEEcCCHHHcC----CccccCCCccH-HHHHHHhcCCCcee------EEEEecccch
Confidence 9 9999998888887888999999999999932 2111 1 1122 24566665544432 3467777776
No 53
>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=98.52 E-value=5.1e-07 Score=88.90 Aligned_cols=131 Identities=23% Similarity=0.285 Sum_probs=85.3
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccE
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEI 481 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i 481 (806)
++.|.+++..+.+. ..++|.||+|+|||....-.+.+.+......++++++|+.+.++.+.+++.+.... .....
T Consensus 1 t~~Q~~~~~~i~~~---~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~--~~~~~ 75 (169)
T PF00270_consen 1 TPLQQEAIEAIISG---KNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSN--TNVRV 75 (169)
T ss_dssp -HHHHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTT--TTSSE
T ss_pred CHHHHHHHHHHHcC---CCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccc--ccccc
Confidence 57899999999953 23899999999999998888887776554569999999999999999998763211 11122
Q ss_pred EEcccCCCCCCCCChhhhhhhchhhhhccCCchhhh-ccceeeeeeeccccccccc-CCcCCCCcEEEEecCCCCcch
Q 038509 482 LRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREAL-GRYRIIISTYMSSSLLNTN-GIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 482 ~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L-~~~~Vi~~T~~s~~~l~~~-~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
..+... ...... ....+ ..++|+++|.......... .....++++|||||+ +....
T Consensus 76 ~~~~~~------~~~~~~-------------~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~-h~l~~ 133 (169)
T PF00270_consen 76 VLLHGG------QSISED-------------QREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEA-HHLSD 133 (169)
T ss_dssp EEESTT------SCHHHH-------------HHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETH-HHHHH
T ss_pred cccccc------cccccc-------------ccccccccccccccCcchhhccccccccccccceeeccCcc-ccccc
Confidence 222111 000000 01112 3588999998765433222 112235899999999 65555
No 54
>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=98.40 E-value=1.6e-06 Score=82.22 Aligned_cols=111 Identities=24% Similarity=0.295 Sum_probs=66.2
Q ss_pred CEEEEcCCCCChHH-HHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChhh
Q 038509 420 PYVIYGPPGTGKTM-TLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTDF 498 (806)
Q Consensus 420 ~~lI~GPPGTGKT~-tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~ 498 (806)
..+|.=.||+|||+ ++.+.+.+.++ .+.|+||++||+..++++.+-|... -+|.....+..
T Consensus 6 ~~~~d~hpGaGKTr~vlp~~~~~~i~--~~~rvLvL~PTRvva~em~~aL~~~---------~~~~~t~~~~~------- 67 (148)
T PF07652_consen 6 LTVLDLHPGAGKTRRVLPEIVREAIK--RRLRVLVLAPTRVVAEEMYEALKGL---------PVRFHTNARMR------- 67 (148)
T ss_dssp EEEEE--TTSSTTTTHHHHHHHHHHH--TT--EEEEESSHHHHHHHHHHTTTS---------SEEEESTTSS--------
T ss_pred eeEEecCCCCCCcccccHHHHHHHHH--ccCeEEEecccHHHHHHHHHHHhcC---------CcccCceeeec-------
Confidence 46888999999999 58888888876 5689999999999999999988652 12332221100
Q ss_pred hhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhHHHHHhh
Q 038509 499 IRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPESMIPIAN 565 (806)
Q Consensus 499 ~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~ 565 (806)
..-...-|-+.|..+.............|++||+||+ ..++|..+.....
T Consensus 68 ----------------~~~g~~~i~vMc~at~~~~~~~p~~~~~yd~II~DEc-H~~Dp~sIA~rg~ 117 (148)
T PF07652_consen 68 ----------------THFGSSIIDVMCHATYGHFLLNPCRLKNYDVIIMDEC-HFTDPTSIAARGY 117 (148)
T ss_dssp -------------------SSSSEEEEEHHHHHHHHHTSSCTTS-SEEEECTT-T--SHHHHHHHHH
T ss_pred ----------------cccCCCcccccccHHHHHHhcCcccccCccEEEEecc-ccCCHHHHhhhee
Confidence 0001112222333333322223444568999999999 9999988866553
No 55
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.39 E-value=3.2e-05 Score=88.68 Aligned_cols=131 Identities=16% Similarity=0.152 Sum_probs=80.8
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC-----CCCeEEEEecchHHHHHHHHHHhccc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR-----EHSRILVCAASNSAADHMLERLISNE 472 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-----~~~rILv~apSN~Aad~l~erL~~~~ 472 (806)
+..+++.|.+|+..++..+ -+++.+|.|||||.+..-.+.+.+... ...++|+++||...|..+.+.+....
T Consensus 21 ~~~p~~iQ~~ai~~~~~g~---d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~ 97 (434)
T PRK11192 21 YTRPTAIQAEAIPPALDGR---DVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELA 97 (434)
T ss_pred CCCCCHHHHHHHHHHhCCC---CEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHH
Confidence 3478999999999999754 379999999999988665555544321 24689999999999999888766421
Q ss_pred ccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccc-ccccCCcCCCCcEEEEecC
Q 038509 473 VAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSL-LNTNGIKRGNFSHIFLDEA 551 (806)
Q Consensus 473 ~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~-l~~~~~~~~~Fd~ViIDEA 551 (806)
. . ....+.-+.... .. ... ........+|+++|...... +....+....+++||||||
T Consensus 98 ~-~-~~~~v~~~~gg~------~~--------~~~-----~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEa 156 (434)
T PRK11192 98 K-H-THLDIATITGGV------AY--------MNH-----AEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEA 156 (434)
T ss_pred c-c-CCcEEEEEECCC------CH--------HHH-----HHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECH
Confidence 1 0 011222221110 00 000 00111356799998743321 2223334457899999999
Q ss_pred C
Q 038509 552 G 552 (806)
Q Consensus 552 s 552 (806)
-
T Consensus 157 h 157 (434)
T PRK11192 157 D 157 (434)
T ss_pred H
Confidence 4
No 56
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.38 E-value=3.9e-06 Score=97.77 Aligned_cols=126 Identities=13% Similarity=0.129 Sum_probs=83.2
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.|.+.|++|+..++... -.++++|.|+|||.+++.++..++.. ...++|+++||...++...+++.+... ....
T Consensus 114 ~~r~~Q~~av~~~l~~~---~~il~apTGsGKT~i~~~l~~~~~~~-~~~~vLilvpt~eL~~Q~~~~l~~~~~--~~~~ 187 (501)
T PHA02558 114 EPHWYQYDAVYEGLKNN---RRLLNLPTSAGKSLIQYLLSRYYLEN-YEGKVLIIVPTTSLVTQMIDDFVDYRL--FPRE 187 (501)
T ss_pred CCCHHHHHHHHHHHhcC---ceEEEeCCCCCHHHHHHHHHHHHHhc-CCCeEEEEECcHHHHHHHHHHHHHhcc--cccc
Confidence 68999999999988743 26999999999999877665554443 344999999999999999999876311 1111
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhH
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPES 559 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~ 559 (806)
.+..+..... .-....|+++|..+....... ....|++||||||-.......
T Consensus 188 ~~~~i~~g~~--------------------------~~~~~~I~VaT~qsl~~~~~~--~~~~~~~iIvDEaH~~~~~~~ 239 (501)
T PHA02558 188 AMHKIYSGTA--------------------------KDTDAPIVVSTWQSAVKQPKE--WFDQFGMVIVDECHLFTGKSL 239 (501)
T ss_pred ceeEEecCcc--------------------------cCCCCCEEEeeHHHHhhchhh--hccccCEEEEEchhcccchhH
Confidence 1111111000 002357888887665432211 124799999999966665543
No 57
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=98.36 E-value=1.2e-06 Score=91.90 Aligned_cols=51 Identities=18% Similarity=0.200 Sum_probs=34.9
Q ss_pred CCcCCCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEec-CCCCCCceeec
Q 038509 537 GIKRGNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAG-DPKQLGPVIYS 588 (806)
Q Consensus 537 ~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvG-Dp~QL~PvI~s 588 (806)
+.+...|.+||+||| +.+..+++.+|..... +.++++|+- +..-+++.|.|
T Consensus 124 ~~~~~~fKiiIlDEc-dsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~S 178 (346)
T KOG0989|consen 124 GYPCPPFKIIILDEC-DSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVS 178 (346)
T ss_pred CCCCCcceEEEEech-hhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHh
Confidence 345567999999999 9999999999886543 355677654 33444444433
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=98.35 E-value=2.4e-06 Score=87.09 Aligned_cols=69 Identities=19% Similarity=0.239 Sum_probs=54.1
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC---CCCeEEEEecchHHHHHHHHHHhc
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR---EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~---~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..+++.|++|+..++..+ .++|.+|.|+|||.+..-.+.+.+... .+.++++++|++..+..+.+.+..
T Consensus 20 ~~~~~~Q~~~~~~~~~~~---~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~ 91 (203)
T cd00268 20 EKPTPIQARAIPPLLSGR---DVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARK 91 (203)
T ss_pred CCCCHHHHHHHHHHhcCC---cEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHH
Confidence 368999999999999743 379999999999988544444444332 567899999999999998877754
No 59
>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=98.31 E-value=1.5e-07 Score=85.40 Aligned_cols=50 Identities=32% Similarity=0.249 Sum_probs=38.9
Q ss_pred CeEECcccccccceeeEEEEEeccCCCcCcccccccccccCCCCCceeecccccccceEEE
Q 038509 738 DVKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFLSNPRRFNVAITRARSLLIIV 798 (806)
Q Consensus 738 ~v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl~~~rrlnVAlTRAK~~LiIv 798 (806)
.+.+.|+|++||+|+|.||+....... .-....|+||||+||||..|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~-----------~~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSN-----------FDELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGS-----------GCGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCccc-----------CCchhhccEEeeHhHhhhhhCCC
Confidence 678999999999999999998765431 01245677999999999999987
No 60
>PTZ00424 helicase 45; Provisional
Probab=98.28 E-value=2.6e-06 Score=96.49 Aligned_cols=70 Identities=26% Similarity=0.321 Sum_probs=56.5
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+..+++.|.+|+..++...+ .++.+|.|||||.+..-.+.+.+... .+.++|+++|+...+..+.+.+..
T Consensus 48 ~~~~~~~Q~~ai~~i~~~~d---~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~ 118 (401)
T PTZ00424 48 FEKPSAIQQRGIKPILDGYD---TIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLA 118 (401)
T ss_pred CCCCCHHHHHHHHHHhCCCC---EEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHH
Confidence 34789999999999997543 69999999999988776666665422 456899999999999988777654
No 61
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=98.20 E-value=4.7e-07 Score=105.81 Aligned_cols=66 Identities=35% Similarity=0.426 Sum_probs=52.1
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.||.+|+.++..-+. ..=+|.| ||||||.++.+.+++++... +...|++.|.+|.|+|.+.+++..
T Consensus 13 ~l~~~q~~~~~~~~~----~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~ 80 (853)
T KOG2108|consen 13 LLNKSQRFSALSPLR----RKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIA 80 (853)
T ss_pred hhhhhhhhhhcCCCc----ccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHH
Confidence 678888877654221 1125555 99999999999999988644 567799999999999999999976
No 62
>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=98.18 E-value=2.6e-05 Score=92.79 Aligned_cols=148 Identities=18% Similarity=0.235 Sum_probs=93.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.|=+.|.+|+...+.......-+|.-|+|+|||.+.+.++..+ ..++||++||..++++-.+.+.+.. .+...
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l-----~k~tLILvps~~Lv~QW~~ef~~~~--~l~~~ 327 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV-----KKSCLVLCTSAVSVEQWKQQFKMWS--TIDDS 327 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh-----CCCEEEEeCcHHHHHHHHHHHHHhc--CCCCc
Confidence 7889999999998853321235999999999999988777654 3689999999999999988887521 12233
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccccc---------ccCCcCCCCcEEEEec
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLN---------TNGIKRGNFSHIFLDE 550 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~---------~~~~~~~~Fd~ViIDE 550 (806)
.+.++....+. .......|+++|+.+..... ...+....|++||+||
T Consensus 328 ~I~~~tg~~k~------------------------~~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DE 383 (732)
T TIGR00603 328 QICRFTSDAKE------------------------RFHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDE 383 (732)
T ss_pred eEEEEecCccc------------------------ccccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEc
Confidence 34333221110 00124678888886543211 0123445799999999
Q ss_pred CCCCcchhHHH-HHhhcccCCCEEEEecCCC
Q 038509 551 AGQASEPESMI-PIANLCTKQTVVVLAGDPK 580 (806)
Q Consensus 551 AsQ~~epe~li-~L~~l~~~~~~lVLvGDp~ 580 (806)
+-... ...+. .+..+ ....++-|-|=|.
T Consensus 384 vH~lp-A~~fr~il~~l-~a~~RLGLTATP~ 412 (732)
T TIGR00603 384 VHVVP-AAMFRRVLTIV-QAHCKLGLTATLV 412 (732)
T ss_pred ccccc-HHHHHHHHHhc-CcCcEEEEeecCc
Confidence 95454 34444 33322 2334666666554
No 63
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.14 E-value=1.8e-05 Score=95.25 Aligned_cols=69 Identities=32% Similarity=0.492 Sum_probs=59.5
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.|++.|++|+..++...+...++++||.|||||.+...++.+.+. .+.++|+++|+...+..+.+++.+
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~--~g~~vLvLvPt~~L~~Q~~~~l~~ 212 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLA--QGKQALVLVPEIALTPQMLARFRA 212 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHH--cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 799999999999986412245899999999999998888887776 367999999999999999999976
No 64
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.11 E-value=2.2e-05 Score=93.62 Aligned_cols=134 Identities=18% Similarity=0.239 Sum_probs=82.3
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHh-CCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYST-REHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~-~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
+..+++.|.+++..++..+ -+++++|.|||||.+..-.+.+.+.. ....++||++||...|..+.+.+..... ..
T Consensus 26 ~~~ptpiQ~~ai~~ll~g~---dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~-~~ 101 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNGR---DVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSK-HM 101 (629)
T ss_pred CCCCCHHHHHHHHHHHcCC---CEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHh-hc
Confidence 3478999999999998743 48999999999998865555544432 2445899999999999999887765211 11
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccc-ccccCCcCCCCcEEEEecCCCC
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSL-LNTNGIKRGNFSHIFLDEAGQA 554 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~-l~~~~~~~~~Fd~ViIDEAsQ~ 554 (806)
....+.-+..... .+... .......+||++|...... +....+....+.+||||||-..
T Consensus 102 ~~i~v~~~~gG~~--------------~~~q~-----~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~m 161 (629)
T PRK11634 102 RGVNVVALYGGQR--------------YDVQL-----RALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEM 161 (629)
T ss_pred CCceEEEEECCcC--------------HHHHH-----HHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHH
Confidence 1112222211110 00000 0111346799999755432 2222233456789999999433
No 65
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.10 E-value=1.5e-05 Score=95.43 Aligned_cols=139 Identities=17% Similarity=0.221 Sum_probs=86.5
Q ss_pred CCCHHHHHHHHHHHhCC--CC-CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 400 SLNEEQTRSVEIILGCK--GA-PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~--~~-~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.|++.|++|+..++... +. ...+|+||.|||||.+...++.+.+. .+.++++++||...|..+.+.+.+.... .
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~--~g~qvlilaPT~~LA~Q~~~~~~~l~~~-~ 311 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE--AGYQVALMAPTEILAEQHYNSLRNLLAP-L 311 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH--cCCcEEEECCHHHHHHHHHHHHHHHhcc-c
Confidence 68999999999998642 11 13699999999999988777777665 4679999999999999999888752110 0
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhh--ccceeeeeeecccccccccCCcCCCCcEEEEecCCCC
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREAL--GRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQA 554 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L--~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~ 554 (806)
...+.-+... ....-.. .. .+.+ ...+||++|..... ..+.-.++++|||||+ +.
T Consensus 312 -gi~v~lltg~------~~~~~r~------~~-----~~~i~~g~~~IiVgT~~ll~----~~~~~~~l~lvVIDEa-H~ 368 (630)
T TIGR00643 312 -GIEVALLTGS------LKGKRRK------EL-----LETIASGQIHLVVGTHALIQ----EKVEFKRLALVIIDEQ-HR 368 (630)
T ss_pred -CcEEEEEecC------CCHHHHH------HH-----HHHHhCCCCCEEEecHHHHh----ccccccccceEEEech-hh
Confidence 0111111111 0000000 00 0111 24688998875432 2233357899999999 66
Q ss_pred cchhHHHHHh
Q 038509 555 SEPESMIPIA 564 (806)
Q Consensus 555 ~epe~li~L~ 564 (806)
....+...+.
T Consensus 369 fg~~qr~~l~ 378 (630)
T TIGR00643 369 FGVEQRKKLR 378 (630)
T ss_pred ccHHHHHHHH
Confidence 5555444443
No 66
>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=98.10 E-value=1.8e-05 Score=97.38 Aligned_cols=141 Identities=18% Similarity=0.186 Sum_probs=88.6
Q ss_pred CCCHHHHHHHHHHHhCC--C-CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 400 SLNEEQTRSVEIILGCK--G-APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~--~-~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.+++.|.+|+..++..- + ....+|+||.|||||.+...++.+.+. .+.++++++||...|....+.+.+.... .
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~--~g~qvlvLvPT~~LA~Q~~~~f~~~~~~-~ 527 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVL--DGKQVAVLVPTTLLAQQHFETFKERFAN-F 527 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHH--hCCeEEEEeCcHHHHHHHHHHHHHHhcc-C
Confidence 68999999999998631 1 124799999999999988877776665 3579999999999999998887752110 0
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhh--ccceeeeeeecccccccccCCcCCCCcEEEEecCCCC
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREAL--GRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQA 554 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L--~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~ 554 (806)
...+.-+. +. ....-. ... .+.+ ...+||++|.... ...+.-.++.+|||||+ |.
T Consensus 528 -~i~v~~Ls---g~---~~~~e~------~~~-----~~~l~~g~~dIVIGTp~ll----~~~v~f~~L~llVIDEa-hr 584 (926)
T TIGR00580 528 -PVTIELLS---RF---RSAKEQ------NEI-----LKELASGKIDILIGTHKLL----QKDVKFKDLGLLIIDEE-QR 584 (926)
T ss_pred -CcEEEEEe---cc---ccHHHH------HHH-----HHHHHcCCceEEEchHHHh----hCCCCcccCCEEEeecc-cc
Confidence 01111111 10 000000 000 0111 2467899987322 22334457899999999 77
Q ss_pred cchhHHHHHhhc
Q 038509 555 SEPESMIPIANL 566 (806)
Q Consensus 555 ~epe~li~L~~l 566 (806)
........|..+
T Consensus 585 fgv~~~~~L~~~ 596 (926)
T TIGR00580 585 FGVKQKEKLKEL 596 (926)
T ss_pred cchhHHHHHHhc
Confidence 666555555433
No 67
>PRK01172 ski2-like helicase; Provisional
Probab=98.08 E-value=2.3e-05 Score=94.91 Aligned_cols=126 Identities=19% Similarity=0.210 Sum_probs=79.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.|++.|.+|+..+...+ .++|.+|.|||||....-++.+.+. .+.++++++|+.+.|++..+.+.+....+ .
T Consensus 22 ~l~~~Q~~ai~~l~~~~---nvlv~apTGSGKTl~a~lail~~l~--~~~k~v~i~P~raLa~q~~~~~~~l~~~g---~ 93 (674)
T PRK01172 22 ELYDHQRMAIEQLRKGE---NVIVSVPTAAGKTLIAYSAIYETFL--AGLKSIYIVPLRSLAMEKYEELSRLRSLG---M 93 (674)
T ss_pred CCCHHHHHHHHHHhcCC---cEEEECCCCchHHHHHHHHHHHHHH--hCCcEEEEechHHHHHHHHHHHHHHhhcC---C
Confidence 58999999999976533 4899999999999887666666554 35789999999999999988876421100 0
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccC-CcCCCCcEEEEecCCCCc
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNG-IKRGNFSHIFLDEAGQAS 555 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~-~~~~~Fd~ViIDEAsQ~~ 555 (806)
.+.... .... .....+..++++++|......+.... ..-..+++||||||-...
T Consensus 94 ~v~~~~---G~~~-------------------~~~~~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~ 148 (674)
T PRK01172 94 RVKISI---GDYD-------------------DPPDFIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIG 148 (674)
T ss_pred eEEEEe---CCCC-------------------CChhhhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhcc
Confidence 111100 0000 00122356788999875433221111 112468999999995443
No 68
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.07 E-value=1.5e-05 Score=99.98 Aligned_cols=71 Identities=17% Similarity=0.276 Sum_probs=59.3
Q ss_pred CCCHHHHHHHHHHHhC--CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGC--KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~--~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.|-+.|.+||..+... .+..-.+|..|.|||||.|++.++.++++.....|||++++++..++...+.+..
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~ 485 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKD 485 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHh
Confidence 5889999999887631 1223479999999999999999999888776678999999999999999888765
No 69
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.07 E-value=2.8e-05 Score=89.10 Aligned_cols=125 Identities=21% Similarity=0.241 Sum_probs=84.8
Q ss_pred CCCHHHHHHHHHHHhCCC-CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCccc
Q 038509 400 SLNEEQTRSVEIILGCKG-APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKE 478 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~-~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~ 478 (806)
.|.+.|.+|+........ ....+|..|+|+|||.+.++++..+. .++||++|+...++...+++.......
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~-----~~~Lvlv~~~~L~~Qw~~~~~~~~~~~--- 107 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK-----RSTLVLVPTKELLDQWAEALKKFLLLN--- 107 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc-----CCEEEEECcHHHHHHHHHHHHHhcCCc---
Confidence 799999999999987311 33479999999999999998888763 349999999999999988887531110
Q ss_pred ccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccc-cccCCcCCCCcEEEEecCCCCcch
Q 038509 479 NEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLL-NTNGIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 479 ~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l-~~~~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
..+--++... .+. ....|+++|..+.... ....+...+|+.||+||+-+...+
T Consensus 108 ~~~g~~~~~~-------------------------~~~-~~~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~ 161 (442)
T COG1061 108 DEIGIYGGGE-------------------------KEL-EPAKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAP 161 (442)
T ss_pred cccceecCce-------------------------ecc-CCCcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcH
Confidence 0110111000 000 1146888888776553 223344558999999999777665
Q ss_pred h
Q 038509 558 E 558 (806)
Q Consensus 558 e 558 (806)
.
T Consensus 162 ~ 162 (442)
T COG1061 162 S 162 (442)
T ss_pred H
Confidence 4
No 70
>PRK02362 ski2-like helicase; Provisional
Probab=98.07 E-value=3e-05 Score=94.71 Aligned_cols=129 Identities=21% Similarity=0.183 Sum_probs=82.6
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
+..|++.|.+|+...+.... .++|.+|.|||||.+..-++.+.+. ++.++++++|+.+.|++..+++......+
T Consensus 21 ~~~l~p~Q~~ai~~~~~~g~--nvlv~APTGSGKTlia~lail~~l~--~~~kal~i~P~raLa~q~~~~~~~~~~~g-- 94 (737)
T PRK02362 21 IEELYPPQAEAVEAGLLDGK--NLLAAIPTASGKTLIAELAMLKAIA--RGGKALYIVPLRALASEKFEEFERFEELG-- 94 (737)
T ss_pred CCcCCHHHHHHHHHHHhCCC--cEEEECCCcchHHHHHHHHHHHHHh--cCCcEEEEeChHHHHHHHHHHHHHhhcCC--
Confidence 34799999999988554332 4899999999999987666666654 56799999999999999998887521111
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccccccc-CCcCCCCcEEEEecCCCCc
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTN-GIKRGNFSHIFLDEAGQAS 555 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~-~~~~~~Fd~ViIDEAsQ~~ 555 (806)
..+..+... .. ...+.+..++|+++|......+... ......+++|||||+-...
T Consensus 95 -~~v~~~tGd---~~-------------------~~~~~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~ 150 (737)
T PRK02362 95 -VRVGISTGD---YD-------------------SRDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLID 150 (737)
T ss_pred -CEEEEEeCC---cC-------------------ccccccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccC
Confidence 111111110 00 0012235578999997543322211 1122468999999995443
No 71
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.06 E-value=1e-05 Score=94.75 Aligned_cols=123 Identities=20% Similarity=0.186 Sum_probs=86.8
Q ss_pred CCCHHHHHHHHHHHh--CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 400 SLNEEQTRSVEIILG--CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~--~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
.+-..|..||.++.. ..+..-.||.=.+|||||.|+...|-+|++.+.-+|||.+|-.|+.++.......+. .+
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~----~P 240 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDF----LP 240 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHh----CC
Confidence 677899999998764 122233788889999999999999999999988899999999999999988776542 22
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccc------ccccCCcCCCCcEEEEecC
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSL------LNTNGIKRGNFSHIFLDEA 551 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~------l~~~~~~~~~Fd~ViIDEA 551 (806)
..+..-+.. .......++|.++|+-+... -....+.+++||+||||||
T Consensus 241 ~~~~~n~i~--------------------------~~~~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEa 294 (875)
T COG4096 241 FGTKMNKIE--------------------------DKKGDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEA 294 (875)
T ss_pred Cccceeeee--------------------------cccCCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechh
Confidence 111111100 00111246788888755321 2234567899999999999
Q ss_pred C
Q 038509 552 G 552 (806)
Q Consensus 552 s 552 (806)
-
T Consensus 295 H 295 (875)
T COG4096 295 H 295 (875)
T ss_pred h
Confidence 3
No 72
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.04 E-value=3e-05 Score=89.63 Aligned_cols=135 Identities=19% Similarity=0.185 Sum_probs=82.5
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
+..+++-|.+|+..++... -+++.||.|||||.+..-.+.+.+... ...++|+++||...|+.+.+.+..... ..
T Consensus 24 ~~~~t~iQ~~ai~~~l~g~---dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~-~~ 99 (460)
T PRK11776 24 YTEMTPIQAQSLPAILAGK---DVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLAR-FI 99 (460)
T ss_pred CCCCCHHHHHHHHHHhcCC---CEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHh-hC
Confidence 4478999999999999754 379999999999987665565555432 244799999999999999887764211 11
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccc-cccCCcCCCCcEEEEecCCCCc
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLL-NTNGIKRGNFSHIFLDEAGQAS 555 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l-~~~~~~~~~Fd~ViIDEAsQ~~ 555 (806)
....+..+..... ..... ...-...+|+++|......+ ....+....+++||||||-...
T Consensus 100 ~~~~v~~~~Gg~~----~~~~~---------------~~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l 160 (460)
T PRK11776 100 PNIKVLTLCGGVP----MGPQI---------------DSLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRML 160 (460)
T ss_pred CCcEEEEEECCCC----hHHHH---------------HHhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHh
Confidence 1112222211100 00000 00113567899987543322 1122334568999999994433
No 73
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=98.04 E-value=8.3e-06 Score=87.31 Aligned_cols=54 Identities=24% Similarity=0.239 Sum_probs=47.2
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
..|+.|+..++++.. +...+-.||+|||||+..+..+.+.+....-.||++.=|
T Consensus 128 ~kt~~Q~~y~eai~~---~di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP 181 (348)
T COG1702 128 PKTPGQNMYPEAIEE---HDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP 181 (348)
T ss_pred ecChhHHHHHHHHHh---cCeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc
Confidence 679999999999887 345788899999999999999999998777789999877
No 74
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.03 E-value=1.2e-05 Score=92.70 Aligned_cols=135 Identities=19% Similarity=0.217 Sum_probs=82.7
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC-------CCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR-------EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-------~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+..+++.|.+|+..++..++ +++.+|.|||||.+..-.+.+.+... .+.++|+++||...|..+.+.+..
T Consensus 21 ~~~pt~iQ~~ai~~il~g~d---vlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~ 97 (456)
T PRK10590 21 YREPTPIQQQAIPAVLEGRD---LMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRD 97 (456)
T ss_pred CCCCCHHHHHHHHHHhCCCC---EEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHH
Confidence 34789999999999997543 79999999999988665555554322 124799999999999999888765
Q ss_pred ccccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccc-cccCCcCCCCcEEEEe
Q 038509 471 NEVAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLL-NTNGIKRGNFSHIFLD 549 (806)
Q Consensus 471 ~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l-~~~~~~~~~Fd~ViID 549 (806)
... ... .....+.... ...+.. .......+|+++|......+ ....+....+++||||
T Consensus 98 ~~~-~~~-~~~~~~~gg~----~~~~~~---------------~~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViD 156 (456)
T PRK10590 98 YSK-YLN-IRSLVVFGGV----SINPQM---------------MKLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLD 156 (456)
T ss_pred Hhc-cCC-CEEEEEECCc----CHHHHH---------------HHHcCCCcEEEEChHHHHHHHHcCCcccccceEEEee
Confidence 211 111 1111111100 000000 01123568999997543221 1222334578999999
Q ss_pred cCCCCcc
Q 038509 550 EAGQASE 556 (806)
Q Consensus 550 EAsQ~~e 556 (806)
||-...+
T Consensus 157 Eah~ll~ 163 (456)
T PRK10590 157 EADRMLD 163 (456)
T ss_pred cHHHHhc
Confidence 9954443
No 75
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.01 E-value=2.5e-05 Score=94.23 Aligned_cols=139 Identities=22% Similarity=0.227 Sum_probs=87.1
Q ss_pred CCCHHHHHHHHHHHhCCC---CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 400 SLNEEQTRSVEIILGCKG---APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~---~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.|++.|++|+..+..... ....+++||.|||||.+....+.+.+. .+.++|+++||...|..+.+++.+.... .
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~--~g~q~lilaPT~~LA~Q~~~~l~~l~~~-~ 337 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE--AGYQAALMAPTEILAEQHYENLKKLLEP-L 337 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH--cCCeEEEEeccHHHHHHHHHHHHHHHhh-c
Confidence 699999999999986321 124799999999999998888777665 4679999999999999999988763110 0
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhh--ccceeeeeeecccccccccCCcCCCCcEEEEecCCCC
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREAL--GRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQA 554 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L--~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~ 554 (806)
. ..+.-+... .+..-.. .. ...+ ...+|+++|..... ..+.-.++++|||||+ +.
T Consensus 338 ~-i~v~ll~G~------~~~~~r~------~~-----~~~l~~g~~~IvVgT~~ll~----~~v~~~~l~lvVIDE~-Hr 394 (681)
T PRK10917 338 G-IRVALLTGS------LKGKERR------EI-----LEAIASGEADIVIGTHALIQ----DDVEFHNLGLVIIDEQ-HR 394 (681)
T ss_pred C-cEEEEEcCC------CCHHHHH------HH-----HHHHhCCCCCEEEchHHHhc----ccchhcccceEEEech-hh
Confidence 0 111111111 0000000 00 0111 24788998864332 1223347899999999 65
Q ss_pred cchhHHHHHh
Q 038509 555 SEPESMIPIA 564 (806)
Q Consensus 555 ~epe~li~L~ 564 (806)
....+...+.
T Consensus 395 fg~~qr~~l~ 404 (681)
T PRK10917 395 FGVEQRLALR 404 (681)
T ss_pred hhHHHHHHHH
Confidence 5555544444
No 76
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=97.95 E-value=9.2e-05 Score=90.31 Aligned_cols=62 Identities=26% Similarity=0.358 Sum_probs=47.7
Q ss_pred HHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 405 QTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 405 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.+..+...+.. +..++|.|++|||||+.+.-.+.+... .+.+|+|+.|++.||..+.+|+.+
T Consensus 6 ~~~~i~~~l~~--~~~vIi~a~TGSGKTT~vpl~lL~~~~--~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 6 VLPALRDALAA--HPQVVLEAPPGAGKSTAVPLALLDAPG--IGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHHHHHHHc--CCcEEEECCCCCCHHHHHHHHHHHhhc--cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 34445555543 345899999999999998877665442 456999999999999999999965
No 77
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.95 E-value=7.2e-05 Score=91.38 Aligned_cols=61 Identities=23% Similarity=0.293 Sum_probs=45.1
Q ss_pred HHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 406 TRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 406 ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+..+...+... ..++|+||+|||||+.+.-.+.+-. ....+|+|+.|++.||..+.+|+.+
T Consensus 10 ~~~i~~~l~~~--~~vvv~A~TGSGKTt~~pl~lL~~~--~~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 10 LPELLTALKTA--PQVLLKAPTGAGKSTWLPLQLLQHG--GINGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHHHHHHHhC--CCEEEEcCCCCCHHHHHHHHHHHcC--CcCCeEEEECChHHHHHHHHHHHHH
Confidence 34444455432 4589999999999998875554321 2345899999999999999999865
No 78
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.93 E-value=5.2e-05 Score=95.48 Aligned_cols=139 Identities=17% Similarity=0.197 Sum_probs=85.6
Q ss_pred CCCHHHHHHHHHHHhC--C-CCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 400 SLNEEQTRSVEIILGC--K-GAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~--~-~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.+++.|.+|+..++.. + .....+++||.|||||.+...++...+. .+.++|+++||...|..+.+.+.+.... .
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~--~g~qvlvLvPT~eLA~Q~~~~f~~~~~~-~ 676 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE--NHKQVAVLVPTTLLAQQHYDNFRDRFAN-W 676 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH--cCCeEEEEeCcHHHHHHHHHHHHHhhcc-C
Confidence 7999999999999863 1 1135899999999999987766655544 4689999999999999998887652110 0
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhh--ccceeeeeeecccccccccCCcCCCCcEEEEecCCCC
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREAL--GRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQA 554 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L--~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~ 554 (806)
...+.-+.. .. ...+. ... .+.+ ...+||++|.... ...+...+++++||||+ |.
T Consensus 677 -~v~i~~l~g-~~---s~~e~--------~~i-----l~~l~~g~~dIVVgTp~lL----~~~v~~~~L~lLVIDEa-hr 733 (1147)
T PRK10689 677 -PVRIEMLSR-FR---SAKEQ--------TQI-----LAEAAEGKIDILIGTHKLL----QSDVKWKDLGLLIVDEE-HR 733 (1147)
T ss_pred -CceEEEEEC-CC---CHHHH--------HHH-----HHHHHhCCCCEEEECHHHH----hCCCCHhhCCEEEEech-hh
Confidence 001111100 00 00000 000 0111 2467999997422 12334457899999999 77
Q ss_pred cchhHHHHHh
Q 038509 555 SEPESMIPIA 564 (806)
Q Consensus 555 ~epe~li~L~ 564 (806)
+.......+.
T Consensus 734 fG~~~~e~lk 743 (1147)
T PRK10689 734 FGVRHKERIK 743 (1147)
T ss_pred cchhHHHHHH
Confidence 6554444443
No 79
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.92 E-value=2.6e-05 Score=89.11 Aligned_cols=134 Identities=18% Similarity=0.156 Sum_probs=80.5
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--------CCCeEEEEecchHHHHHHHHHHh
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--------EHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--------~~~rILv~apSN~Aad~l~erL~ 469 (806)
+..+++-|.+|+..++..+ -+++++|.|||||.+.+-.+.+.+... .+.++|+++||...|..+.+.+.
T Consensus 28 ~~~pt~iQ~~aip~il~g~---dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~ 104 (423)
T PRK04837 28 FHNCTPIQALALPLTLAGR---DVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAE 104 (423)
T ss_pred CCCCCHHHHHHHHHHhCCC---cEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHH
Confidence 4478999999999999754 379999999999988655555433221 23579999999999999877665
Q ss_pred cccccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccc-cccCCcCCCCcEEEE
Q 038509 470 SNEVAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLL-NTNGIKRGNFSHIFL 548 (806)
Q Consensus 470 ~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l-~~~~~~~~~Fd~ViI 548 (806)
.... .. ...+.-+..... ..... . ..-...+|+++|......+ ....+....+.++||
T Consensus 105 ~l~~-~~-~~~v~~~~gg~~----~~~~~--------~-------~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lVi 163 (423)
T PRK04837 105 PLAQ-AT-GLKLGLAYGGDG----YDKQL--------K-------VLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVL 163 (423)
T ss_pred HHhc-cC-CceEEEEECCCC----HHHHH--------H-------HhcCCCCEEEECHHHHHHHHHcCCcccccccEEEE
Confidence 4211 00 011111111000 00000 0 0112357899987544322 122334457899999
Q ss_pred ecCCCCc
Q 038509 549 DEAGQAS 555 (806)
Q Consensus 549 DEAsQ~~ 555 (806)
|||-...
T Consensus 164 DEad~l~ 170 (423)
T PRK04837 164 DEADRMF 170 (423)
T ss_pred ecHHHHh
Confidence 9994443
No 80
>PRK04296 thymidine kinase; Provisional
Probab=97.91 E-value=1.5e-05 Score=80.81 Aligned_cols=35 Identities=23% Similarity=0.354 Sum_probs=28.9
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
..+|.||||+|||+.+...+.++.. .+.++++..|
T Consensus 4 i~litG~~GsGKTT~~l~~~~~~~~--~g~~v~i~k~ 38 (190)
T PRK04296 4 LEFIYGAMNSGKSTELLQRAYNYEE--RGMKVLVFKP 38 (190)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHH--cCCeEEEEec
Confidence 4689999999999999988887765 3678888744
No 81
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.89 E-value=4.6e-05 Score=90.09 Aligned_cols=70 Identities=21% Similarity=0.289 Sum_probs=55.2
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--------CCCeEEEEecchHHHHHHHHHHh
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--------EHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--------~~~rILv~apSN~Aad~l~erL~ 469 (806)
+..+++-|.+++..++..++ +++++|.|||||.+..-.+.+.+... ...++|+++||...+..+.+.+.
T Consensus 29 ~~~ptpiQ~~~ip~~l~G~D---vi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~ 105 (572)
T PRK04537 29 FTRCTPIQALTLPVALPGGD---VAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAV 105 (572)
T ss_pred CCCCCHHHHHHHHHHhCCCC---EEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHH
Confidence 34789999999999997543 79999999999988666555543221 13589999999999999988876
Q ss_pred c
Q 038509 470 S 470 (806)
Q Consensus 470 ~ 470 (806)
.
T Consensus 106 ~ 106 (572)
T PRK04537 106 K 106 (572)
T ss_pred H
Confidence 5
No 82
>PRK00254 ski2-like helicase; Provisional
Probab=97.89 E-value=0.00011 Score=89.61 Aligned_cols=129 Identities=17% Similarity=0.149 Sum_probs=79.9
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
+..||+.|.+|+...+... ..++|.+|.|||||.+..-.+.+.+.. .+.++++++|+.+.+++..+++......
T Consensus 21 ~~~l~~~Q~~ai~~~~~~g--~nvlv~apTGsGKT~~~~l~il~~l~~-~~~~~l~l~P~~aLa~q~~~~~~~~~~~--- 94 (720)
T PRK00254 21 IEELYPPQAEALKSGVLEG--KNLVLAIPTASGKTLVAEIVMVNKLLR-EGGKAVYLVPLKALAEEKYREFKDWEKL--- 94 (720)
T ss_pred CCCCCHHHHHHHHHHHhCC--CcEEEECCCCcHHHHHHHHHHHHHHHh-cCCeEEEEeChHHHHHHHHHHHHHHhhc---
Confidence 4479999999998744322 348999999999999875555544332 4679999999999999999888642110
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccc-cCCcCCCCcEEEEecCCCC
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNT-NGIKRGNFSHIFLDEAGQA 554 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~-~~~~~~~Fd~ViIDEAsQ~ 554 (806)
...+..+... .. . ....+..++|+++|......+.. ........++|||||+-..
T Consensus 95 g~~v~~~~Gd---~~---~----------------~~~~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l 150 (720)
T PRK00254 95 GLRVAMTTGD---YD---S----------------TDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLI 150 (720)
T ss_pred CCEEEEEeCC---CC---C----------------chhhhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCcc
Confidence 1111111110 00 0 01223567899999644322211 1112246899999999433
No 83
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.84 E-value=8e-05 Score=88.58 Aligned_cols=127 Identities=28% Similarity=0.401 Sum_probs=86.6
Q ss_pred CCCHHHHHHHHHHHhC-CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCccc
Q 038509 400 SLNEEQTRSVEIILGC-KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKE 478 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~-~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~ 478 (806)
.||.+|..|+..+... .+..+++++|.+|+|||-+..++|.+.++ .++.+|++.|--+-...+.+|+...-+
T Consensus 198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~--~GkqvLvLVPEI~Ltpq~~~rf~~rFg----- 270 (730)
T COG1198 198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLA--QGKQVLVLVPEIALTPQLLARFKARFG----- 270 (730)
T ss_pred ccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHH--cCCEEEEEeccccchHHHHHHHHHHhC-----
Confidence 7999999999999875 34568999999999999999999999997 568999999988888888888876211
Q ss_pred ccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCc
Q 038509 479 NEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQAS 555 (806)
Q Consensus 479 ~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~ 555 (806)
.++.-+.+. +.+ -.++..|.. -.-.+++||+.|-++... +-.+-..|||||= ++.
T Consensus 271 ~~v~vlHS~------Ls~-~er~~~W~~--------~~~G~~~vVIGtRSAlF~------Pf~~LGLIIvDEE-HD~ 325 (730)
T COG1198 271 AKVAVLHSG------LSP-GERYRVWRR--------ARRGEARVVIGTRSALFL------PFKNLGLIIVDEE-HDS 325 (730)
T ss_pred CChhhhccc------CCh-HHHHHHHHH--------HhcCCceEEEEechhhcC------chhhccEEEEecc-ccc
Confidence 111111100 000 011111110 112578899999876543 2234579999997 443
No 84
>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=97.82 E-value=0.00017 Score=68.18 Aligned_cols=61 Identities=26% Similarity=0.376 Sum_probs=39.8
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHH
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHM 464 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l 464 (806)
++.+..++...+.......++|.||||||||+++...+.++. ..+..++.+..+..+....
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~ 63 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLV 63 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhH
Confidence 345566666666543345799999999999987666555554 2456777777655554433
No 85
>PTZ00110 helicase; Provisional
Probab=97.79 E-value=9.6e-05 Score=87.01 Aligned_cols=70 Identities=21% Similarity=0.321 Sum_probs=53.3
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHH-HHHHHHHHh-----CCCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLV-EAILQVYST-----REHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv-~~i~qll~~-----~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+..+++.|.+|+..++..+ .+++.+|.|||||.+.+ -++..+... ..+..+||++||...|..+.+.+..
T Consensus 150 ~~~pt~iQ~~aip~~l~G~---dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~ 225 (545)
T PTZ00110 150 FTEPTPIQVQGWPIALSGR---DMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNK 225 (545)
T ss_pred CCCCCHHHHHHHHHHhcCC---CEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHH
Confidence 4478999999999999754 37999999999998743 233333321 1245799999999999998887765
No 86
>PRK09401 reverse gyrase; Reviewed
Probab=97.79 E-value=5.5e-05 Score=95.50 Aligned_cols=67 Identities=16% Similarity=0.167 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
.+++.|+.++..++..+ .+++.+|.|||||..+.-.+..+. ..+.++|+++||...|..+.+++...
T Consensus 80 ~pt~iQ~~~i~~il~g~---dv~i~ApTGsGKT~f~l~~~~~l~--~~g~~alIL~PTreLa~Qi~~~l~~l 146 (1176)
T PRK09401 80 KPWSLQRTWAKRLLLGE---SFAIIAPTGVGKTTFGLVMSLYLA--KKGKKSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred CCcHHHHHHHHHHHCCC---cEEEEcCCCCCHHHHHHHHHHHHH--hcCCeEEEEeccHHHHHHHHHHHHHH
Confidence 67899999999999743 479999999999976554444333 24689999999999999999999763
No 87
>PLN03025 replication factor C subunit; Provisional
Probab=97.79 E-value=0.00013 Score=80.12 Aligned_cols=42 Identities=29% Similarity=0.574 Sum_probs=31.2
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
|++..+.++.++.....+.++++||||||||+++...+.++.
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence 566666777766655556789999999999998766665554
No 88
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.79 E-value=4.7e-05 Score=94.34 Aligned_cols=69 Identities=19% Similarity=0.270 Sum_probs=53.0
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHh-------CCCCeEEEEecchHHHHHHHHHHhc
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYST-------REHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~-------~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..|++.|.+|+..++... .++|.+|.|||||.+..-.+.+.+.. .++.++|+++|+.+.+..+.+++..
T Consensus 31 ~~~tpiQ~~Ai~~il~g~---nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGK---NVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CCCCHHHHHHHHHHHcCC---CEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 368999999999988643 48999999999998765544443321 1235799999999999998887753
No 89
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.78 E-value=0.00012 Score=77.84 Aligned_cols=120 Identities=18% Similarity=0.241 Sum_probs=86.4
Q ss_pred CCCCHHHHHHHHHHHhC-CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 399 NSLNEEQTRSVEIILGC-KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~-~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
..|++-|+.|-...+.. ......+|++..|+|||-.+-..|.+.++ .+.+|.+.+|--.-+-++..||... ..
T Consensus 96 G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~--~G~~vciASPRvDVclEl~~Rlk~a----F~ 169 (441)
T COG4098 96 GTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALN--QGGRVCIASPRVDVCLELYPRLKQA----FS 169 (441)
T ss_pred cccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHh--cCCeEEEecCcccchHHHHHHHHHh----hc
Confidence 38999999998776641 22346899999999999999999998887 5689999999999999999999862 22
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcch
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
.-+|.-++..+. .. -++.+|++|......+ ...||.+||||. .+..-
T Consensus 170 ~~~I~~Lyg~S~-------------------------~~-fr~plvVaTtHQLlrF------k~aFD~liIDEV-DAFP~ 216 (441)
T COG4098 170 NCDIDLLYGDSD-------------------------SY-FRAPLVVATTHQLLRF------KQAFDLLIIDEV-DAFPF 216 (441)
T ss_pred cCCeeeEecCCc-------------------------hh-ccccEEEEehHHHHHH------HhhccEEEEecc-ccccc
Confidence 223333332221 11 2266788877654432 248999999999 76543
No 90
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.78 E-value=8.9e-05 Score=86.04 Aligned_cols=70 Identities=17% Similarity=0.203 Sum_probs=53.7
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCC--------CCeEEEEecchHHHHHHHHHHh
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTRE--------HSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~--------~~rILv~apSN~Aad~l~erL~ 469 (806)
+..+++.|.+|+..++..++ +++.+|.|||||.+..-.+.+.+...+ ..++|+++||...|..+.+.+.
T Consensus 107 ~~~~~~iQ~~ai~~~~~G~d---vi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~ 183 (475)
T PRK01297 107 FPYCTPIQAQVLGYTLAGHD---AIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAA 183 (475)
T ss_pred CCCCCHHHHHHHHHHhCCCC---EEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHH
Confidence 34689999999999987543 799999999999775444443332222 4589999999999999988776
Q ss_pred c
Q 038509 470 S 470 (806)
Q Consensus 470 ~ 470 (806)
.
T Consensus 184 ~ 184 (475)
T PRK01297 184 A 184 (475)
T ss_pred H
Confidence 5
No 91
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=97.75 E-value=3e-05 Score=99.03 Aligned_cols=52 Identities=23% Similarity=0.358 Sum_probs=46.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.+++|||||++|+.++..++... ++.+||++||||+||.+|.+|+.+
T Consensus 11 ~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 11 TSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHH
Confidence 3589999999999999999999988653 678999999999999999999865
No 92
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.74 E-value=0.00017 Score=92.14 Aligned_cols=126 Identities=13% Similarity=0.150 Sum_probs=83.8
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCC-CChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPG-TGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKE 478 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPG-TGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~ 478 (806)
.++..|..|+..++..++ ...+|.|..| ||||+++.+. ..++.. .+.+|.++||++.|+..|.+.. .+..
T Consensus 281 ~~~~~q~~Av~~il~dr~-~v~iv~~~GgAtGKtt~l~~l-~~~a~~-~G~~V~~lApt~~a~~~L~e~~------gi~a 351 (1623)
T PRK14712 281 PRTAGYSDAVSVLAQDRP-SLAIVSGQGGAAGQRERVAEL-VMMARE-QGREVQIIAADRRSQMNLKQDE------RLSG 351 (1623)
T ss_pred ccchhHHHHHHHHhcCCC-ceEEEEecccccccHHHHHHH-HHHHHh-CCcEEEEEeCCHHHHHHHHhcc------CCCc
Confidence 467899999999996543 2344555555 9999988854 445443 7899999999999999986531 1222
Q ss_pred ccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchh
Q 038509 479 NEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPE 558 (806)
Q Consensus 479 ~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe 558 (806)
.++.+.... .. ...... =+++|||||++...-+
T Consensus 352 ~Tva~~~~~------------------------------------l~---------~~~~~~--~~ilIVDEA~~Ls~rd 384 (1623)
T PRK14712 352 ELITGRRQL------------------------------------LE---------GMAFTP--GSTVIVDQGEKLSLKE 384 (1623)
T ss_pred hhhhhhhhh------------------------------------hc---------ccCCCC--CcEEEEECCCcCCHHH
Confidence 222211000 00 000111 1799999999999998
Q ss_pred HHHHHhhcccCCCEEEEecCCCCC
Q 038509 559 SMIPIANLCTKQTVVVLAGDPKQL 582 (806)
Q Consensus 559 ~li~L~~l~~~~~~lVLvGDp~QL 582 (806)
+...+......+.+ |++||..|+
T Consensus 385 m~~Ll~~A~~~gar-VllgD~~Q~ 407 (1623)
T PRK14712 385 TLTLLDGAARHNVQ-VLITDSGQR 407 (1623)
T ss_pred HHHHHHHHHhcCCE-EEEEechhh
Confidence 88777755556778 668899995
No 93
>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=97.72 E-value=9.2e-05 Score=82.55 Aligned_cols=50 Identities=22% Similarity=0.355 Sum_probs=44.1
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
++|.||.|+|||.+....+...+......++++++|+.+.++.+.+++..
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~ 51 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKE 51 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHH
Confidence 68999999999998777777766555678999999999999999999986
No 94
>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=97.71 E-value=0.00035 Score=84.18 Aligned_cols=154 Identities=16% Similarity=0.171 Sum_probs=93.2
Q ss_pred CCHHHHHHHHHHHhC--C-----CCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccc
Q 038509 401 LNEEQTRSVEIILGC--K-----GAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEV 473 (806)
Q Consensus 401 LN~eQ~~AV~~il~~--~-----~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~ 473 (806)
.-..|..||..++.. . +..-.+|+-|.|||||.|++.++..++...+..+||++++++...+.+.+.+.....
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~ 318 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQK 318 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCC
Confidence 467899999987642 1 122479999999999999999999888766778999999999999999998875311
Q ss_pred cCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccc---cCCcCCCCc-EEEEe
Q 038509 474 AGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNT---NGIKRGNFS-HIFLD 549 (806)
Q Consensus 474 ~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~---~~~~~~~Fd-~ViID 549 (806)
..+.+.. ....+.. .+ .. ...+|+++|..+...... .......++ +||||
T Consensus 319 -----~~~~~~~--------s~~~L~~------~l-~~------~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvD 372 (667)
T TIGR00348 319 -----DCAERIE--------SIAELKR------LL-EK------DDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFD 372 (667)
T ss_pred -----CCCcccC--------CHHHHHH------HH-hC------CCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEE
Confidence 0000000 0000100 00 00 135788888876542111 111222233 89999
Q ss_pred cCCCCcchhHHHHHhhcccCCCEEEEecCCC
Q 038509 550 EAGQASEPESMIPIANLCTKQTVVVLAGDPK 580 (806)
Q Consensus 550 EAsQ~~epe~li~L~~l~~~~~~lVLvGDp~ 580 (806)
||-..........+....+....+-|-|=|.
T Consensus 373 EaHrs~~~~~~~~l~~~~p~a~~lGfTaTP~ 403 (667)
T TIGR00348 373 EAHRSQYGELAKNLKKALKNASFFGFTGTPI 403 (667)
T ss_pred cCccccchHHHHHHHhhCCCCcEEEEeCCCc
Confidence 9955544444444433333444566666553
No 95
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.70 E-value=0.0001 Score=69.25 Aligned_cols=52 Identities=25% Similarity=0.436 Sum_probs=32.3
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhC---CCCeE-EEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTR---EHSRI-LVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~---~~~rI-Lv~apSN~Aad~l~erL~~ 470 (806)
..++|.||||+|||+++...+.++.... ...++ .+.+++......+.+.+..
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 60 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILE 60 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHH
T ss_pred cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence 4589999999999999888777765421 12344 4444444446666666654
No 96
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.70 E-value=0.00042 Score=72.70 Aligned_cols=56 Identities=11% Similarity=0.099 Sum_probs=39.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS 457 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS 457 (806)
.-|.....++.........++++|+||||||||+.+.....++.. .+.++++++..
T Consensus 27 ~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~--~~~~v~y~~~~ 82 (235)
T PRK08084 27 GDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQ--RGRAVGYVPLD 82 (235)
T ss_pred CccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHh--CCCeEEEEEHH
Confidence 467777777777665444467899999999999977665555554 35777777663
No 97
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=97.70 E-value=9.9e-05 Score=74.61 Aligned_cols=43 Identities=30% Similarity=0.506 Sum_probs=33.1
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
=|++-.+-+.-+....+-|..+|.|||||||||.+.-.+..|+
T Consensus 31 GNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LL 73 (333)
T KOG0991|consen 31 GNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL 73 (333)
T ss_pred CCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHh
Confidence 3666666666666666667799999999999999877777665
No 98
>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=97.69 E-value=0.0001 Score=89.64 Aligned_cols=71 Identities=15% Similarity=0.195 Sum_probs=58.6
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
+..|++.|.+|+..++..+ .+++..|.|||||.+-.--+.+.+...++.++|+++||++.|....+++.+.
T Consensus 34 ~~~p~~~Q~~ai~~il~G~---nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 34 IHRPWQHQARAAELAHAGR---HVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred CCcCCHHHHHHHHHHHCCC---CEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHh
Confidence 3479999999999998744 3799999999999876655555554456789999999999999999998763
No 99
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.66 E-value=0.00012 Score=85.72 Aligned_cols=69 Identities=12% Similarity=0.192 Sum_probs=51.2
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHH-HHHHH-------hCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAI-LQVYS-------TREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i-~qll~-------~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..+++.|.+|+..++..+ .+++.+|.|||||.+-.-.+ .+++. ...+.++|+++||+..|..+.+.+..
T Consensus 142 ~~ptpiQ~~aip~il~g~---dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~ 218 (518)
T PLN00206 142 EFPTPIQMQAIPAALSGR---SLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKV 218 (518)
T ss_pred CCCCHHHHHHHHHHhcCC---CEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHH
Confidence 478999999999999743 37999999999997643333 33322 11346899999999999887766543
No 100
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=97.63 E-value=0.0021 Score=81.06 Aligned_cols=63 Identities=21% Similarity=0.243 Sum_probs=44.4
Q ss_pred HHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 406 TRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 406 ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
+..+...+.. +..++|.|++||||||-+-..+...- .....+|+++-|-.-||-.+++|+.+.
T Consensus 72 ~~~Il~~l~~--~~vvii~g~TGSGKTTqlPq~lle~~-~~~~~~I~~tQPRRlAA~svA~RvA~e 134 (1283)
T TIGR01967 72 REDIAEAIAE--NQVVIIAGETGSGKTTQLPKICLELG-RGSHGLIGHTQPRRLAARTVAQRIAEE 134 (1283)
T ss_pred HHHHHHHHHh--CceEEEeCCCCCCcHHHHHHHHHHcC-CCCCceEecCCccHHHHHHHHHHHHHH
Confidence 3445555543 34589999999999997654443321 112357888889999999999999874
No 101
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.62 E-value=4.1e-05 Score=89.95 Aligned_cols=59 Identities=25% Similarity=0.210 Sum_probs=41.5
Q ss_pred eEECcccccccceeeEEEEEeccCCCcCcccccccccccC-------CCCCceeecccccccceEEE
Q 038509 739 VKVGTVEQFQGQEREVIIVSTVRSTVKHNEFDRTYCLGFL-------SNPRRFNVAITRARSLLIIV 798 (806)
Q Consensus 739 v~V~TVd~fQG~E~dvVIiS~vrs~~~~~~~d~~~~lgfl-------~~~rrlnVAlTRAK~~LiIv 798 (806)
+..+|+|..+|+|+|+|-+...+........+.. .++.+ ..++.+|||+||||+++|+-
T Consensus 675 ~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~-r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~ 740 (853)
T KOG2108|consen 675 VILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFE-RLPSFRVETYNEDEWNFLYVAVTRAKKRLIMC 740 (853)
T ss_pred hhhHHHHhccCcccceeecccCcccccccccchh-hcchhhhhhhhhhhhhheeeeecchhhhcccc
Confidence 5679999999999999999887765432211111 12211 24588999999999988763
No 102
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=97.59 E-value=0.00021 Score=90.46 Aligned_cols=66 Identities=18% Similarity=0.169 Sum_probs=53.7
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.+.+-|+.++..++..+ .+++.+|.|||||+.+.-++..+.. .+.++|+++||...|..+.+++..
T Consensus 78 ~p~~iQ~~~i~~il~G~---d~vi~ApTGsGKT~f~l~~~~~l~~--~g~~vLIL~PTreLa~Qi~~~l~~ 143 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGD---SFAIIAPTGVGKTTFGLAMSLFLAK--KGKRCYIILPTTLLVIQVAEKISS 143 (1171)
T ss_pred CCcHHHHHHHHHHhCCC---eEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEeCHHHHHHHHHHHHHH
Confidence 67899999999999743 4799999999999865544443332 467999999999999999998876
No 103
>PRK13766 Hef nuclease; Provisional
Probab=97.59 E-value=0.00055 Score=84.35 Aligned_cols=131 Identities=18% Similarity=0.189 Sum_probs=85.1
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.+-+.|++++..++.. ..+|..|.|+|||.+.+..+..++. .++.++|+++||...++...+.+.... .....
T Consensus 15 ~~r~yQ~~~~~~~l~~----n~lv~~ptG~GKT~~a~~~i~~~l~-~~~~~vLvl~Pt~~L~~Q~~~~~~~~~--~~~~~ 87 (773)
T PRK13766 15 EARLYQQLLAATALKK----NTLVVLPTGLGKTAIALLVIAERLH-KKGGKVLILAPTKPLVEQHAEFFRKFL--NIPEE 87 (773)
T ss_pred CccHHHHHHHHHHhcC----CeEEEcCCCccHHHHHHHHHHHHHH-hCCCeEEEEeCcHHHHHHHHHHHHHHh--CCCCc
Confidence 5677899999988863 3799999999999977766766664 467899999999999988888776521 11112
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccc-ccccCCcCCCCcEEEEecCCCCcch
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSL-LNTNGIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~-l~~~~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
.+..+.... ... + ..+....++|+++|...... +....+....|++||||||-.....
T Consensus 88 ~v~~~~g~~------~~~--------~------r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~ 146 (773)
T PRK13766 88 KIVVFTGEV------SPE--------K------RAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGN 146 (773)
T ss_pred eEEEEeCCC------CHH--------H------HHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCcccccc
Confidence 232222111 000 0 01223457899998754321 2223345567999999999655544
No 104
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.58 E-value=0.00033 Score=84.80 Aligned_cols=132 Identities=23% Similarity=0.285 Sum_probs=89.3
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
+..|.+.|+.||...+-.. .-++|..|-|+|||-+.--+|.+.+..+ +.++++++|+++.|.+..+++.+....++
T Consensus 29 ~~el~~~qq~av~~~~~~~--~N~li~aPTgsGKTlIA~lai~~~l~~~-~~k~vYivPlkALa~Ek~~~~~~~~~~Gi- 104 (766)
T COG1204 29 IDELFNPQQEAVEKGLLSD--ENVLISAPTGSGKTLIALLAILSTLLEG-GGKVVYIVPLKALAEEKYEEFSRLEELGI- 104 (766)
T ss_pred hHHhhHHHHHHhhccccCC--CcEEEEcCCCCchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHhhhHHhcCC-
Confidence 3478999999999887542 3489999999999988776777666543 67999999999999999998873211111
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccccc-ccCCcCCCCcEEEEecCCCCcc
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLN-TNGIKRGNFSHIFLDEAGQASE 556 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~-~~~~~~~~Fd~ViIDEAsQ~~e 556 (806)
|+.-...... ...+.+.+++|+++|.-....+. ........++.|+|||+-+..+
T Consensus 105 -----rV~~~TgD~~-------------------~~~~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d 160 (766)
T COG1204 105 -----RVGISTGDYD-------------------LDDERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGD 160 (766)
T ss_pred -----EEEEecCCcc-------------------cchhhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCC
Confidence 1111111110 01245788899999986654221 1112334789999999966655
Q ss_pred h
Q 038509 557 P 557 (806)
Q Consensus 557 p 557 (806)
+
T Consensus 161 ~ 161 (766)
T COG1204 161 R 161 (766)
T ss_pred c
Confidence 5
No 105
>PRK09694 helicase Cas3; Provisional
Probab=97.55 E-value=0.0003 Score=86.13 Aligned_cols=68 Identities=22% Similarity=0.252 Sum_probs=56.0
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++-|+.+..... +.+.++|.+|-|+|||.....++..++......+|.++.||.+.++.|.+|+.+
T Consensus 286 ~p~p~Q~~~~~~~~---~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 286 QPRQLQTLVDALPL---QPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CChHHHHHHHhhcc---CCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHH
Confidence 67899987743321 245799999999999999888888777665668999999999999999999875
No 106
>PRK14701 reverse gyrase; Provisional
Probab=97.54 E-value=0.00031 Score=91.04 Aligned_cols=66 Identities=18% Similarity=0.176 Sum_probs=53.0
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.+++-|++++..++..+ .+++.+|.|||||.+..-.+..+. .++.++||++||...+..+.+++..
T Consensus 79 ~pt~iQ~~~i~~il~G~---d~li~APTGsGKTl~~~~~al~~~--~~g~~aLVl~PTreLa~Qi~~~l~~ 144 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGK---SFSIVAPTGMGKSTFGAFIALFLA--LKGKKCYIILPTTLLVKQTVEKIES 144 (1638)
T ss_pred CCCHHHHHHHHHHHcCC---CEEEEEcCCCCHHHHHHHHHHHHH--hcCCeEEEEECHHHHHHHHHHHHHH
Confidence 57899999999999854 479999999999985443333222 2567999999999999999999876
No 107
>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=97.53 E-value=0.00019 Score=77.35 Aligned_cols=155 Identities=19% Similarity=0.237 Sum_probs=83.5
Q ss_pred HHHHHHHHHHhCC----------CCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCC---eEEEEecchHHHHHHHHHHhc
Q 038509 404 EQTRSVEIILGCK----------GAPPYVIYGPPGTGKTMTLVEAILQVYSTREHS---RILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 404 eQ~~AV~~il~~~----------~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~---rILv~apSN~Aad~l~erL~~ 470 (806)
.|++||...+... ...-.++.-.+|+|||.+.+..+..+....+.. ++||++|+ +....-..-+.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcc
Confidence 4888888775432 222367778999999999998888776654333 59999999 444555555544
Q ss_pred ccccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccc----ccccCCcCCCCcEE
Q 038509 471 NEVAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSL----LNTNGIKRGNFSHI 546 (806)
Q Consensus 471 ~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~----l~~~~~~~~~Fd~V 546 (806)
.... ....++.+.... .... ........+.++++|...... .....+...+|+.|
T Consensus 80 ~~~~--~~~~v~~~~~~~-----------------~~~~--~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~v 138 (299)
T PF00176_consen 80 WFDP--DSLRVIIYDGDS-----------------ERRR--LSKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRV 138 (299)
T ss_dssp HSGT---TS-EEEESSSC-----------------HHHH--TTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEE
T ss_pred cccc--cccccccccccc-----------------cccc--ccccccccceeeeccccccccccccccccccccccceeE
Confidence 2100 011333332221 0000 011234567788888766540 11112233469999
Q ss_pred EEecCCCCcch--hHHHHHhhcccCCCEEEEecCCCC
Q 038509 547 FLDEAGQASEP--ESMIPIANLCTKQTVVVLAGDPKQ 581 (806)
Q Consensus 547 iIDEAsQ~~ep--e~li~L~~l~~~~~~lVLvGDp~Q 581 (806)
|||||...-.. .....+..+. ...+++|.|-|.+
T Consensus 139 IvDEaH~~k~~~s~~~~~l~~l~-~~~~~lLSgTP~~ 174 (299)
T PF00176_consen 139 IVDEAHRLKNKDSKRYKALRKLR-ARYRWLLSGTPIQ 174 (299)
T ss_dssp EETTGGGGTTTTSHHHHHHHCCC-ECEEEEE-SS-SS
T ss_pred EEecccccccccccccccccccc-cceEEeecccccc
Confidence 99999554233 2344444433 4568999999998
No 108
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=97.49 E-value=0.0008 Score=74.21 Aligned_cols=42 Identities=24% Similarity=0.507 Sum_probs=31.4
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
+++..+.+...+.....+++++.||||||||+++...+..+.
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 566666777777655545799999999999998766666554
No 109
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.47 E-value=0.00032 Score=83.81 Aligned_cols=70 Identities=20% Similarity=0.333 Sum_probs=60.8
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC--------CCCeEEEEecchHHHHHHHHHHhc
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR--------EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~--------~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..||.-|..+...+.....+ ++|.+|-|+|||.+..-.|+++++++ .+-+|.++||+.+.|.++.+...+
T Consensus 109 ~~fN~iQS~vFp~aY~SneN--MLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 109 EEFNRIQSEVFPVAYKSNEN--MLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred HHHHHHHHHhhhhhhcCCCC--EEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhh
Confidence 38999999999998876555 89999999999998888888888742 467999999999999999998876
No 110
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=97.41 E-value=0.0011 Score=75.86 Aligned_cols=38 Identities=29% Similarity=0.359 Sum_probs=30.9
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.|++|+||||||||+.+.....++.+..++.++++++.
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 47999999999999987766666766667788888875
No 111
>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=97.38 E-value=0.00057 Score=81.10 Aligned_cols=51 Identities=25% Similarity=0.372 Sum_probs=44.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+..+|.+|=|||||+.+..-+.+.+. .++.+||++++-++-+.++..|+..
T Consensus 50 ~V~vVRSpMGTGKTtaLi~wLk~~l~-~~~~~VLvVShRrSL~~sL~~rf~~ 100 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTALIRWLKDALK-NPDKSVLVVSHRRSLTKSLAERFKK 100 (824)
T ss_pred CeEEEECCCCCCcHHHHHHHHHHhcc-CCCCeEEEEEhHHHHHHHHHHHHhh
Confidence 56799999999999988887776654 4789999999999999999999976
No 112
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.38 E-value=0.00062 Score=79.17 Aligned_cols=48 Identities=21% Similarity=0.315 Sum_probs=32.3
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEe-cCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLA-GDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLv-GDp~QL~PvI~s~ 589 (806)
++|.++||||+ +.+.++....|..... ....+||+ -|+..++|.|.|.
T Consensus 118 ~~~kV~iIDE~-~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SR 169 (509)
T PRK14958 118 GRFKVYLIDEV-HMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSR 169 (509)
T ss_pred CCcEEEEEECh-HhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHH
Confidence 57899999999 5555656655544332 24456654 7888888887654
No 113
>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=97.37 E-value=0.0026 Score=65.97 Aligned_cols=57 Identities=26% Similarity=0.352 Sum_probs=40.6
Q ss_pred CCCHHHHHHHHHHHhCCC--CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 400 SLNEEQTRSVEIILGCKG--APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~--~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.-|..=..++..+....+ ..|++|+||+|+|||+.+..+..++.+..++.+|++++.
T Consensus 14 ~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 14 ESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp TTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH
T ss_pred CcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH
Confidence 346555566666655433 247899999999999987777777777678889888764
No 114
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.36 E-value=0.0014 Score=85.18 Aligned_cols=125 Identities=12% Similarity=0.156 Sum_probs=85.2
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCC-ChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGT-GKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGT-GKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.+..|..|+..++.... ...+|+|+.|. |+++ ++..+..++.. .+.+|.++|||++|+..|.+.. .+...
T Consensus 414 ~~~~~~~av~~~~q~~~-~~~il~g~~G~aG~g~-~l~~l~~~a~~-~G~~V~glAPt~~a~~~L~~~~------gi~~~ 484 (1747)
T PRK13709 414 RTAGYSDAVSVLAQDRP-SLAIVSGQGGAAGQRE-RVAELVMMARE-QGREVQILAADRRSQMNLKQDE------RLSGE 484 (1747)
T ss_pred cchhhhHHHHHHhcccC-cEEEEEcCCcchHHHH-HHHHHHHHHHh-CCcEEEEEeCcHHHHHHHHHhc------CCCcc
Confidence 35688999999876543 45788888884 5554 44555556553 7899999999999999986542 12222
Q ss_pred cEEE--cccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcch
Q 038509 480 EILR--LNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 480 ~i~R--l~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
++.+ +... . ..+. .=+++|||||++...-
T Consensus 485 Tva~~~~l~~-------------------------------------------~----~~~~--~~~ilIVDEAg~lsar 515 (1747)
T PRK13709 485 LITGRRQLQE-------------------------------------------G----MAFT--PGSTLIVDQAEKLSLK 515 (1747)
T ss_pred eeehhhhhcc-------------------------------------------c----cCCC--CCcEEEEECCCcCCHH
Confidence 2221 1000 0 0011 1269999999999998
Q ss_pred hHHHHHhhcccCCCEEEEecCCCCCC
Q 038509 558 ESMIPIANLCTKQTVVVLAGDPKQLG 583 (806)
Q Consensus 558 e~li~L~~l~~~~~~lVLvGDp~QL~ 583 (806)
++...+...-..+.++||+||.+|++
T Consensus 516 ~m~~Ll~~A~~~~arvVllgd~~Q~a 541 (1747)
T PRK13709 516 ETLTLLDGAARHNVQVLILDSGQRTG 541 (1747)
T ss_pred HHHHHHHHHHHhCCEEEEECCccccc
Confidence 88887776666678999999999974
No 115
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.36 E-value=0.00041 Score=80.76 Aligned_cols=103 Identities=19% Similarity=0.309 Sum_probs=66.3
Q ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChhhhhh
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTDFIRF 501 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~ 501 (806)
||+||.|+|||.+...++.+++. .+.++|+++|+.+.+..+.+++.+.- . ..+..+.+. +.+. .++
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~--~g~~vLvlvP~i~L~~Q~~~~l~~~f----~-~~v~vlhs~------~~~~-er~ 66 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLA--LGKSVLVLVPEIALTPQMIQRFKYRF----G-SQVAVLHSG------LSDS-EKL 66 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCcHHHHHHHHHHHHHHh----C-CcEEEEECC------CCHH-HHH
Confidence 58999999999998888887775 46789999999999999999997621 1 122222211 1111 010
Q ss_pred hchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCC
Q 038509 502 CFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAG 552 (806)
Q Consensus 502 ~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAs 552 (806)
..+.. . .-..++||++|..... .+..++++|||||+.
T Consensus 67 ~~~~~-~-------~~g~~~IVVGTrsalf------~p~~~l~lIIVDEeh 103 (505)
T TIGR00595 67 QAWRK-V-------KNGEILVVIGTRSALF------LPFKNLGLIIVDEEH 103 (505)
T ss_pred HHHHH-H-------HcCCCCEEECChHHHc------CcccCCCEEEEECCC
Confidence 00100 0 1135688998876432 234468999999983
No 116
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.34 E-value=0.0015 Score=76.49 Aligned_cols=137 Identities=19% Similarity=0.175 Sum_probs=84.5
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHH--hCCCCe-EEEEecchHHHHHHHHHHhccccc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYS--TREHSR-ILVCAASNSAADHMLERLISNEVA 474 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~--~~~~~r-ILv~apSN~Aad~l~erL~~~~~~ 474 (806)
+...++-|.+++-.++..+ -++++++.|||||..-.--+.+.+. ...... .||++||+..|..+.+.+......
T Consensus 49 f~~pt~IQ~~~IP~~l~g~---Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~ 125 (513)
T COG0513 49 FEEPTPIQLAAIPLILAGR---DVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKN 125 (513)
T ss_pred CCCCCHHHHHHHHHHhCCC---CEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhh
Confidence 3467999999999999854 3799999999998764444444343 222222 899999999999999888753211
Q ss_pred CcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhc-cceeeeeeecccccccc-cCCcCCCCcEEEEecCC
Q 038509 475 GIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALG-RYRIIISTYMSSSLLNT-NGIKRGNFSHIFLDEAG 552 (806)
Q Consensus 475 ~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~-~~~Vi~~T~~s~~~l~~-~~~~~~~Fd~ViIDEAs 552 (806)
.....+.-+.... .+... ...+. ..+||++|..-...+.. ..+...+..++++|||-
T Consensus 126 -~~~~~~~~i~GG~----~~~~q----------------~~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEAD 184 (513)
T COG0513 126 -LGGLRVAVVYGGV----SIRKQ----------------IEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEAD 184 (513)
T ss_pred -cCCccEEEEECCC----CHHHH----------------HHHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEeccHh
Confidence 1001111111100 00000 11222 37899998754433222 23555678999999998
Q ss_pred CCcchh
Q 038509 553 QASEPE 558 (806)
Q Consensus 553 Q~~epe 558 (806)
+.++.-
T Consensus 185 rmLd~G 190 (513)
T COG0513 185 RMLDMG 190 (513)
T ss_pred hhhcCC
Confidence 877663
No 117
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=97.33 E-value=0.00013 Score=72.32 Aligned_cols=48 Identities=27% Similarity=0.277 Sum_probs=30.8
Q ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+|.|+.|.|||+++--++.+++... ..+|+||||+..++..+.+.+..
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~-~~~I~vtAP~~~~~~~lf~~~~~ 48 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKG-KIRILVTAPSPENVQTLFEFAEK 48 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS------EEEE-SS--S-HHHHHCC--
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhc-CceEEEecCCHHHHHHHHHHHHh
Confidence 5899999999999888877776532 36899999999999999876653
No 118
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=97.31 E-value=0.0011 Score=74.15 Aligned_cols=138 Identities=21% Similarity=0.173 Sum_probs=97.2
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCccccc
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENE 480 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~ 480 (806)
--..|...+..++.. -+||.=|-|=|||...+-.+...+...++ ++|++|||...+..-.+.+.+ ...+++..
T Consensus 16 ~R~YQ~~i~a~al~~----NtLvvlPTGLGKT~IA~~V~~~~l~~~~~-kvlfLAPTKPLV~Qh~~~~~~--v~~ip~~~ 88 (542)
T COG1111 16 PRLYQLNIAAKALFK----NTLVVLPTGLGKTFIAAMVIANRLRWFGG-KVLFLAPTKPLVLQHAEFCRK--VTGIPEDE 88 (542)
T ss_pred HHHHHHHHHHHHhhc----CeEEEecCCccHHHHHHHHHHHHHHhcCC-eEEEecCCchHHHHHHHHHHH--HhCCChhh
Confidence 345788888888763 37999999999999888888877776565 999999999999988888775 23445555
Q ss_pred EEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccc-cccccCCcCCCCcEEEEecCCCCcchhH
Q 038509 481 ILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSS-LLNTNGIKRGNFSHIFLDEAGQASEPES 559 (806)
Q Consensus 481 i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~-~l~~~~~~~~~Fd~ViIDEAsQ~~epe~ 559 (806)
+.-+....+ ++- ........+|+++|..... .+....+....+++|++|||-.++---.
T Consensus 89 i~~ltGev~------p~~--------------R~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyA 148 (542)
T COG1111 89 IAALTGEVR------PEE--------------REELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYA 148 (542)
T ss_pred eeeecCCCC------hHH--------------HHHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcch
Confidence 544433221 110 1233467889999986643 3444455667899999999988887766
Q ss_pred HHHHhh
Q 038509 560 MIPIAN 565 (806)
Q Consensus 560 li~L~~ 565 (806)
+.-++.
T Consensus 149 Yv~Va~ 154 (542)
T COG1111 149 YVFVAK 154 (542)
T ss_pred HHHHHH
Confidence 665543
No 119
>PF13173 AAA_14: AAA domain
Probab=97.31 E-value=0.0011 Score=62.58 Aligned_cols=40 Identities=23% Similarity=0.312 Sum_probs=31.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAA 461 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aa 461 (806)
..++|.||.|+||||++-..+.++. ++.+++.+.......
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRD 42 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHH
Confidence 4689999999999999888777665 457788877765555
No 120
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.30 E-value=0.0015 Score=78.24 Aligned_cols=65 Identities=18% Similarity=0.192 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHH---------HHH----hCCCCeEEEEecchHHHHHHHHHHh
Q 038509 403 EEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQ---------VYS----TREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 403 ~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~q---------ll~----~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
.-|.+++..++.. ..++++|+.|||||+.+-..+.. .+. .....+|++++|+..||..+.+++.
T Consensus 167 ~iQ~qil~~i~~g---kdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~ 243 (675)
T PHA02653 167 DVQLKIFEAWISR---KPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLL 243 (675)
T ss_pred HHHHHHHHHHHhC---CCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHH
Confidence 3566666666653 45899999999999875433321 111 1234689999999999999988886
Q ss_pred c
Q 038509 470 S 470 (806)
Q Consensus 470 ~ 470 (806)
+
T Consensus 244 ~ 244 (675)
T PHA02653 244 K 244 (675)
T ss_pred H
Confidence 5
No 121
>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=97.26 E-value=0.00069 Score=78.53 Aligned_cols=65 Identities=17% Similarity=0.224 Sum_probs=50.8
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
++.+++.|.+|+..++..+ .+++.+|.|||||.+-. +-.+. .+...||++|+.+.+....+++..
T Consensus 9 ~~~~r~~Q~~ai~~~l~g~---dvlv~apTGsGKTl~y~--lp~l~---~~~~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 9 LSSFRPVQLEVINAVLLGR---DCFVVMPTGGGKSLCYQ--LPALC---SDGITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred CCCCCHHHHHHHHHHHcCC---CEEEEcCCCCcHhHHHH--HHHHH---cCCcEEEEecHHHHHHHHHHHHHH
Confidence 4478999999999999754 47999999999996532 22222 346789999999998888888764
No 122
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.25 E-value=0.00081 Score=76.62 Aligned_cols=48 Identities=19% Similarity=0.312 Sum_probs=31.1
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc-C--CCEEEEec-CCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT-K--QTVVVLAG-DPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~-~--~~~lVLvG-Dp~QL~PvI~s~ 589 (806)
+.+.++||||| +.+..+.+..|..... + ...+|++. ++.+|+|.|.|.
T Consensus 120 g~~KV~IIDEa-h~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SR 171 (484)
T PRK14956 120 GKYKVYIIDEV-HMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSR 171 (484)
T ss_pred CCCEEEEEech-hhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhh
Confidence 46899999999 6666666666544332 2 33445444 457788887765
No 123
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=97.24 E-value=0.0025 Score=73.13 Aligned_cols=38 Identities=29% Similarity=0.356 Sum_probs=29.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.|++|+|++|||||+.+..+..++....++.++++++.
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 57999999999999877655555555567788887765
No 124
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=97.23 E-value=0.0011 Score=72.65 Aligned_cols=57 Identities=23% Similarity=0.348 Sum_probs=37.0
Q ss_pred HHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 408 SVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 408 AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
.+..++.....+.++++||||||||| ++.+|.+.. +..+.-+..+.+.+.++.+-+.
T Consensus 38 ~lrr~v~~~~l~SmIl~GPPG~GKTT-lA~liA~~~----~~~f~~~sAv~~gvkdlr~i~e 94 (436)
T COG2256 38 PLRRAVEAGHLHSMILWGPPGTGKTT-LARLIAGTT----NAAFEALSAVTSGVKDLREIIE 94 (436)
T ss_pred hHHHHHhcCCCceeEEECCCCCCHHH-HHHHHHHhh----CCceEEeccccccHHHHHHHHH
Confidence 44556655555678999999999996 566666543 3555555555555666655443
No 125
>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=97.19 E-value=0.0013 Score=70.20 Aligned_cols=41 Identities=17% Similarity=0.213 Sum_probs=27.4
Q ss_pred CCHHHHHHHHHHHh--CCCCCCEEEEcCCCCChHHHHHHHHHH
Q 038509 401 LNEEQTRSVEIILG--CKGAPPYVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 401 LN~eQ~~AV~~il~--~~~~~~~lI~GPPGTGKT~tlv~~i~q 441 (806)
.++.+++|+..+.. ..+.+.++|.||||+|||+++...+..
T Consensus 24 ~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 24 PSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHh
Confidence 35666777765532 222346899999999999876654433
No 126
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=97.15 E-value=0.002 Score=74.33 Aligned_cols=56 Identities=18% Similarity=0.226 Sum_probs=38.0
Q ss_pred CHHHHHHHHHHHhCC--CCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc
Q 038509 402 NEEQTRSVEIILGCK--GAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS 457 (806)
Q Consensus 402 N~eQ~~AV~~il~~~--~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS 457 (806)
|..-..++..+.... ...|++|+||||||||+.+.....++.+..++.+++.++..
T Consensus 130 n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~ 187 (450)
T PRK00149 130 NRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE 187 (450)
T ss_pred cHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence 444444444444332 23579999999999999887777777665567788877653
No 127
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.12 E-value=0.0032 Score=77.83 Aligned_cols=162 Identities=19% Similarity=0.181 Sum_probs=94.1
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.|-+.|..++..++... .+-++|-=..|.|||......+.+++..+...++||++|+.-.-....|-.... .+
T Consensus 152 ~l~pHQl~~~~~vl~~~-~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW~~El~~kF---~l--- 224 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRH-APRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQWLVEMLRRF---NL--- 224 (956)
T ss_pred CCCHHHHHHHHHHhhcc-CCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHHHHHHHHHh---CC---
Confidence 68999999998877643 234788899999999988777777776666689999999754443333322211 01
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccc--cccCCcCCCCcEEEEecCCCCc--
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLL--NTNGIKRGNFSHIFLDEAGQAS-- 555 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l--~~~~~~~~~Fd~ViIDEAsQ~~-- 555 (806)
.+ .+....+. ..+. .........+++++++......- ....+....||+||||||...-
T Consensus 225 ~~-~i~~~~~~--------~~~~--------~~~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~ 287 (956)
T PRK04914 225 RF-SLFDEERY--------AEAQ--------HDADNPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWS 287 (956)
T ss_pred Ce-EEEcCcch--------hhhc--------ccccCccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccC
Confidence 11 11111110 0000 00001123466777776543321 1122344589999999995553
Q ss_pred --ch-hHHHHHhhcccC-CCEEEEecCCCCCCce
Q 038509 556 --EP-ESMIPIANLCTK-QTVVVLAGDPKQLGPV 585 (806)
Q Consensus 556 --ep-e~li~L~~l~~~-~~~lVLvGDp~QL~Pv 585 (806)
.| ..+..+..++.+ ...+.|-|=|.|.++.
T Consensus 288 ~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~ 321 (956)
T PRK04914 288 EEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQE 321 (956)
T ss_pred CCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcH
Confidence 12 123444444322 3579999999997664
No 128
>PRK14974 cell division protein FtsY; Provisional
Probab=97.11 E-value=0.0024 Score=70.16 Aligned_cols=45 Identities=24% Similarity=0.348 Sum_probs=31.4
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec-c--hHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA-S--NSAADHMLE 466 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap-S--N~Aad~l~e 466 (806)
.+++.||||+|||||++..+..+.. .+.+|++++. + ..|.+.+..
T Consensus 142 vi~~~G~~GvGKTTtiakLA~~l~~--~g~~V~li~~Dt~R~~a~eqL~~ 189 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAYYLKK--NGFSVVIAAGDTFRAGAIEQLEE 189 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEecCCcCcHHHHHHHHH
Confidence 4789999999999999988876654 3467766543 2 445555533
No 129
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.10 E-value=0.0022 Score=75.66 Aligned_cols=132 Identities=20% Similarity=0.225 Sum_probs=88.7
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.|-..|.+.++-+|. . .++|..|-|+|||.+++..+...++..|..+|+++|||.-.+..-..++... ..+..
T Consensus 62 ~lR~YQ~eivq~ALg-k---Ntii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~---~~~~~ 134 (746)
T KOG0354|consen 62 ELRNYQEELVQPALG-K---NTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIY---LIPYS 134 (746)
T ss_pred cccHHHHHHhHHhhc-C---CeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhc---cCccc
Confidence 788999999999994 2 3799999999999999999999888889999999999999888776655432 11111
Q ss_pred cEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccc-cccccCCcC-CCCcEEEEecCCCCcch
Q 038509 480 EILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSS-LLNTNGIKR-GNFSHIFLDEAGQASEP 557 (806)
Q Consensus 480 ~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~-~l~~~~~~~-~~Fd~ViIDEAsQ~~ep 557 (806)
...-++.. .............+|++.|+-... .+....... ..|..+|||||-.++--
T Consensus 135 ~T~~l~~~--------------------~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn 194 (746)
T KOG0354|consen 135 VTGQLGDT--------------------VPRSNRGEIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKN 194 (746)
T ss_pred ceeeccCc--------------------cCCCchhhhhcccceEEeChHhhhhhcccccccccceEEEEEEccccccccc
Confidence 11111110 000111234456788888885543 222222223 56999999999666544
Q ss_pred h
Q 038509 558 E 558 (806)
Q Consensus 558 e 558 (806)
.
T Consensus 195 ~ 195 (746)
T KOG0354|consen 195 H 195 (746)
T ss_pred c
Confidence 3
No 130
>PRK08727 hypothetical protein; Validated
Probab=97.09 E-value=0.0063 Score=63.75 Aligned_cols=36 Identities=19% Similarity=0.149 Sum_probs=27.3
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
..+++|.||+|||||+.+.....++.. .+.++.+++
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~~~~--~~~~~~y~~ 76 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAAAEQ--AGRSSAYLP 76 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEEe
Confidence 356999999999999987776666554 346777665
No 131
>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=97.07 E-value=0.0048 Score=78.07 Aligned_cols=165 Identities=13% Similarity=0.095 Sum_probs=102.5
Q ss_pred cEEEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCccHHHHHhhcccccCCCccceecccc
Q 038509 544 SHIFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKSYLERLFECEFYRNGDEGYVTKLVR 623 (806)
Q Consensus 544 d~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~ 623 (806)
.+|+|||+ |.++|..+..|..+.....++.+++|..| .++.......++...-..+|... .......+..+..
T Consensus 187 ~~i~IDgF-~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~---~~~~~~~~~~~LF~~s~~~L~~l---a~~~~i~v~~~~~ 259 (1076)
T TIGR02774 187 TVLVIDGF-TRFSAEEEALVSLLHGKGVEIIIGAYASQ---KAYKSSFSEGNLYQASVKFLHDL---AQKYQTKAEFISS 259 (1076)
T ss_pred CEEEEccC-CCCCHHHHHHHHHHHHhCCEEEEEEEcCc---cccccCCCcccchHHHHHHHHHH---HHHcCCCcccCcc
Confidence 79999999 99999999999988888888999999998 44311101111110111222111 0011222334558
Q ss_pred cccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHH
Q 038509 624 NYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKL 703 (806)
Q Consensus 624 nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L 703 (806)
|||++++|..+.+.++-.. ..+.. .+..-...+..+.++.... -..|++.|+..|.+|
T Consensus 260 ~~R~~~~L~~Le~~~~~~~-~~~~~---------~~~~~~~~~~~I~i~~a~n------------~~~Eve~va~~I~~l 317 (1076)
T TIGR02774 260 THESKDSFDKLSRLLEASH-DFSEL---------ALDLDDKDKDNLTIWSCLT------------QKEEVEHVARSIRQK 317 (1076)
T ss_pred ccccCHHHHHHHHHHhhcc-cCCcc---------cccCCCCCCCceEEEEcCC------------HHHHHHHHHHHHHHH
Confidence 8999999999987443210 00000 0000000001233333222 235999999999999
Q ss_pred HHcCCCCCCeEEEEcCChHH-HHHHHHHhhcCCCCC
Q 038509 704 RENTELNETDIGVITPYRQQ-VLKIKKVLETWDMPD 738 (806)
Q Consensus 704 ~~~~~~~~~dIgIItPy~~Q-v~~i~~~L~~~~~~~ 738 (806)
++. |+.++||+|+++-..+ ...|...+.+.++|-
T Consensus 318 v~~-g~ry~DIaVl~rd~~~Y~~~i~~iF~~~~IP~ 352 (1076)
T TIGR02774 318 LYE-GYRYKDILVLLGDVDSYQLQLGKIFDQYDIPF 352 (1076)
T ss_pred HHc-CCChhheEEEcCCHHHHHHHHHHHHhhcCCCe
Confidence 988 7999999999999887 778899998888763
No 132
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.06 E-value=0.0018 Score=75.86 Aligned_cols=48 Identities=19% Similarity=0.371 Sum_probs=32.8
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEec-CCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAG-DPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvG-Dp~QL~PvI~s~ 589 (806)
++|.++||||+ +.+.......|.+... .+..+||+. |+.+|.|+|.|.
T Consensus 123 gr~KViIIDEa-h~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSR 174 (700)
T PRK12323 123 GRFKVYMIDEV-HMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR 174 (700)
T ss_pred CCceEEEEECh-HhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHH
Confidence 47899999999 5666666666554432 234566654 677888888875
No 133
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=97.06 E-value=0.0036 Score=68.48 Aligned_cols=131 Identities=19% Similarity=0.310 Sum_probs=68.4
Q ss_pred CCC-EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCCh
Q 038509 418 APP-YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPT 496 (806)
Q Consensus 418 ~~~-~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~ 496 (806)
.++ +++.||||||||+++...+..+....+....-.+.. ..+..+.. ....+++.+++......++..
T Consensus 23 ~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~------~~~~~~~~-----~~~~d~lel~~s~~~~~~i~~ 91 (325)
T COG0470 23 LPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHC------RSCKLIPA-----GNHPDFLELNPSDLRKIDIIV 91 (325)
T ss_pred CCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccch------hhhhHHhh-----cCCCceEEecccccCCCcchH
Confidence 344 999999999999987777766664332111111111 22222221 123366677665543322111
Q ss_pred -hhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhHHHHHhhcc---cCCCE
Q 038509 497 -DFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPESMIPIANLC---TKQTV 572 (806)
Q Consensus 497 -~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~~l~---~~~~~ 572 (806)
.+..+. +... ..-..+.+.+|||||| +.+.++..-++.... ..++.
T Consensus 92 ~~vr~~~---~~~~--------------------------~~~~~~~~kviiidea-d~mt~~A~nallk~lEep~~~~~ 141 (325)
T COG0470 92 EQVRELA---EFLS--------------------------ESPLEGGYKVVIIDEA-DKLTEDAANALLKTLEEPPKNTR 141 (325)
T ss_pred HHHHHHH---HHhc--------------------------cCCCCCCceEEEeCcH-HHHhHHHHHHHHHHhccCCCCeE
Confidence 111110 0000 0001357899999999 666666655555433 23456
Q ss_pred EEEecC-CCCCCceeecc
Q 038509 573 VVLAGD-PKQLGPVIYSK 589 (806)
Q Consensus 573 lVLvGD-p~QL~PvI~s~ 589 (806)
++|+-+ +..+.|.|.|.
T Consensus 142 ~il~~n~~~~il~tI~SR 159 (325)
T COG0470 142 FILITNDPSKILPTIRSR 159 (325)
T ss_pred EEEEcCChhhccchhhhc
Confidence 776665 67777766654
No 134
>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=97.06 E-value=0.0021 Score=71.72 Aligned_cols=62 Identities=18% Similarity=0.239 Sum_probs=47.4
Q ss_pred HHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 404 EQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 404 eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
.|.+|+..+.... ...++|.+|+|+|||....-.+. . ...+.++++|+++.++...+++.+.
T Consensus 1 hQ~~~~~~~~~~~-~~~~~i~apTGsGKT~~~~~~~l---~--~~~~~~~~~P~~aL~~~~~~~~~~~ 62 (357)
T TIGR03158 1 HQVATFEALQSKD-ADIIFNTAPTGAGKTLAWLTPLL---H--GENDTIALYPTNALIEDQTEAIKEF 62 (357)
T ss_pred CHHHHHHHHHcCC-CCEEEEECCCCCCHHHHHHHHHH---H--cCCCEEEEeChHHHHHHHHHHHHHH
Confidence 4889999888643 23589999999999986543333 2 3457899999999999998888763
No 135
>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=97.04 E-value=0.003 Score=71.79 Aligned_cols=38 Identities=24% Similarity=0.412 Sum_probs=30.0
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.|++|+||||||||+.+.....++.+..++.+++.++.
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 47899999999999988776666666556778888764
No 136
>PRK06893 DNA replication initiation factor; Validated
Probab=97.03 E-value=0.005 Score=64.32 Aligned_cols=37 Identities=16% Similarity=0.240 Sum_probs=25.9
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+.++|+||||||||+.+..+..++... +.++.+++.
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~ 75 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPL 75 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeH
Confidence 3446999999999999877666666553 345555544
No 137
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=97.03 E-value=0.0027 Score=65.88 Aligned_cols=69 Identities=20% Similarity=0.289 Sum_probs=56.0
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEecchHHHHHHHHHHhcc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
.-+.-|+.|+..|+..++ ++.++-.|||||.|..--+.|.+... ....+|+++||+..|-.+.+-+...
T Consensus 49 kPS~IQqrAi~~IlkGrd---ViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 49 KPSAIQQRAIPQILKGRD---VIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred CchHHHhhhhhhhhcccc---eEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHh
Confidence 446789999999998554 79999999999998776666665533 3468999999999999998888763
No 138
>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=97.03 E-value=0.0033 Score=68.48 Aligned_cols=21 Identities=38% Similarity=0.645 Sum_probs=16.8
Q ss_pred CCEEEEcCCCCChHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAI 439 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i 439 (806)
++++++||||||||+.+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia 51 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIA 51 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 458999999999998765443
No 139
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=97.00 E-value=0.0051 Score=67.19 Aligned_cols=42 Identities=31% Similarity=0.519 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.+++.+.+...+.....++++++||||||||+++...+.++.
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~ 63 (319)
T PRK00440 22 QEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY 63 (319)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence 455666666666554456699999999999987766555543
No 140
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=96.99 E-value=0.0029 Score=76.05 Aligned_cols=128 Identities=20% Similarity=0.248 Sum_probs=82.6
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKEN 479 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~ 479 (806)
.+-.-|+--.++++... .+-|.+|+|+||||....+.+.+.. .++|++++-||...+.+..+||.+.... .. .
T Consensus 82 ~~ws~QR~WakR~~rg~---SFaiiAPTGvGKTTfg~~~sl~~a~--kgkr~yii~PT~~Lv~Q~~~kl~~~~e~-~~-~ 154 (1187)
T COG1110 82 RPWSAQRVWAKRLVRGK---SFAIIAPTGVGKTTFGLLMSLYLAK--KGKRVYIIVPTTTLVRQVYERLKKFAED-AG-S 154 (1187)
T ss_pred CchHHHHHHHHHHHcCC---ceEEEcCCCCchhHHHHHHHHHHHh--cCCeEEEEecCHHHHHHHHHHHHHHHhh-cC-C
Confidence 45567999999998743 3799999999999998877666554 5699999999999999999999864211 11 1
Q ss_pred cEEEc-ccCCCCCCCCChhhhhhhchhhhhccCCchhhh--ccceeeeeeecccccccccCCcCCCCcEEEEecC
Q 038509 480 EILRL-NATSRPYEDVPTDFIRFCFFEESIFKCPPREAL--GRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEA 551 (806)
Q Consensus 480 ~i~Rl-~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L--~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEA 551 (806)
.-.++ ++.. ++..-.+ + ..+.+ ..++|+++|..-...- ...+...+||.||||.+
T Consensus 155 ~~~~~~yh~~-----l~~~eke-----e------~le~i~~gdfdIlitTs~FL~k~-~e~L~~~kFdfifVDDV 212 (1187)
T COG1110 155 LDVLVVYHSA-----LPTKEKE-----E------ALERIESGDFDILITTSQFLSKR-FEELSKLKFDFIFVDDV 212 (1187)
T ss_pred cceeeeeccc-----cchHHHH-----H------HHHHHhcCCccEEEEeHHHHHhh-HHHhcccCCCEEEEccH
Confidence 11122 2111 1111000 0 01122 3588998887543321 12344468999999998
No 141
>PRK13342 recombination factor protein RarA; Reviewed
Probab=96.97 E-value=0.0031 Score=71.87 Aligned_cols=29 Identities=28% Similarity=0.547 Sum_probs=20.7
Q ss_pred HHHHHhCCCCCCEEEEcCCCCChHHHHHH
Q 038509 409 VEIILGCKGAPPYVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 409 V~~il~~~~~~~~lI~GPPGTGKT~tlv~ 437 (806)
+..++.....+.++++||||||||+++..
T Consensus 27 L~~~i~~~~~~~ilL~GppGtGKTtLA~~ 55 (413)
T PRK13342 27 LRRMIEAGRLSSMILWGPPGTGKTTLARI 55 (413)
T ss_pred HHHHHHcCCCceEEEECCCCCCHHHHHHH
Confidence 45555544445789999999999976443
No 142
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.94 E-value=0.0035 Score=74.48 Aligned_cols=48 Identities=15% Similarity=0.304 Sum_probs=30.7
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEE-ecCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVL-AGDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVL-vGDp~QL~PvI~s~ 589 (806)
++|.++||||+ +.+....+..|.+... .+.++|| .-|+.+++|.|.|.
T Consensus 118 gr~KVIIIDEa-h~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSR 169 (830)
T PRK07003 118 ARFKVYMIDEV-HMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSR 169 (830)
T ss_pred CCceEEEEeCh-hhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhh
Confidence 46899999999 5555555555544332 2445555 44667788777664
No 143
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=96.94 E-value=0.0052 Score=74.51 Aligned_cols=69 Identities=20% Similarity=0.205 Sum_probs=49.9
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHH-hCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYS-TREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~-~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
.++.|.+++..++..+ -+.++++|.|||||.+++.-+..+.. .....++++++||+.-|+.+.+.+.+.
T Consensus 16 PtpiQ~~~i~~il~G~--~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQ--PPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred CCHHHHHHHHHHHcCC--CcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHH
Confidence 7899999999999643 25788999999999865421221111 113456777889999999998887653
No 144
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=96.92 E-value=1.7e-05 Score=75.31 Aligned_cols=88 Identities=11% Similarity=0.112 Sum_probs=56.6
Q ss_pred CCeEEEEEEEecCCCceeeEEEEEEecCceEEEEEEEEEecchhc-cccCCCCCCCCccccccC----cccccccCCCCc
Q 038509 130 LRTLTIWLSCKPKEMGLHKSVVQFDIGDDRFERMVLLLAEDSVSR-SLASNRPYSRVPRKMQSA----VDEYVASSSPAR 204 (806)
Q Consensus 130 g~~~~~~~~~~~~~~g~~~~~~~~~f~~~~i~r~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~----~~~~~~~~~~~~ 204 (806)
|+++..++.|..+|+ |.|+|.+.|-+-++.++|+++++. ....++.|+..+ |.+++ +.+|+.+.|++.
T Consensus 57 gdt~leCy~Cg~~Nv------F~LGFipak~d~vvvllCR~pC~~~~~~kd~~wD~~~-W~PLI~dr~fl~wlv~~Ps~~ 129 (152)
T PF09416_consen 57 GDTVLECYNCGSRNV------FLLGFIPAKSDSVVVLLCRQPCANQPSLKDMNWDTSQ-WQPLIEDRQFLPWLVKIPSEE 129 (152)
T ss_dssp -S-B---TTT----T------TTEEEEEETTSCEEEEEETTTTTSTTTCTTTTS-GGG--EESEETTCE-TTTS----CC
T ss_pred CCcEEEEEecCCCce------eeEEEEEeccCCeEEEEeCCchhccchhccccCCHhh-CccccccccchHhhcCCCChH
Confidence 889999999999999 999999999999999999999885 566778888887 55543 678888989888
Q ss_pred ccchhhccccccccCCCCCC
Q 038509 205 TTTEARTTKRGSNYKLPEFP 224 (806)
Q Consensus 205 ~~~~~~~~~~~~~~~l~~~~ 224 (806)
.+.+||.++...+.+|++.|
T Consensus 130 e~~~ar~it~~qI~klEe~w 149 (152)
T PF09416_consen 130 EQLRARQITPQQINKLEELW 149 (152)
T ss_dssp HHHHS----HHHHHHHHHHH
T ss_pred HHhhhccCCHHHHHHHHHHH
Confidence 77788988888888876655
No 145
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.91 E-value=0.0027 Score=73.17 Aligned_cols=36 Identities=25% Similarity=0.304 Sum_probs=22.8
Q ss_pred HHHHHHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHH
Q 038509 406 TRSVEIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 406 ~~AV~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~q 441 (806)
.+.+...+.....+ .++++||||||||+++-..+..
T Consensus 23 ~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 23 KKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 44455555433333 3799999999999865443333
No 146
>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=96.90 E-value=0.0023 Score=65.54 Aligned_cols=23 Identities=43% Similarity=0.764 Sum_probs=17.4
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
+.++++||||+|||| ++..|++-
T Consensus 51 ~h~lf~GPPG~GKTT-LA~IIA~e 73 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTT-LARIIANE 73 (233)
T ss_dssp -EEEEESSTTSSHHH-HHHHHHHH
T ss_pred ceEEEECCCccchhH-HHHHHHhc
Confidence 458999999999986 56666544
No 147
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=96.90 E-value=0.0077 Score=60.12 Aligned_cols=35 Identities=29% Similarity=0.342 Sum_probs=30.1
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.++|.||=.+|||+.|+.++..... .+.++++.+|
T Consensus 6 l~~i~gpM~SGKT~eLl~r~~~~~~--~g~~v~vfkp 40 (201)
T COG1435 6 LEFIYGPMFSGKTEELLRRARRYKE--AGMKVLVFKP 40 (201)
T ss_pred EEEEEccCcCcchHHHHHHHHHHHH--cCCeEEEEec
Confidence 5799999999999999988887654 5789999887
No 148
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.89 E-value=0.0023 Score=77.37 Aligned_cols=47 Identities=21% Similarity=0.359 Sum_probs=31.5
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC---CCEEEE-ecCCCCCCceeec
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK---QTVVVL-AGDPKQLGPVIYS 588 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~---~~~lVL-vGDp~QL~PvI~s 588 (806)
+++.++||||| +.+..+.+..|...... ..++|+ ..|+..|.|.|.|
T Consensus 118 gk~KViIIDEA-h~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlS 168 (944)
T PRK14949 118 GRFKVYLIDEV-HMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLS 168 (944)
T ss_pred CCcEEEEEech-HhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHH
Confidence 57899999999 77777777766554432 234444 4466667777665
No 149
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.88 E-value=0.0038 Score=74.04 Aligned_cols=48 Identities=23% Similarity=0.355 Sum_probs=31.1
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcc-cCCC--EEEE-ecCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLC-TKQT--VVVL-AGDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~-~~~~--~lVL-vGDp~QL~PvI~s~ 589 (806)
+.|.++||||| +.+..+..-.|.... .+.. .+|| .=|+..|+|+|.|.
T Consensus 118 g~~KV~IIDEa-h~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SR 169 (647)
T PRK07994 118 GRFKVYLIDEV-HMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 169 (647)
T ss_pred CCCEEEEEech-HhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhh
Confidence 47899999999 666666666665443 2222 3343 33777788887764
No 150
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.88 E-value=0.0054 Score=77.33 Aligned_cols=62 Identities=18% Similarity=0.201 Sum_probs=41.4
Q ss_pred HHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 407 RSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 407 ~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
..+...+.. +..++|.|++||||||.+-..+..+ .......|.++-|-.-||-++++|+.+.
T Consensus 80 ~~Il~ai~~--~~VviI~GeTGSGKTTqlPq~lle~-g~g~~g~I~~TQPRRlAArsLA~RVA~E 141 (1294)
T PRK11131 80 QDILEAIRD--HQVVIVAGETGSGKTTQLPKICLEL-GRGVKGLIGHTQPRRLAARTVANRIAEE 141 (1294)
T ss_pred HHHHHHHHh--CCeEEEECCCCCCHHHHHHHHHHHc-CCCCCCceeeCCCcHHHHHHHHHHHHHH
Confidence 334444432 3458999999999999655433322 1112346777779999999999999863
No 151
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=96.84 E-value=0.0057 Score=70.07 Aligned_cols=36 Identities=28% Similarity=0.542 Sum_probs=27.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.|++|+||||+|||+.+..+..++.. .+.+++.++.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~--~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRE--SGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHH--cCCCEEEeeH
Confidence 47999999999999977766655554 3578887764
No 152
>PRK05642 DNA replication initiation factor; Validated
Probab=96.81 E-value=0.014 Score=61.10 Aligned_cols=36 Identities=17% Similarity=0.242 Sum_probs=26.1
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+++|+||+|||||+.+..+..++.. .+.++++++.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~--~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQ--RGEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHh--CCCcEEEeeH
Confidence 56899999999999986655544443 3567777663
No 153
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.78 E-value=0.0046 Score=72.86 Aligned_cols=48 Identities=15% Similarity=0.368 Sum_probs=29.4
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC---CCEEE-EecCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK---QTVVV-LAGDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~---~~~lV-LvGDp~QL~PvI~s~ 589 (806)
+.+.++||||| +.+..+....|...... ...+| +.+++..|.|.|.|.
T Consensus 117 ~~~KVvIIDEa-h~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SR 168 (584)
T PRK14952 117 SRYRIFIVDEA-HMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSR 168 (584)
T ss_pred CCceEEEEECC-CcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHh
Confidence 36799999999 44455555555433322 33344 356777888776654
No 154
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.78 E-value=0.007 Score=70.38 Aligned_cols=34 Identities=29% Similarity=0.309 Sum_probs=22.2
Q ss_pred HHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 410 EIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 410 ~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
...+.....+ .++++||||||||+++...+..+.
T Consensus 27 ~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~ 61 (504)
T PRK14963 27 LAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVN 61 (504)
T ss_pred HHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence 3334433333 359999999999998665555554
No 155
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=96.78 E-value=0.0028 Score=75.73 Aligned_cols=65 Identities=17% Similarity=0.319 Sum_probs=50.6
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
++.+.+.|++|+..++..+ .+++.+|.|+|||.+-. +-.+.. ...+||++|+.+.+....+++..
T Consensus 23 ~~~~r~~Q~~ai~~il~g~---dvlv~apTGsGKTl~y~--lpal~~---~g~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 23 YQQFRPGQQEIIDAVLSGR---DCLVVMPTGGGKSLCYQ--IPALVL---DGLTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred CCCCCHHHHHHHHHHHcCC---CEEEEcCCCchHHHHHH--HHHHHc---CCCEEEEecHHHHHHHHHHHHHH
Confidence 3478999999999999743 47999999999996532 333332 45789999999999888888765
No 156
>COG4889 Predicted helicase [General function prediction only]
Probab=96.77 E-value=0.0038 Score=73.46 Aligned_cols=148 Identities=20% Similarity=0.215 Sum_probs=75.9
Q ss_pred CCCHHHHHHHHHHHh---CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 400 SLNEEQTRSVEIILG---CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~---~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.+-+.|+.|+..++. ....+ -||. .+|||||.|...+...+.+ .+||.++||-+..-.-.+--.......+
T Consensus 161 k~R~hQq~Aid~a~~~F~~n~RG-kLIM-AcGTGKTfTsLkisEala~----~~iL~LvPSIsLLsQTlrew~~~~~l~~ 234 (1518)
T COG4889 161 KPRPHQQTAIDAAKEGFSDNDRG-KLIM-ACGTGKTFTSLKISEALAA----ARILFLVPSISLLSQTLREWTAQKELDF 234 (1518)
T ss_pred CCChhHHHHHHHHHhhcccccCC-cEEE-ecCCCccchHHHHHHHHhh----hheEeecchHHHHHHHHHHHhhccCccc
Confidence 788999999999874 11222 2554 4799999997766555543 8999999998766555444433222222
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhch--hhhhccC-Cchhhhccceeeeeeecccccccc-cCCcCCCCcEEEEecCC
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFF--EESIFKC-PPREALGRYRIIISTYMSSSLLNT-NGIKRGNFSHIFLDEAG 552 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~--~~~~~~~-~~~~~L~~~~Vi~~T~~s~~~l~~-~~~~~~~Fd~ViIDEAs 552 (806)
...-+-.=...+|.-+++...-.++-.. .+.+... ...+.-..--||+||+.+...... ...-.+.||.||.|||-
T Consensus 235 ~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDliicDEAH 314 (1518)
T COG4889 235 RASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLIICDEAH 314 (1518)
T ss_pred eeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCccEEEecchh
Confidence 1111111111122222222111111000 0000000 000111234588999887643221 11223579999999993
Q ss_pred C
Q 038509 553 Q 553 (806)
Q Consensus 553 Q 553 (806)
.
T Consensus 315 R 315 (1518)
T COG4889 315 R 315 (1518)
T ss_pred c
Confidence 3
No 157
>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=96.76 E-value=0.0039 Score=74.42 Aligned_cols=65 Identities=14% Similarity=0.259 Sum_probs=50.8
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
++.+++.|.+|+..++..+ .+++..|.|+|||.+.. +-.++ .+...+|++|+.+.+....+++..
T Consensus 11 ~~~fr~~Q~~~i~~il~g~---dvlv~~PTG~GKTl~y~--lpal~---~~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGR---DVLVVMPTGGGKSLCYQ--VPALL---LKGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred CCCCCHHHHHHHHHHHcCC---CEEEEcCCCccHhHHHH--HHHHH---cCCcEEEEcCCHHHHHHHHHHHHH
Confidence 4478999999999999754 37999999999997643 22233 245789999999998888888765
No 158
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=96.75 E-value=0.0055 Score=74.05 Aligned_cols=30 Identities=27% Similarity=0.491 Sum_probs=21.3
Q ss_pred HHHHHHhCCCCCCEEEEcCCCCChHHHHHH
Q 038509 408 SVEIILGCKGAPPYVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 408 AV~~il~~~~~~~~lI~GPPGTGKT~tlv~ 437 (806)
.+..++.....+.++++||||||||+++..
T Consensus 42 ~L~~~i~~~~~~slLL~GPpGtGKTTLA~a 71 (725)
T PRK13341 42 LLRRAIKADRVGSLILYGPPGVGKTTLARI 71 (725)
T ss_pred HHHHHHhcCCCceEEEECCCCCCHHHHHHH
Confidence 344455544456799999999999976443
No 159
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=96.74 E-value=0.0066 Score=71.61 Aligned_cols=48 Identities=17% Similarity=0.327 Sum_probs=29.1
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhc-ccC--CCEEEEe-cCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANL-CTK--QTVVVLA-GDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l-~~~--~~~lVLv-GDp~QL~PvI~s~ 589 (806)
+.+.++||||+.+.++ .....|... -.+ ...+|++ .++..++|.|.|.
T Consensus 118 ~~~kViIIDE~~~Lt~-~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SR 169 (559)
T PRK05563 118 AKYKVYIIDEVHMLST-GAFNALLKTLEEPPAHVIFILATTEPHKIPATILSR 169 (559)
T ss_pred CCeEEEEEECcccCCH-HHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhH
Confidence 4678999999955544 444444433 222 2344543 4788888887653
No 160
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.72 E-value=0.004 Score=73.20 Aligned_cols=47 Identities=21% Similarity=0.356 Sum_probs=30.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEec-CCCCCCceeec
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAG-DPKQLGPVIYS 588 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvG-Dp~QL~PvI~s 588 (806)
+.+.++||||+ +.+.......|..... ....+||+. |+..+++.|.|
T Consensus 117 gk~KV~IIDEV-h~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlS 167 (702)
T PRK14960 117 GRFKVYLIDEV-HMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVIS 167 (702)
T ss_pred CCcEEEEEech-HhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHH
Confidence 46799999999 6666555555554432 234677655 67777766553
No 161
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.72 E-value=0.0057 Score=72.38 Aligned_cols=48 Identities=21% Similarity=0.345 Sum_probs=32.5
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEe-cCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLA-GDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLv-GDp~QL~PvI~s~ 589 (806)
++|.++||||+ +.+..+....|..... ....+||+ .|+..+++.|.|.
T Consensus 123 g~~KV~IIDEv-h~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSR 174 (618)
T PRK14951 123 GRFKVFMIDEV-HMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSR 174 (618)
T ss_pred CCceEEEEECh-hhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHh
Confidence 47899999999 6666666666554432 23356554 6999988876654
No 162
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.70 E-value=0.0051 Score=64.69 Aligned_cols=60 Identities=17% Similarity=0.248 Sum_probs=41.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHh-----CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 394 PFVPFNSLNEEQTRSVEIILG-----CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 394 ~~~~~~~LN~eQ~~AV~~il~-----~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.|..+...++.|+.|+..+.. .....++++.|+||||||+.+..++.++.+ .+.++++++
T Consensus 70 tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~--~g~~v~~it 134 (244)
T PRK07952 70 SFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLL--RGKSVLIIT 134 (244)
T ss_pred ccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEE
Confidence 344444446778777766543 111246899999999999998887777765 357888774
No 163
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=96.68 E-value=0.0086 Score=66.48 Aligned_cols=48 Identities=19% Similarity=0.325 Sum_probs=33.4
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC----CCEEEEecCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK----QTVVVLAGDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~----~~~lVLvGDp~QL~PvI~s~ 589 (806)
+.+.+|||||| +.+++.....|...... ..-+++...+.+|.|.|.|.
T Consensus 140 g~~rVviIDeA-d~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrSR 191 (351)
T PRK09112 140 GNWRIVIIDPA-DDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSR 191 (351)
T ss_pred CCceEEEEEch-hhcCHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHhh
Confidence 46789999999 77777666655544332 22455677888888888764
No 164
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=96.67 E-value=0.0085 Score=65.57 Aligned_cols=39 Identities=21% Similarity=0.175 Sum_probs=27.0
Q ss_pred CCCHHHHHHHHHHHhCCCC-CCEEEEcCCCCChHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGCKGA-PPYVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~-~~~lI~GPPGTGKT~tlv~~ 438 (806)
-.+++..+.+...+..... .++++.||||||||+.+...
T Consensus 24 ~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l 63 (316)
T PHA02544 24 ILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKAL 63 (316)
T ss_pred cCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHH
Confidence 4677777777777654333 34666899999999875443
No 165
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=96.66 E-value=0.01 Score=65.50 Aligned_cols=23 Identities=35% Similarity=0.509 Sum_probs=17.8
Q ss_pred CCCEEEEcCCCCChHHHHHHHHH
Q 038509 418 APPYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~ 440 (806)
.++++|+||||||||+++...+.
T Consensus 51 ~~~~ll~GppG~GKT~la~~ia~ 73 (328)
T PRK00080 51 LDHVLLYGPPGLGKTTLANIIAN 73 (328)
T ss_pred CCcEEEECCCCccHHHHHHHHHH
Confidence 34699999999999987654433
No 166
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=96.65 E-value=0.046 Score=49.21 Aligned_cols=80 Identities=18% Similarity=0.299 Sum_probs=59.8
Q ss_pred ccCCCCCcceeeEecceeEEEEEEEecCCccEEEEEEEEeecCCCCceeEEecCCCCCCCCCCCcccccccccccCeeeC
Q 038509 49 PFPFVQGKPQSILVGETSKCSITIQNTTPEPVEVWGIRIYCSEPANSLTLSLMEPPSGKPDPQKDQGFLEGFSIEDRVLQ 128 (806)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 (806)
..+|| .+..|++...+|.|.|+|..+..+. ++.- ....+.|+++- + ...|.
T Consensus 10 ~ldFG-----~v~~g~~~~~~v~l~N~s~~p~~f~-v~~~-~~~~~~~~v~~--~--------------------~g~l~ 60 (102)
T PF14874_consen 10 ELDFG-----NVFVGQTYSRTVTLTNTSSIPARFR-VRQP-ESLSSFFSVEP--P--------------------SGFLA 60 (102)
T ss_pred EEEee-----EEccCCEEEEEEEEEECCCCCEEEE-EEeC-CcCCCCEEEEC--C--------------------CCEEC
Confidence 45688 8999999999999999999997665 2331 11222333321 1 24699
Q ss_pred CCCeEEEEEEEe-cCCCceeeEEEEEEecC
Q 038509 129 PLRTLTIWLSCK-PKEMGLHKSVVQFDIGD 157 (806)
Q Consensus 129 ~g~~~~~~~~~~-~~~~g~~~~~~~~~f~~ 157 (806)
||++.++.|.|. ++..|.+...+.+...+
T Consensus 61 PG~~~~~~V~~~~~~~~g~~~~~l~i~~e~ 90 (102)
T PF14874_consen 61 PGESVELEVTFSPTKPLGDYEGSLVITTEG 90 (102)
T ss_pred CCCEEEEEEEEEeCCCCceEEEEEEEEECC
Confidence 999999999999 88899999988776654
No 167
>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=96.64 E-value=0.012 Score=57.97 Aligned_cols=48 Identities=25% Similarity=0.443 Sum_probs=30.3
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEE-ecCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVL-AGDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVL-vGDp~QL~PvI~s~ 589 (806)
+.+.++||||| +.+.+++.-+|..... .+..++| +-++.+|.|+|.|.
T Consensus 101 ~~~KviiI~~a-d~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SR 152 (162)
T PF13177_consen 101 GKYKVIIIDEA-DKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSR 152 (162)
T ss_dssp SSSEEEEEETG-GGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTT
T ss_pred CCceEEEeehH-hhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhh
Confidence 46899999999 6666666666654432 2445665 45577788887764
No 168
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.62 E-value=0.0091 Score=66.94 Aligned_cols=51 Identities=18% Similarity=0.261 Sum_probs=33.3
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHh--CCCCeEEEEec-c-hHHHHHHHHHHh
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYST--REHSRILVCAA-S-NSAADHMLERLI 469 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~--~~~~rILv~ap-S-N~Aad~l~erL~ 469 (806)
..+++.||.|+|||||++..+.++... ..+.+|.+++- + +.|+.+-...+.
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a 229 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYG 229 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHh
Confidence 357899999999999999988776543 23567765554 3 233433344443
No 169
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=96.61 E-value=0.012 Score=57.64 Aligned_cols=37 Identities=22% Similarity=0.212 Sum_probs=29.8
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS 457 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS 457 (806)
+.+.|++++|+|||+.+...+.+.+. .+.+|+++=|-
T Consensus 3 G~i~vy~g~G~Gkt~~a~g~~~ra~~--~g~~v~~vQFl 39 (159)
T cd00561 3 GLIQVYTGNGKGKTTAALGLALRALG--HGYRVGVVQFL 39 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEEEe
Confidence 45789999999999998888877775 47899986553
No 170
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.61 E-value=0.0044 Score=67.69 Aligned_cols=52 Identities=21% Similarity=0.353 Sum_probs=39.6
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILV 453 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv 453 (806)
.++++|.+.+..++..+. .++|.|++||||||++...+..+....+..||+.
T Consensus 128 ~~~~~~~~~L~~~v~~~~--nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRL--NIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCHHHHHHHHHHHHcCC--eEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 578999999998887554 4899999999999998766665544335566655
No 171
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=96.60 E-value=0.0075 Score=66.36 Aligned_cols=48 Identities=23% Similarity=0.364 Sum_probs=31.8
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcc-cC--CCEEEE-ecCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLC-TK--QTVVVL-AGDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~-~~--~~~lVL-vGDp~QL~PvI~s~ 589 (806)
+.+.++||||| +.+..+..-.|.+.. .+ +..++| .-++.+|.|+|.|.
T Consensus 105 ~~~kv~iI~~a-~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SR 156 (328)
T PRK05707 105 GGRKVVLIEPA-EAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSR 156 (328)
T ss_pred CCCeEEEECCh-hhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhh
Confidence 46789999999 555555555554443 22 344555 55677899998875
No 172
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.59 E-value=0.0069 Score=72.13 Aligned_cols=47 Identities=21% Similarity=0.338 Sum_probs=28.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcc-cCCC--EEEE-ecCCCCCCceeec
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLC-TKQT--VVVL-AGDPKQLGPVIYS 588 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~-~~~~--~lVL-vGDp~QL~PvI~s 588 (806)
+.+.+|||||| +.+..+....|.... .... .+|| ..|+..|.|.|.+
T Consensus 120 ~~~KViIIDEa-d~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrS 170 (620)
T PRK14948 120 ARWKVYVIDEC-HMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIIS 170 (620)
T ss_pred CCceEEEEECc-cccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHh
Confidence 35789999999 555555555544333 2222 3333 4588887777654
No 173
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=96.59 E-value=0.0043 Score=72.84 Aligned_cols=64 Identities=33% Similarity=0.333 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHh---CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHH
Q 038509 398 FNSLNEEQTRSVEIILG---CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHM 464 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~---~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l 464 (806)
...||++|+.....++. ....+.+. .|++|||||+..-..+..+ +.. +..++.+|.|..|+-.+
T Consensus 115 ~~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l~~t~~~~~-~~~-g~~~~~v~~s~ia~~~l 181 (540)
T KOG0987|consen 115 PKKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYLLKTLIAAL-RSR-GKIVLNVASSGIAALLL 181 (540)
T ss_pred hhhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHH-hcC-CceEEEeeecchhhhhc
Confidence 34899999988774432 22223334 9999999999776666544 433 77888889988887543
No 174
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.57 E-value=0.0079 Score=74.11 Aligned_cols=62 Identities=19% Similarity=0.260 Sum_probs=45.4
Q ss_pred CCCHHHHH---HHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHH
Q 038509 400 SLNEEQTR---SVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLE 466 (806)
Q Consensus 400 ~LN~eQ~~---AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~e 466 (806)
+..+.|.+ +|...+... ..+++.+++|||||..-.--+.+ . ..+.+++|.|||...++.+..
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~--~~~~~eA~tGtGKT~ayllp~l~--~-~~~~~vvI~t~T~~Lq~Ql~~ 309 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDG--PASFIEAQTGIGKTYGYLLPLLA--Q-SDQRQIIVSVPTKILQDQIMA 309 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCC--CcEEEECCCCCcHHHHHHHHHHH--h-cCCCcEEEEeCcHHHHHHHHH
Confidence 45788888 666666543 45899999999999764433222 2 246799999999999999953
No 175
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.53 E-value=0.0089 Score=69.75 Aligned_cols=201 Identities=16% Similarity=0.202 Sum_probs=114.0
Q ss_pred CCCHHHHHHHHHHHhCCC-CCC--EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 400 SLNEEQTRSVEIILGCKG-APP--YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~-~~~--~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.|+..|++++..|...-. .-| =||+|-=|||||.+++-++.+.+. .+.+..+.|||.-.|..-.+.+.+. +
T Consensus 262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~--~G~Q~ALMAPTEILA~QH~~~~~~~----l 335 (677)
T COG1200 262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE--AGYQAALMAPTEILAEQHYESLRKW----L 335 (677)
T ss_pred CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH--cCCeeEEeccHHHHHHHHHHHHHHH----h
Confidence 799999999999986321 112 389999999999998888888776 5689999999999998888877652 1
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcc
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASE 556 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~e 556 (806)
.+.. +|+.--... +...-.+. .-+.+. -...++|+.|..... ..+.-...-+|||||= +=.-
T Consensus 336 ~~~~-i~V~lLtG~---~kgk~r~~--~l~~l~-------~G~~~ivVGTHALiQ----d~V~F~~LgLVIiDEQ-HRFG 397 (677)
T COG1200 336 EPLG-IRVALLTGS---LKGKARKE--ILEQLA-------SGEIDIVVGTHALIQ----DKVEFHNLGLVIIDEQ-HRFG 397 (677)
T ss_pred hhcC-CeEEEeecc---cchhHHHH--HHHHHh-------CCCCCEEEEcchhhh----cceeecceeEEEEecc-cccc
Confidence 1111 122111000 00000000 000010 135788999976433 2333345679999998 5554
Q ss_pred hhHHHHHhhcccCCCEEEEecCCCCCCceeecch--------hhhcCCCccHHHHHhhcccccCCCccceecccccccCh
Q 038509 557 PESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKD--------AETFGLGKSYLERLFECEFYRNGDEGYVTKLVRNYRCH 628 (806)
Q Consensus 557 pe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~--------a~~~gl~~Sl~eRL~~~~~~~~~~~~~v~~L~~nYRs~ 628 (806)
-.+-..|..-+. . -|.| .+++-. ..-..++.|....+.. ....+.........-
T Consensus 398 V~QR~~L~~KG~---~-----~Ph~---LvMTATPIPRTLAlt~fgDldvS~IdElP~-------GRkpI~T~~i~~~~~ 459 (677)
T COG1200 398 VHQRLALREKGE---Q-----NPHV---LVMTATPIPRTLALTAFGDLDVSIIDELPP-------GRKPITTVVIPHERR 459 (677)
T ss_pred HHHHHHHHHhCC---C-----CCcE---EEEeCCCchHHHHHHHhccccchhhccCCC-------CCCceEEEEeccccH
Confidence 545545543221 1 3555 233211 1112456666655421 112233344444666
Q ss_pred hHHHHhhhhhhcCC
Q 038509 629 PAILDLPSKLFYGG 642 (806)
Q Consensus 629 p~I~~~~n~lfY~~ 642 (806)
+++.++..+..-+|
T Consensus 460 ~~v~e~i~~ei~~G 473 (677)
T COG1200 460 PEVYERIREEIAKG 473 (677)
T ss_pred HHHHHHHHHHHHcC
Confidence 78888777655444
No 176
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=96.51 E-value=0.0027 Score=68.29 Aligned_cols=64 Identities=23% Similarity=0.435 Sum_probs=41.9
Q ss_pred HHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 405 QTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 405 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
|.-.+...+.....|.++++||||||||+ |+..|..-.+ .+..+.+-++-||+-+..++.-+.+
T Consensus 149 q~gllrs~ieq~~ipSmIlWGppG~GKTt-lArlia~tsk-~~SyrfvelSAt~a~t~dvR~ife~ 212 (554)
T KOG2028|consen 149 QDGLLRSLIEQNRIPSMILWGPPGTGKTT-LARLIASTSK-KHSYRFVELSATNAKTNDVRDIFEQ 212 (554)
T ss_pred cchHHHHHHHcCCCCceEEecCCCCchHH-HHHHHHhhcC-CCceEEEEEeccccchHHHHHHHHH
Confidence 34455666655556779999999999997 4444443322 1345677777778777777665543
No 177
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.51 E-value=0.012 Score=65.74 Aligned_cols=47 Identities=21% Similarity=0.301 Sum_probs=27.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhh-ccc--CCCEEEEec-CCCCCCceeec
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIAN-LCT--KQTVVVLAG-DPKQLGPVIYS 588 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~-l~~--~~~~lVLvG-Dp~QL~PvI~s 588 (806)
+.+.++||||| |.+..+....|.. +-. ....+|+++ |+.++.|.|.|
T Consensus 118 ~~~kviIIDEa-~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~S 168 (363)
T PRK14961 118 SRFKVYLIDEV-HMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILS 168 (363)
T ss_pred CCceEEEEECh-hhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHh
Confidence 35789999999 6555544433332 222 233566654 55667666543
No 178
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.50 E-value=0.012 Score=69.05 Aligned_cols=47 Identities=19% Similarity=0.358 Sum_probs=29.6
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcc-c--CCCEEEEec-CCCCCCceeec
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLC-T--KQTVVVLAG-DPKQLGPVIYS 588 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~-~--~~~~lVLvG-Dp~QL~PvI~s 588 (806)
+++.++||||| +.+..+....|.... . ....+||+. |+..++|.|.|
T Consensus 118 ~~~kVvIIDEa-d~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~S 168 (527)
T PRK14969 118 GRFKVYIIDEV-HMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLS 168 (527)
T ss_pred CCceEEEEcCc-ccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHH
Confidence 46789999999 555554544443332 2 244677766 67777777654
No 179
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=96.50 E-value=0.017 Score=57.75 Aligned_cols=36 Identities=25% Similarity=0.306 Sum_probs=28.9
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS 457 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS 457 (806)
..+|.||=++|||+-|..++.++-. .+.++++.-|.
T Consensus 3 l~~i~GpM~sGKS~eLi~~~~~~~~--~~~~v~~~kp~ 38 (176)
T PF00265_consen 3 LEFITGPMFSGKSTELIRRIHRYEI--AGKKVLVFKPA 38 (176)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH--TT-EEEEEEES
T ss_pred EEEEECCcCChhHHHHHHHHHHHHh--CCCeEEEEEec
Confidence 4689999999999999988877654 56889988773
No 180
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.49 E-value=0.011 Score=71.76 Aligned_cols=64 Identities=20% Similarity=0.194 Sum_probs=47.8
Q ss_pred HHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 405 QTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 405 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
.+..+..++.. +..++|.|++|+||||-+-..+.+.-. ..+..|.++=|-+-||-.+++|+.+.
T Consensus 54 ~~~~i~~ai~~--~~vvii~getGsGKTTqlP~~lle~g~-~~~g~I~~tQPRRlAArsvA~RvAee 117 (845)
T COG1643 54 VRDEILKAIEQ--NQVVIIVGETGSGKTTQLPQFLLEEGL-GIAGKIGCTQPRRLAARSVAERVAEE 117 (845)
T ss_pred HHHHHHHHHHh--CCEEEEeCCCCCChHHHHHHHHHhhhc-ccCCeEEecCchHHHHHHHHHHHHHH
Confidence 34445555543 355899999999999987776655433 24568889999999999999999874
No 181
>PRK04195 replication factor C large subunit; Provisional
Probab=96.47 E-value=0.014 Score=67.88 Aligned_cols=39 Identities=28% Similarity=0.432 Sum_probs=27.5
Q ss_pred CCCHHHHHHHHHHHhC----CCCCCEEEEcCCCCChHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGC----KGAPPYVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~----~~~~~~lI~GPPGTGKT~tlv~~ 438 (806)
-.++.+.+.+...+.. ....+++|+||||||||+++...
T Consensus 17 vg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~al 59 (482)
T PRK04195 17 VGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHAL 59 (482)
T ss_pred cCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHH
Confidence 4577777777766542 22457999999999999865443
No 182
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=96.46 E-value=0.013 Score=69.60 Aligned_cols=47 Identities=15% Similarity=0.287 Sum_probs=29.3
Q ss_pred CCcEEEEecCCCCcchhHHHHHhhcc-c--CCCEEEEec-CCCCCCceeecc
Q 038509 542 NFSHIFLDEAGQASEPESMIPIANLC-T--KQTVVVLAG-DPKQLGPVIYSK 589 (806)
Q Consensus 542 ~Fd~ViIDEAsQ~~epe~li~L~~l~-~--~~~~lVLvG-Dp~QL~PvI~s~ 589 (806)
.+.+|||||+.+ +.......|.... . ....+||+. |+..+++.|.|.
T Consensus 119 k~KVIIIDEad~-Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSR 169 (709)
T PRK08691 119 KYKVYIIDEVHM-LSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSR 169 (709)
T ss_pred CcEEEEEECccc-cCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHH
Confidence 578999999954 4454443333332 1 345666654 888888777653
No 183
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=96.45 E-value=0.025 Score=66.49 Aligned_cols=38 Identities=26% Similarity=0.304 Sum_probs=30.4
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.|++|+|++|||||+.+..+..++.+..++.++++++.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 46899999999999987776666665556788888775
No 184
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=96.45 E-value=0.01 Score=65.91 Aligned_cols=43 Identities=21% Similarity=0.226 Sum_probs=28.1
Q ss_pred CCHHHHHHHHHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 401 LNEEQTRSVEIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
-+++..+.+...+.....+ .+++.||||+|||+++-..+..+.
T Consensus 18 g~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~ 61 (355)
T TIGR02397 18 GQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN 61 (355)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3566666666666543333 479999999999987554444443
No 185
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.44 E-value=0.016 Score=66.85 Aligned_cols=47 Identities=17% Similarity=0.238 Sum_probs=29.0
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEec-CCCCCCceeec
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAG-DPKQLGPVIYS 588 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvG-Dp~QL~PvI~s 588 (806)
+.+.++||||+ +.+..+....|..... +...+|++- ++..+++.|.|
T Consensus 115 ~~~KVvIIDEa-h~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~S 165 (491)
T PRK14964 115 SKFKVYIIDEV-HMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIIS 165 (491)
T ss_pred CCceEEEEeCh-HhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHH
Confidence 36899999999 5555555555544332 234566655 45566666554
No 186
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=96.43 E-value=0.0056 Score=61.31 Aligned_cols=47 Identities=23% Similarity=0.306 Sum_probs=36.1
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
++|.||||||||+.....+...++ .+.++++++...+ .+.+.+++..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~--~g~~v~~~s~e~~-~~~~~~~~~~ 48 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA--RGEPGLYVTLEES-PEELIENAES 48 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH--CCCcEEEEECCCC-HHHHHHHHHH
Confidence 689999999999998888877775 4678998887654 5555566544
No 187
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=96.41 E-value=0.01 Score=66.93 Aligned_cols=48 Identities=17% Similarity=0.326 Sum_probs=31.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC---CC-EEEEecCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK---QT-VVVLAGDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~---~~-~lVLvGDp~QL~PvI~s~ 589 (806)
+++.++||||| +.+.++..-.|...... +. -++.+.++..|.|+|.|.
T Consensus 116 ~~~kViiIDea-d~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSR 167 (394)
T PRK07940 116 GRWRIVVIEDA-DRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSR 167 (394)
T ss_pred CCcEEEEEech-hhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhh
Confidence 46789999999 65555554444333222 33 455577888899988864
No 188
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=96.40 E-value=0.014 Score=67.72 Aligned_cols=25 Identities=28% Similarity=0.300 Sum_probs=19.2
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
..++++||||||||+++-..+..+.
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4699999999999987655555443
No 189
>PRK12377 putative replication protein; Provisional
Probab=96.38 E-value=0.011 Score=62.49 Aligned_cols=60 Identities=20% Similarity=0.346 Sum_probs=37.2
Q ss_pred CCCCCCCCHHHHHHHHHHH---h--CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 395 FVPFNSLNEEQTRSVEIIL---G--CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 395 ~~~~~~LN~eQ~~AV~~il---~--~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
|..+..-++.|+.|+..+. . ..+...++++||||||||+.+..++..+.. .+..+++++.
T Consensus 73 Fdnf~~~~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~--~g~~v~~i~~ 137 (248)
T PRK12377 73 FANYQVQNDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLA--KGRSVIVVTV 137 (248)
T ss_pred cCCcccCChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHH--cCCCeEEEEH
Confidence 4434322566766655432 1 112245899999999999987777777665 3566655543
No 190
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=96.37 E-value=0.013 Score=59.09 Aligned_cols=26 Identities=23% Similarity=0.479 Sum_probs=20.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
..+++.||||+|||+++...+..++.
T Consensus 15 ~~~L~~G~~G~gkt~~a~~~~~~l~~ 40 (188)
T TIGR00678 15 HAYLFAGPEGVGKELLALALAKALLC 40 (188)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 35899999999999987666666553
No 191
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.35 E-value=0.0092 Score=72.41 Aligned_cols=66 Identities=18% Similarity=0.151 Sum_probs=51.0
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.|++.|.+++-.++...+ .+.+.+.|||||.+.+-.+.+-+. .+..++|+|||...|....+-+..
T Consensus 92 ~~tp~qvQ~I~~i~l~~g---vIAeaqTGeGKTLAf~LP~l~~aL--~g~~v~IVTpTrELA~Qdae~m~~ 157 (970)
T PRK12899 92 DMVPYDVQILGAIAMHKG---FITEMQTGEGKTLTAVMPLYLNAL--TGKPVHLVTVNDYLAQRDCEWVGS 157 (970)
T ss_pred CCChHHHHHhhhhhcCCC---eEEEeCCCCChHHHHHHHHHHHHh--hcCCeEEEeCCHHHHHHHHHHHHH
Confidence 379999999988876544 699999999999987765553332 334689999999998888776654
No 192
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.33 E-value=0.0023 Score=59.61 Aligned_cols=45 Identities=18% Similarity=0.259 Sum_probs=30.3
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHML 465 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~ 465 (806)
..++|.||||||||+++...+.++.. ....+++++.+........
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~ 47 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGP--PGGGVIYIDGEDILEEVLD 47 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCC--CCCCEEEECCEEccccCHH
Confidence 35899999999999987766655432 1135777777665554443
No 193
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=96.33 E-value=0.014 Score=69.81 Aligned_cols=48 Identities=13% Similarity=0.256 Sum_probs=30.9
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc-C--CCEEEEec-CCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT-K--QTVVVLAG-DPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~-~--~~~lVLvG-Dp~QL~PvI~s~ 589 (806)
+.+.++||||| +.+..+.+-.|..... + ...+|++. ++..|+|.|.|.
T Consensus 117 g~~KV~IIDEa-~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SR 168 (725)
T PRK07133 117 SKYKIYIIDEV-HMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSR 168 (725)
T ss_pred CCCEEEEEECh-hhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhh
Confidence 46789999999 6666666655554322 2 34555555 677888876653
No 194
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=96.33 E-value=0.012 Score=69.00 Aligned_cols=38 Identities=18% Similarity=0.210 Sum_probs=24.1
Q ss_pred HHHHHHHHhCCC-CCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 406 TRSVEIILGCKG-APPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 406 ~~AV~~il~~~~-~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.+.+...+.... +..++++||||+|||+++...+..+.
T Consensus 25 v~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~ 63 (605)
T PRK05896 25 KKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAIN 63 (605)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 344444443322 23489999999999987665555543
No 195
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=96.32 E-value=0.018 Score=67.03 Aligned_cols=48 Identities=23% Similarity=0.337 Sum_probs=31.4
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEec-CCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAG-DPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvG-Dp~QL~PvI~s~ 589 (806)
+.+.++||||| +.+..+....|..... ....+||++ |+..|+|.|.|.
T Consensus 116 ~~~KVvIIDEa-d~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SR 167 (535)
T PRK08451 116 ARFKIFIIDEV-HMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSR 167 (535)
T ss_pred CCeEEEEEECc-ccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhh
Confidence 36789999999 6666666555544332 345566654 567788877764
No 196
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.32 E-value=0.0083 Score=65.70 Aligned_cols=56 Identities=14% Similarity=0.262 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS 457 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS 457 (806)
.++++|.+.+..++..+ ..++|.||+||||||++...+..+....+..+++++-.+
T Consensus 132 ~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~ 187 (319)
T PRK13894 132 IMTAAQREAIIAAVRAH--RNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDT 187 (319)
T ss_pred CCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCC
Confidence 46889999998887654 358999999999998877666655433456677765443
No 197
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=96.31 E-value=0.022 Score=63.74 Aligned_cols=44 Identities=23% Similarity=0.317 Sum_probs=36.1
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHH
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAA 461 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aa 461 (806)
..|++|+||.|.|||+.+-.+-.+..+..+..+++.++..+-.-
T Consensus 113 ~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~ 156 (408)
T COG0593 113 YNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTN 156 (408)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHH
Confidence 56899999999999998887777777777888999887654433
No 198
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=96.29 E-value=0.023 Score=68.41 Aligned_cols=66 Identities=14% Similarity=0.148 Sum_probs=47.6
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.+.+.|.+++.......+ .++.-+.|||||.|.+-.+. +....+..++|+|||...|....+.+..
T Consensus 68 glrpydVQlig~l~l~~G---~Iaem~TGeGKTLta~Lpa~--l~aL~g~~V~VVTpn~yLA~Rdae~m~~ 133 (762)
T TIGR03714 68 GMFPYDVQVLGAIVLHQG---NIAEMKTGEGKTLTATMPLY--LNALTGKGAMLVTTNDYLAKRDAEEMGP 133 (762)
T ss_pred CCCccHHHHHHHHHhcCC---ceeEecCCcchHHHHHHHHH--HHhhcCCceEEeCCCHHHHHHHHHHHHH
Confidence 456667667666554433 49999999999998765543 2223567899999999998887776643
No 199
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=96.21 E-value=0.0044 Score=72.56 Aligned_cols=107 Identities=18% Similarity=0.259 Sum_probs=60.9
Q ss_pred CceEEEEEEecchhHHHHHHHHHHhhccCCceecCCCCcccccccCCCCCCCC-CCCHHHHHHHHHHHhCCCCCCEEEEc
Q 038509 347 GSLYNVSFTYNRINMRRMYQAVQAAENLEPNLLFPSQSTKRRSIKAAPFVPFN-SLNEEQTRSVEIILGCKGAPPYVIYG 425 (806)
Q Consensus 347 ~~~~~v~f~~~r~~~~r~~~Al~~~~~l~~~~lfp~~~~~~~~~~~~~~~~~~-~LN~eQ~~AV~~il~~~~~~~~lI~G 425 (806)
...|+-.|.+|-+++-....=++.++.|....+-|... +++.|+. .++++--.+.. ...-+...++|.|
T Consensus 9 ~~~~~~~f~LNmTS~~kI~~IV~rI~~Ls~~~~~~~~~--------P~~~WF~~~~dp~~p~~~~--~p~LPFs~~~itG 78 (828)
T PHA03311 9 MERFSDEFILNMTSMAKIRPIVDRIRSLSERRVSPADV--------PPLSWFRSEFDPETPLDLP--PPFLPFSVYLITG 78 (828)
T ss_pred cccCCcceEEeccchhhhHHHHHHHHHHHhcccCCccC--------CChHHHHhhcCCCCccccC--cCcCCeEEEEEec
Confidence 34577778888887776666666655543322222100 1122222 11111000000 0000112379999
Q ss_pred CCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 426 PPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 426 PPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
-+|||||+.|...... -+.+|+++|..||.++-.+|..
T Consensus 79 ~AGsGKst~i~~l~~~-------l~cvitg~T~vAAqN~~~~L~~ 116 (828)
T PHA03311 79 TAGAGKSTSIQTLNEN-------LDCVITGATRVAAQNLSAKLSR 116 (828)
T ss_pred CCCCChHHHHHHHHHh-------cCEEEEcchHHHHHhhhccccc
Confidence 9999999976543332 2778999999999999888874
No 200
>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=0.021 Score=70.44 Aligned_cols=69 Identities=25% Similarity=0.276 Sum_probs=57.5
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
.|=..|.+|.+.+... .+++|.-|.|||||-+-.-.|...+...+..+-|++-|||+.|..=.+|+.+.
T Consensus 70 ~lY~HQ~~A~~~~~~G---~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~ 138 (851)
T COG1205 70 RLYSHQVDALRLIREG---RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLREL 138 (851)
T ss_pred cccHHHHHHHHHHHCC---CCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHH
Confidence 5888999999998874 35899999999999876555555555567789999999999999999999874
No 201
>KOG4284 consensus DEAD box protein [Transcription]
Probab=96.20 E-value=0.0031 Score=72.02 Aligned_cols=135 Identities=17% Similarity=0.193 Sum_probs=86.5
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHH-hCCCCeEEEEecchHHHHHHHHHHhcccc--cCc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYS-TREHSRILVCAASNSAADHMLERLISNEV--AGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~-~~~~~rILv~apSN~Aad~l~erL~~~~~--~~~ 476 (806)
.-++-|.+||-.++.. --++|++-.|||||-+-+-++.+-+. ....-.++|+|||+.-|-.+.+-+.+... .+.
T Consensus 47 ~ptkiQaaAIP~~~~k---mDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~ 123 (980)
T KOG4284|consen 47 LPTKIQAAAIPAIFSK---MDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGA 123 (980)
T ss_pred CCCchhhhhhhhhhcc---cceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcccccCc
Confidence 3477899999888863 24799999999999765544444332 22456789999999999998887765211 000
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccc-cCCcCCCCcEEEEecCCCCc
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNT-NGIKRGNFSHIFLDEAGQAS 555 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~-~~~~~~~Fd~ViIDEAsQ~~ 555 (806)
.+.-+ ++. .-.......|.+.+|++.|..-...|.. ..+...+.++.++|||-|.+
T Consensus 124 ~csvf--IGG---------------------T~~~~d~~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~ 180 (980)
T KOG4284|consen 124 RCSVF--IGG---------------------TAHKLDLIRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLM 180 (980)
T ss_pred ceEEE--ecC---------------------chhhhhhhhhhhceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhh
Confidence 00000 000 0001123446778899998865543332 34566789999999999988
Q ss_pred chhHH
Q 038509 556 EPESM 560 (806)
Q Consensus 556 epe~l 560 (806)
+.+.+
T Consensus 181 ~t~sf 185 (980)
T KOG4284|consen 181 DTESF 185 (980)
T ss_pred chhhH
Confidence 85443
No 202
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.16 E-value=0.021 Score=65.03 Aligned_cols=35 Identities=23% Similarity=0.260 Sum_probs=26.9
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+++.|+||+|||||++..+.++.+ .+.++++++.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~--~g~kV~lV~~ 131 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKK--KGLKVGLVAA 131 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHH--cCCeEEEecC
Confidence 4688999999999999998877654 3467665543
No 203
>PTZ00293 thymidine kinase; Provisional
Probab=96.16 E-value=0.0042 Score=63.47 Aligned_cols=36 Identities=28% Similarity=0.293 Sum_probs=29.3
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS 457 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS 457 (806)
..+|.||-|+|||+-|..++..... .+.+++++.|.
T Consensus 6 i~vi~GpMfSGKTteLLr~i~~y~~--ag~kv~~~kp~ 41 (211)
T PTZ00293 6 ISVIIGPMFSGKTTELMRLVKRFTY--SEKKCVVIKYS 41 (211)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHH--cCCceEEEEec
Confidence 5689999999999988888876654 46788888874
No 204
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.13 E-value=0.04 Score=61.35 Aligned_cols=70 Identities=19% Similarity=0.335 Sum_probs=53.9
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH-Hh---CCCC--eEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY-ST---REHS--RILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll-~~---~~~~--rILv~apSN~Aad~l~erL~~ 470 (806)
|..+++-|..++-..++..+ +++.+|-|||||..-+-=+..++ +. .++. --||+|||+..|-.|.+-+..
T Consensus 26 F~~mTpVQa~tIPlll~~KD---VvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~ 101 (567)
T KOG0345|consen 26 FEKMTPVQAATIPLLLKNKD---VVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQP 101 (567)
T ss_pred CcccCHHHHhhhHHHhcCCc---eEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHH
Confidence 34789999999999998554 79999999999987555555555 21 2444 459999999999999887754
No 205
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0059 Score=68.00 Aligned_cols=21 Identities=43% Similarity=0.880 Sum_probs=17.6
Q ss_pred EEEEcCCCCChHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~q 441 (806)
||++||||||||+.|++++..
T Consensus 238 YLLYGPPGTGKSS~IaAmAn~ 258 (457)
T KOG0743|consen 238 YLLYGPPGTGKSSFIAAMANY 258 (457)
T ss_pred ceeeCCCCCCHHHHHHHHHhh
Confidence 899999999999977665544
No 206
>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=96.10 E-value=0.012 Score=63.93 Aligned_cols=54 Identities=13% Similarity=0.239 Sum_probs=39.2
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.++++|.+.+..++..+ ..++|.||+||||||++...+..+....+..||+++-
T Consensus 116 ~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiE 169 (299)
T TIGR02782 116 IMTAAQRDVLREAVLAR--KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIE 169 (299)
T ss_pred CCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEEC
Confidence 47888888888888644 3589999999999998866555443323456776644
No 207
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.09 E-value=0.019 Score=68.12 Aligned_cols=42 Identities=19% Similarity=0.272 Sum_probs=27.1
Q ss_pred CHHHHHHHHHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 402 NEEQTRSVEIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.+...+.+...+.....+ .||++||||||||+++...+..+.
T Consensus 21 q~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~ 63 (576)
T PRK14965 21 QEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN 63 (576)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence 344455566666543333 479999999999987655444443
No 208
>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=96.09 E-value=0.016 Score=59.90 Aligned_cols=56 Identities=18% Similarity=0.206 Sum_probs=36.4
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecch
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASN 458 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN 458 (806)
-|..-.++++..+......+++|.||||||||+.+.....+... .+..++.+..++
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~--~~~~~~~i~~~~ 76 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEE--RGKSAIYLPLAE 76 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHh--cCCcEEEEeHHH
Confidence 45555556666544444567999999999999987666655543 345666655433
No 209
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=96.09 E-value=0.052 Score=54.63 Aligned_cols=39 Identities=13% Similarity=0.139 Sum_probs=32.3
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecch
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASN 458 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN 458 (806)
.+.+.|.+++|+|||+.+...+.+.+. .+.+|+++=|-.
T Consensus 22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g--~G~~V~ivQFlK 60 (191)
T PRK05986 22 KGLLIVHTGNGKGKSTAAFGMALRAVG--HGKKVGVVQFIK 60 (191)
T ss_pred CCeEEEECCCCCChHHHHHHHHHHHHH--CCCeEEEEEEec
Confidence 356899999999999998888887775 568999988744
No 210
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=96.08 E-value=0.038 Score=61.71 Aligned_cols=48 Identities=19% Similarity=0.402 Sum_probs=31.1
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC---CCEEEE-ecCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK---QTVVVL-AGDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~---~~~lVL-vGDp~QL~PvI~s~ 589 (806)
+.+.+|||||| +.++++....|...... ...++| .-++.+|.|.|.|.
T Consensus 140 ~~~kVviIDea-d~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SR 191 (365)
T PRK07471 140 GGWRVVIVDTA-DEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSR 191 (365)
T ss_pred CCCEEEEEech-HhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhcc
Confidence 46789999999 66667666655544332 333444 55666788877654
No 211
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.08 E-value=0.018 Score=62.23 Aligned_cols=68 Identities=21% Similarity=0.210 Sum_probs=47.3
Q ss_pred CHHHHHHHHHHHhC-CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCC----CeEEEEecchHHHHHHHHHHh
Q 038509 402 NEEQTRSVEIILGC-KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREH----SRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 402 N~eQ~~AV~~il~~-~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~----~rILv~apSN~Aad~l~erL~ 469 (806)
-+.|.+.++.+... ......+|.+|.|||||.++.-.+...+...+. .+|+++|.|++-.......+.
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~ 82 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELR 82 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHH
Confidence 68899866665431 122468999999999998877666544443333 389999999997666655554
No 212
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.08 E-value=0.018 Score=62.23 Aligned_cols=68 Identities=21% Similarity=0.210 Sum_probs=47.3
Q ss_pred CHHHHHHHHHHHhC-CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCC----CeEEEEecchHHHHHHHHHHh
Q 038509 402 NEEQTRSVEIILGC-KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREH----SRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 402 N~eQ~~AV~~il~~-~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~----~rILv~apSN~Aad~l~erL~ 469 (806)
-+.|.+.++.+... ......+|.+|.|||||.++.-.+...+...+. .+|+++|.|++-.......+.
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~ 82 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELR 82 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHH
Confidence 68899866665431 122468999999999998877666544443333 389999999997666655554
No 213
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.01 E-value=0.014 Score=58.08 Aligned_cols=43 Identities=21% Similarity=0.306 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHh---CCCCCCEEEEcCCCCChHHHHHHHHHHHHHh
Q 038509 403 EEQTRSVEIILG---CKGAPPYVIYGPPGTGKTMTLVEAILQVYST 445 (806)
Q Consensus 403 ~eQ~~AV~~il~---~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~ 445 (806)
++|.+.+...+. ......++|.|+||+|||+++.+.+.++...
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 456667777662 2223568999999999999988877766654
No 214
>PRK08181 transposase; Validated
Probab=96.01 E-value=0.024 Score=60.56 Aligned_cols=52 Identities=21% Similarity=0.356 Sum_probs=38.7
Q ss_pred CCCHHHHHHHHHH---HhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 400 SLNEEQTRSVEII---LGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 400 ~LN~eQ~~AV~~i---l~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.++..|..++... +.. ..-+++.||||||||+.+..+..++.. .+.++++++
T Consensus 87 ~~~~~~~~~L~~~~~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a~~--~g~~v~f~~ 141 (269)
T PRK08181 87 MVSKAQVMAIAAGDSWLAK--GANLLLFGPPGGGKSHLAAAIGLALIE--NGWRVLFTR 141 (269)
T ss_pred CCCHHHHHHHHHHHHHHhc--CceEEEEecCCCcHHHHHHHHHHHHHH--cCCceeeee
Confidence 7889999888654 222 234899999999999988777766665 457787765
No 215
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.99 E-value=0.021 Score=67.45 Aligned_cols=41 Identities=22% Similarity=0.203 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHhCCC-CCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 403 EEQTRSVEIILGCKG-APPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 403 ~eQ~~AV~~il~~~~-~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
+.-.+.+..++.... .+.+|++||||||||+++...+..+.
T Consensus 22 e~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~ 63 (624)
T PRK14959 22 ETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALN 63 (624)
T ss_pred HHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhcc
Confidence 333444555554332 34578899999999987655554443
No 216
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=95.98 E-value=0.014 Score=59.34 Aligned_cols=43 Identities=21% Similarity=0.400 Sum_probs=29.7
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE-Eecch--HHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILV-CAASN--SAADHM 464 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv-~apSN--~Aad~l 464 (806)
.+++.||+|+|||||++..+.++... +.+|.+ ++-+. .|.+.+
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL 48 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQL 48 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHH
Confidence 36899999999999999999888765 566654 44432 344444
No 217
>PRK06526 transposase; Provisional
Probab=95.95 E-value=0.008 Score=63.72 Aligned_cols=54 Identities=26% Similarity=0.386 Sum_probs=35.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.++..|...+...---.....+++.||||||||+++.....++.. .+.++++.+
T Consensus 80 ~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~--~g~~v~f~t 133 (254)
T PRK06526 80 SLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQ--AGHRVLFAT 133 (254)
T ss_pred CcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHH--CCCchhhhh
Confidence 677776554332100112235899999999999998887777765 456776643
No 218
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.93 E-value=0.034 Score=65.04 Aligned_cols=37 Identities=22% Similarity=0.164 Sum_probs=23.6
Q ss_pred HHHHHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 407 RSVEIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 407 ~AV~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
+.+...+.....+ .++++||||||||+++...+..+.
T Consensus 26 ~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~ 63 (546)
T PRK14957 26 NSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLN 63 (546)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 3444555433222 488999999999987655554443
No 219
>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=95.84 E-value=0.0063 Score=56.85 Aligned_cols=20 Identities=40% Similarity=0.604 Sum_probs=15.5
Q ss_pred EEEEcCCCCChHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~ 440 (806)
++|.||||||||+++-..+.
T Consensus 1 ill~G~~G~GKT~l~~~la~ 20 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQ 20 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHh
Confidence 48999999999986544443
No 220
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=95.82 E-value=0.0096 Score=76.45 Aligned_cols=48 Identities=23% Similarity=0.380 Sum_probs=36.5
Q ss_pred EEcCCCCChHHHHHH-HHHHHHHhC----------CCCeEEEEecchHHHHHHHHHHhc
Q 038509 423 IYGPPGTGKTMTLVE-AILQVYSTR----------EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 423 I~GPPGTGKT~tlv~-~i~qll~~~----------~~~rILv~apSN~Aad~l~erL~~ 470 (806)
|.+|.|||||.+..- ++.+++... .+.++|+++|+++.+..+.+++..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 568999999988654 455555431 246899999999999999888753
No 221
>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=95.82 E-value=0.017 Score=61.72 Aligned_cols=52 Identities=25% Similarity=0.374 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEE
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVC 454 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ 454 (806)
.+.++|.+++..++... .+.++|.||+||||||++...+..+.. +..+|+.+
T Consensus 63 g~~~~~~~~l~~~~~~~-~GlilisG~tGSGKTT~l~all~~i~~--~~~~iiti 114 (264)
T cd01129 63 GLKPENLEIFRKLLEKP-HGIILVTGPTGSGKTTTLYSALSELNT--PEKNIITV 114 (264)
T ss_pred CCCHHHHHHHHHHHhcC-CCEEEEECCCCCcHHHHHHHHHhhhCC--CCCeEEEE
Confidence 57899999998887533 356999999999999998776665532 34455543
No 222
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.81 E-value=0.067 Score=63.01 Aligned_cols=51 Identities=18% Similarity=0.101 Sum_probs=42.0
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
...++..|=|.|||+++.-.+..++.. .+.+|+++||....+.++.+++..
T Consensus 188 ~~tV~taPRqrGKS~iVgi~l~~La~f-~Gi~IlvTAH~~~ts~evF~rv~~ 238 (752)
T PHA03333 188 CYTAATVPRRCGKTTIMAIILAAMISF-LEIDIVVQAQRKTMCLTLYNRVET 238 (752)
T ss_pred cceEEEeccCCCcHHHHHHHHHHHHHh-cCCeEEEECCChhhHHHHHHHHHH
Confidence 346999999999999988777666542 368999999999999999888765
No 223
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.75 E-value=0.032 Score=59.19 Aligned_cols=55 Identities=20% Similarity=0.276 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHHHh----CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 400 SLNEEQTRSVEIILG----CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~----~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
..+..+++++..+.. -....-+++.||||||||+.++.+...+++ .+.+|++++.
T Consensus 83 ~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~--~g~sv~f~~~ 141 (254)
T COG1484 83 FQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLK--AGISVLFITA 141 (254)
T ss_pred CCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHH--cCCeEEEEEH
Confidence 445556666655532 112234899999999999998888888874 4678888764
No 224
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=95.74 E-value=0.019 Score=57.56 Aligned_cols=44 Identities=32% Similarity=0.543 Sum_probs=31.9
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
-++++||||||||+.++.++..++. .+.++++++. .++.++|..
T Consensus 49 ~l~l~G~~G~GKThLa~ai~~~~~~--~g~~v~f~~~-----~~L~~~l~~ 92 (178)
T PF01695_consen 49 NLILYGPPGTGKTHLAVAIANEAIR--KGYSVLFITA-----SDLLDELKQ 92 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH--TT--EEEEEH-----HHHHHHHHC
T ss_pred EEEEEhhHhHHHHHHHHHHHHHhcc--CCcceeEeec-----Cceeccccc
Confidence 4899999999999998888887776 4677877764 345555543
No 225
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=95.67 E-value=0.072 Score=58.28 Aligned_cols=48 Identities=19% Similarity=0.203 Sum_probs=33.7
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcc-cC--CCEEEEecC-CCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLC-TK--QTVVVLAGD-PKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~-~~--~~~lVLvGD-p~QL~PvI~s~ 589 (806)
+.+.++|||+| ..++.+..-+|.+.. .+ ++.+||+.+ +.+|.|+|.|.
T Consensus 112 g~~kV~iI~~a-e~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSR 163 (319)
T PRK08769 112 GIAQVVIVDPA-DAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSR 163 (319)
T ss_pred CCcEEEEeccH-hhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhh
Confidence 46799999999 555555555554433 22 556788777 78899998875
No 226
>PRK06851 hypothetical protein; Provisional
Probab=95.67 E-value=0.0088 Score=66.34 Aligned_cols=47 Identities=21% Similarity=0.412 Sum_probs=37.3
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHML 465 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~ 465 (806)
..++|.||||||||+++..++.++.+.+-.-..+.|+..|.++|-+.
T Consensus 31 ~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvi 77 (367)
T PRK06851 31 RIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVI 77 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEE
Confidence 46899999999999998877777765433345788999999998763
No 227
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=95.66 E-value=0.056 Score=65.90 Aligned_cols=65 Identities=20% Similarity=0.208 Sum_probs=50.1
Q ss_pred HHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH-HhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 405 QTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY-STREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 405 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll-~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
+++.+..++.. +..++|.|-.|+||||-+-..|+.-. ..++..+|+++-|-+-||-.+++|+...
T Consensus 177 ~r~~Il~~i~~--~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~E 242 (924)
T KOG0920|consen 177 MRDTILDAIEE--NQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKE 242 (924)
T ss_pred HHHHHHHHHHh--CceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHH
Confidence 44444444443 34589999999999998888777643 3446788999999999999999999874
No 228
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.66 E-value=0.045 Score=68.33 Aligned_cols=159 Identities=14% Similarity=0.234 Sum_probs=91.9
Q ss_pred CCCHHHHHHHHHHHhCC-CCCCEEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 400 SLNEEQTRSVEIILGCK-GAPPYVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~-~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
.|=+.|.+++.-.+... ...-.++-=..|.|||...+..+..+.... ...++||++|....-....+ +.+. .+
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL~nW~~E-i~kw----~p 243 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTLGNWMNE-IRRF----CP 243 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHHHHHHHH-HHHH----CC
Confidence 68899999998776411 111257777899999998888777665432 34689999997665444333 3321 11
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcch
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEP 557 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~ep 557 (806)
...++.+..... . ... ...... ....++|+++|+...... ...+...+|++||||||...-++
T Consensus 244 ~l~v~~~~G~~~-------e-R~~--~~~~~~------~~~~~dVvITSYe~l~~e-~~~L~k~~W~~VIvDEAHrIKN~ 306 (1033)
T PLN03142 244 VLRAVKFHGNPE-------E-RAH--QREELL------VAGKFDVCVTSFEMAIKE-KTALKRFSWRYIIIDEAHRIKNE 306 (1033)
T ss_pred CCceEEEeCCHH-------H-HHH--HHHHHh------cccCCCcceecHHHHHHH-HHHhccCCCCEEEEcCccccCCH
Confidence 222222221110 0 000 000000 013467888887654321 12334557999999999776666
Q ss_pred hHHH--HHhhcccCCCEEEEecCCCC
Q 038509 558 ESMI--PIANLCTKQTVVVLAGDPKQ 581 (806)
Q Consensus 558 e~li--~L~~l~~~~~~lVLvGDp~Q 581 (806)
.... .+..+. ...+++|-|=|-|
T Consensus 307 ~Sklskalr~L~-a~~RLLLTGTPlq 331 (1033)
T PLN03142 307 NSLLSKTMRLFS-TNYRLLITGTPLQ 331 (1033)
T ss_pred HHHHHHHHHHhh-cCcEEEEecCCCC
Confidence 5432 333333 4468999999998
No 229
>PRK10867 signal recognition particle protein; Provisional
Probab=95.64 E-value=0.063 Score=61.14 Aligned_cols=35 Identities=23% Similarity=0.313 Sum_probs=27.0
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.+++.||||+|||||++..+.++... .+.+|++++
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~-~G~kV~lV~ 136 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKK-KKKKVLLVA 136 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHh-cCCcEEEEE
Confidence 36799999999999999988877654 256665544
No 230
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=95.62 E-value=0.046 Score=60.33 Aligned_cols=48 Identities=17% Similarity=0.231 Sum_probs=31.6
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEec-CCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAG-DPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvG-Dp~QL~PvI~s~ 589 (806)
+.+.++||||| +.++.+..-.|..... ..+.+||+. ++.+|.|+|.|.
T Consensus 109 ~~~kvviI~~a-~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSR 160 (329)
T PRK08058 109 SNKKVYIIEHA-DKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSR 160 (329)
T ss_pred cCceEEEeehH-hhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhh
Confidence 35789999999 5555555544444332 345677766 677888887765
No 231
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.61 E-value=0.039 Score=57.36 Aligned_cols=54 Identities=11% Similarity=0.131 Sum_probs=35.5
Q ss_pred CCCHHHHHHHHHHHh-CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 400 SLNEEQTRSVEIILG-CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~-~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.-|.....++..... .....+++|.||||||||+.+.....++.. .+..+.+++
T Consensus 23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~--~~~~~~~i~ 77 (227)
T PRK08903 23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASY--GGRNARYLD 77 (227)
T ss_pred CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHh--CCCcEEEEe
Confidence 557777777666544 223457999999999999876655555443 344555544
No 232
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=95.58 E-value=0.032 Score=62.31 Aligned_cols=43 Identities=26% Similarity=0.323 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHHh----CCCCCCEEEEcCCCCChHHHHHHHHHHHHH
Q 038509 402 NEEQTRSVEIILG----CKGAPPYVIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 402 N~eQ~~AV~~il~----~~~~~~~lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
-++|.+.+...+. ....+.++|.||||||||+++...+.++..
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 4556666655553 233356899999999999988777776643
No 233
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.57 E-value=0.042 Score=63.02 Aligned_cols=144 Identities=20% Similarity=0.257 Sum_probs=86.3
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHH-HHHHHHHHHH------hCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMT-LVEAILQVYS------TREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~t-lv~~i~qll~------~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+..+++-|.+..-.++..++ ++..+--|||||.. ++=+|.++.+ ...+.++||++||+..|..+.+-..+
T Consensus 111 ~~~PtpIQaq~wp~~l~GrD---~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~ 187 (519)
T KOG0331|consen 111 FEKPTPIQAQGWPIALSGRD---LVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEARE 187 (519)
T ss_pred CCCCchhhhcccceeccCCc---eEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHH
Confidence 34678889888888887544 68899999999965 2333444443 12356899999999999999887765
Q ss_pred ccccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhc-cceeeeeeecccccc-cccCCcCCCCcEEEE
Q 038509 471 NEVAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALG-RYRIIISTYMSSSLL-NTNGIKRGNFSHIFL 548 (806)
Q Consensus 471 ~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~-~~~Vi~~T~~s~~~l-~~~~~~~~~Fd~ViI 548 (806)
.... .. + ...|.... .-+.+..+.|. .++|+++|.--...+ ....+.-..++|+++
T Consensus 188 ~~~~-~~---~-----------------~~~cvyGG-~~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylVL 245 (519)
T KOG0331|consen 188 FGKS-LR---L-----------------RSTCVYGG-APKGPQLRDLERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVL 245 (519)
T ss_pred HcCC-CC---c-----------------cEEEEeCC-CCccHHHHHHhcCCcEEEeCChHHHHHHHcCCccccceeEEEe
Confidence 3211 10 0 00111110 11112223333 478999987543322 222334457899999
Q ss_pred ecCCCC----cchhHHHHHhhc
Q 038509 549 DEAGQA----SEPESMIPIANL 566 (806)
Q Consensus 549 DEAsQ~----~epe~li~L~~l 566 (806)
|||-+. .+|+.-..|..+
T Consensus 246 DEADrMldmGFe~qI~~Il~~i 267 (519)
T KOG0331|consen 246 DEADRMLDMGFEPQIRKILSQI 267 (519)
T ss_pred ccHHhhhccccHHHHHHHHHhc
Confidence 999553 455555555544
No 234
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=95.57 E-value=0.025 Score=69.41 Aligned_cols=126 Identities=21% Similarity=0.273 Sum_probs=82.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC---------CCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR---------EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~---------~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.||..|.+....++....+ +++.||.|+|||-+.+-.|++-+..+ .+.+|...||..+.++++..-+.+
T Consensus 309 sLNrIQS~v~daAl~~~En--mLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSk 386 (1674)
T KOG0951|consen 309 SLNRIQSKVYDAALRGDEN--MLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSK 386 (1674)
T ss_pred hhhHHHHHHHHHHhcCcCc--EEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHh
Confidence 7999999999998876554 89999999999999888887777643 345899999999999999886654
Q ss_pred ccc-cCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccccccc---CCcCCCCcEE
Q 038509 471 NEV-AGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTN---GIKRGNFSHI 546 (806)
Q Consensus 471 ~~~-~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~---~~~~~~Fd~V 546 (806)
... .++ ++.-+-.. .....+.+...+|++||.--....-.. .-...-++.+
T Consensus 387 Rla~~GI---~V~ElTgD----------------------~~l~~~qieeTqVIV~TPEK~DiITRk~gdraY~qlvrLl 441 (1674)
T KOG0951|consen 387 RLAPLGI---TVLELTGD----------------------SQLGKEQIEETQVIVTTPEKWDIITRKSGDRAYEQLVRLL 441 (1674)
T ss_pred hccccCc---EEEEeccc----------------------ccchhhhhhcceeEEeccchhhhhhcccCchhHHHHHHHH
Confidence 210 111 11111000 011234567788888887544221111 0111247889
Q ss_pred EEecCC
Q 038509 547 FLDEAG 552 (806)
Q Consensus 547 iIDEAs 552 (806)
||||.-
T Consensus 442 IIDEIH 447 (1674)
T KOG0951|consen 442 IIDEIH 447 (1674)
T ss_pred hhhhhh
Confidence 999993
No 235
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=95.55 E-value=0.077 Score=52.62 Aligned_cols=39 Identities=15% Similarity=0.146 Sum_probs=31.9
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNS 459 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~ 459 (806)
+.+.|.+++|.|||+.+...+.+.+. .+.+|+++=|-..
T Consensus 6 Gli~v~~g~GkGKtt~a~g~a~ra~~--~g~~v~ivQFlKg 44 (173)
T TIGR00708 6 GIIIVHTGNGKGKTTAAFGMALRALG--HGKKVGVIQFIKG 44 (173)
T ss_pred cEEEEECCCCCChHHHHHHHHHHHHH--CCCeEEEEEEecC
Confidence 56889999999999999888887775 5689998866443
No 236
>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=95.51 E-value=0.032 Score=66.24 Aligned_cols=66 Identities=18% Similarity=0.226 Sum_probs=47.4
Q ss_pred HHHHHHHHHHhC-CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 404 EQTRSVEIILGC-KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 404 eQ~~AV~~il~~-~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
||++.+..+... .+....+|.+|.|||||..-.-.+...+....+.+|+|+|||...++.+.+.+.
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHH
Confidence 477766665532 223468999999999997655555444443356899999999999999987554
No 237
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=95.47 E-value=0.066 Score=65.78 Aligned_cols=38 Identities=24% Similarity=0.314 Sum_probs=24.8
Q ss_pred HHHHHHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 406 TRSVEIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 406 ~~AV~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.+.+...+.....+ .||++||+|+|||+++...+..|.
T Consensus 24 ~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 24 TEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred HHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence 34455555433333 489999999999987665555544
No 238
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=95.45 E-value=0.062 Score=63.76 Aligned_cols=42 Identities=19% Similarity=0.227 Sum_probs=27.2
Q ss_pred CHHHHHHHHHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 402 NEEQTRSVEIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.+.-.+.+...+.....+ .++++||+|+|||+++...+..+.
T Consensus 29 q~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~ 71 (598)
T PRK09111 29 QEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALN 71 (598)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhC
Confidence 444445555555433323 489999999999998666555554
No 239
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=95.45 E-value=0.029 Score=54.16 Aligned_cols=41 Identities=17% Similarity=0.460 Sum_probs=32.1
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADH 463 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~ 463 (806)
++|.||||||||+.+...+.++.. .+.++++........+.
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~~~~ 42 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIAT--KGGKVVYVDIEEEIEEL 42 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHh--cCCEEEEEECCcchHHH
Confidence 689999999999998888777755 46788888876555443
No 240
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=95.44 E-value=0.079 Score=58.05 Aligned_cols=48 Identities=13% Similarity=0.169 Sum_probs=31.9
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC---CCEEEEe-cCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK---QTVVVLA-GDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~---~~~lVLv-GDp~QL~PvI~s~ 589 (806)
+.+.++||||| +.+..+..-.|...... ++.+||+ -++.+|.|+|.|.
T Consensus 92 ~~~kv~iI~~a-d~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SR 143 (313)
T PRK05564 92 GDKKVIIIYNS-EKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSR 143 (313)
T ss_pred CCceEEEEech-hhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhh
Confidence 35789999999 66666666555544332 3455554 5688888887764
No 241
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=95.44 E-value=0.033 Score=68.08 Aligned_cols=72 Identities=22% Similarity=0.258 Sum_probs=60.2
Q ss_pred CCCHHHHHHHHHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhcc
Q 038509 400 SLNEEQTRSVEIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
...+.|..|+..++...... .+++.+|-|.|||.+.+..+...+... ...|+..+-|+.++++.+.+|+...
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~ 269 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEI 269 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhh
Confidence 55889999999998765555 799999999999998777766666542 5789999999999999999999863
No 242
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=95.40 E-value=0.02 Score=60.97 Aligned_cols=24 Identities=29% Similarity=0.242 Sum_probs=18.1
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
.+++++||||||||+++-..+.++
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l 66 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLF 66 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHH
Confidence 458999999999998755444444
No 243
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.39 E-value=0.025 Score=64.27 Aligned_cols=43 Identities=26% Similarity=0.344 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.+++.|.+.+..++... .+.+||.||-|||||||+-.++.++.
T Consensus 241 g~~~~~~~~~~~~~~~p-~GliLvTGPTGSGKTTTLY~~L~~ln 283 (500)
T COG2804 241 GMSPFQLARLLRLLNRP-QGLILVTGPTGSGKTTTLYAALSELN 283 (500)
T ss_pred CCCHHHHHHHHHHHhCC-CeEEEEeCCCCCCHHHHHHHHHHHhc
Confidence 56999999999988754 57899999999999999988777664
No 244
>PRK08116 hypothetical protein; Validated
Probab=95.36 E-value=0.038 Score=59.10 Aligned_cols=35 Identities=17% Similarity=0.261 Sum_probs=27.1
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.+++++|+||||||+.+..++.++.+. +.++++++
T Consensus 115 ~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~ 149 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVN 149 (268)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEE
Confidence 359999999999999887777777653 56676665
No 245
>PF05729 NACHT: NACHT domain
Probab=95.35 E-value=0.025 Score=54.90 Aligned_cols=27 Identities=30% Similarity=0.388 Sum_probs=23.3
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhC
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTR 446 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~ 446 (806)
+++|.|+||+|||+++...+.++....
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 479999999999999988888877655
No 246
>PRK09183 transposase/IS protein; Provisional
Probab=95.33 E-value=0.034 Score=59.19 Aligned_cols=55 Identities=16% Similarity=0.207 Sum_probs=35.7
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
..+|..|...+...---.....++|.||||||||+.+......+.. .+.++++++
T Consensus 83 ~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~--~G~~v~~~~ 137 (259)
T PRK09183 83 TGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVR--AGIKVRFTT 137 (259)
T ss_pred CCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEe
Confidence 3778877766654211111235899999999999977766554443 467887765
No 247
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.31 E-value=0.091 Score=58.89 Aligned_cols=37 Identities=19% Similarity=0.217 Sum_probs=24.9
Q ss_pred CHHHHHHHHHHHhCCCC-CCEEEEcCCCCChHHHHHHH
Q 038509 402 NEEQTRSVEIILGCKGA-PPYVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~-~~~lI~GPPGTGKT~tlv~~ 438 (806)
++...+.+...+..... +.++++||||+|||+++-..
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~l 59 (367)
T PRK14970 22 QSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARIL 59 (367)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 45555566666654333 35899999999999765444
No 248
>PRK10436 hypothetical protein; Provisional
Probab=95.29 E-value=0.028 Score=64.59 Aligned_cols=42 Identities=26% Similarity=0.378 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
.+.++|.+.+..++... .+.++|.||.|||||||+..++..+
T Consensus 201 G~~~~~~~~l~~~~~~~-~GliLvtGpTGSGKTTtL~a~l~~~ 242 (462)
T PRK10436 201 GMTPAQLAQFRQALQQP-QGLILVTGPTGSGKTVTLYSALQTL 242 (462)
T ss_pred CcCHHHHHHHHHHHHhc-CCeEEEECCCCCChHHHHHHHHHhh
Confidence 68899999998887533 4679999999999999997766654
No 249
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.29 E-value=0.027 Score=59.89 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=38.8
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLER 467 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~er 467 (806)
..++|.|+||||||+...+.+.+.++. +.+++.+|....+.+.+...
T Consensus 24 ~~~lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~~~~l~~~~ 70 (260)
T COG0467 24 SVVLITGPPGTGKTIFALQFLYEGARE--GEPVLYVSTEESPEELLENA 70 (260)
T ss_pred cEEEEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEEecCCHHHHHHHH
Confidence 468999999999999999988888874 78999999887776655443
No 250
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=95.27 E-value=0.73 Score=54.79 Aligned_cols=169 Identities=17% Similarity=0.147 Sum_probs=96.4
Q ss_pred CCCHHHHHHHHHHHh--CCCCCCEEEEcCCCCChHHHHHHHHHHHHHh-CCCCeEEEEecchHHHHHHHHHHhcccccCc
Q 038509 400 SLNEEQTRSVEIILG--CKGAPPYVIYGPPGTGKTMTLVEAILQVYST-REHSRILVCAASNSAADHMLERLISNEVAGI 476 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~--~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~-~~~~rILv~apSN~Aad~l~erL~~~~~~~~ 476 (806)
.|=+.|++-|+-... +.+.+ -+|=--=|=|||.-++.-++.|... .-..+.||++|+---...+.|-- . .
T Consensus 205 ~Lf~yQreGV~WL~~L~~q~~G-GILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~Tii~qW~~E~~-~-----w 277 (923)
T KOG0387|consen 205 KLFPYQREGVQWLWELYCQRAG-GILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPATIIHQWMKEFQ-T-----W 277 (923)
T ss_pred HhhHHHHHHHHHHHHHHhccCC-CeecccccCccchhHHHHHHHHhhcccccCceEEEccHHHHHHHHHHHH-H-----h
Confidence 788999999987643 22221 1454567999999888888877765 33478999999766665554421 1 1
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcc
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASE 556 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~e 556 (806)
.+.--+.+.+....... .+........+ .. ..........|+++|+..... ....+....++++|+||+-.+-+
T Consensus 278 ~p~~rv~ilh~t~s~~r-~~~~~~~~~~~-~~---L~r~~~~~~~ilitty~~~r~-~~d~l~~~~W~y~ILDEGH~IrN 351 (923)
T KOG0387|consen 278 WPPFRVFILHGTGSGAR-YDASHSSHKKD-KL---LIRKVATDGGILITTYDGFRI-QGDDLLGILWDYVILDEGHRIRN 351 (923)
T ss_pred CcceEEEEEecCCcccc-cccchhhhhhh-hh---heeeecccCcEEEEehhhhcc-cCcccccccccEEEecCcccccC
Confidence 11111222222211000 00000000000 00 001122344567777655432 23345556799999999999999
Q ss_pred hhHHHHHhhcc-cCCCEEEEecCCCC
Q 038509 557 PESMIPIANLC-TKQTVVVLAGDPKQ 581 (806)
Q Consensus 557 pe~li~L~~l~-~~~~~lVLvGDp~Q 581 (806)
|..-+.++..- ....|+||.|=|.|
T Consensus 352 pns~islackki~T~~RiILSGTPiQ 377 (923)
T KOG0387|consen 352 PNSKISLACKKIRTVHRIILSGTPIQ 377 (923)
T ss_pred CccHHHHHHHhccccceEEeeCcccc
Confidence 98777665321 23468999999999
No 251
>PRK14873 primosome assembly protein PriA; Provisional
Probab=95.27 E-value=0.062 Score=64.51 Aligned_cols=103 Identities=15% Similarity=0.137 Sum_probs=68.4
Q ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChhhhhh
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTDFIRF 501 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~ 501 (806)
+..+.||+|||.+..++|.+.+. .++.+|++.|..+.+..+.+|+.+. .....+..+.+... +. .++
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~--~Gk~vLvLvPEi~lt~q~~~rl~~~----f~~~~v~~lhS~l~------~~-~R~ 230 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLR--AGRGALVVVPDQRDVDRLEAALRAL----LGAGDVAVLSAGLG------PA-DRY 230 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHH--cCCeEEEEecchhhHHHHHHHHHHH----cCCCcEEEECCCCC------HH-HHH
Confidence 44556799999999999999987 4678999999999999999999862 22234444433211 11 111
Q ss_pred hchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecC
Q 038509 502 CFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEA 551 (806)
Q Consensus 502 ~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEA 551 (806)
..|... .-.+.+||+.|-+.... +-.....|||||=
T Consensus 231 ~~w~~~--------~~G~~~IViGtRSAvFa------P~~~LgLIIvdEE 266 (665)
T PRK14873 231 RRWLAV--------LRGQARVVVGTRSAVFA------PVEDLGLVAIWDD 266 (665)
T ss_pred HHHHHH--------hCCCCcEEEEcceeEEe------ccCCCCEEEEEcC
Confidence 111110 11457899999876543 3335579999997
No 252
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=95.26 E-value=0.027 Score=58.49 Aligned_cols=50 Identities=22% Similarity=0.420 Sum_probs=35.6
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.||||||||+...+.+..-++.. +.++++++..... +.+.+++.+
T Consensus 20 s~~li~G~~GsGKT~l~~q~l~~~~~~~-ge~vlyvs~ee~~-~~l~~~~~s 69 (226)
T PF06745_consen 20 SVVLISGPPGSGKTTLALQFLYNGLKNF-GEKVLYVSFEEPP-EELIENMKS 69 (226)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHHH-T--EEEEESSS-H-HHHHHHHHT
T ss_pred cEEEEEeCCCCCcHHHHHHHHHHhhhhc-CCcEEEEEecCCH-HHHHHHHHH
Confidence 3589999999999998888777666531 5789999976655 666666654
No 253
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=95.25 E-value=0.015 Score=53.68 Aligned_cols=21 Identities=38% Similarity=0.654 Sum_probs=16.4
Q ss_pred EEEEcCCCCChHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~q 441 (806)
++|.|||||||||+...++.+
T Consensus 2 I~I~G~~gsGKST~a~~La~~ 22 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAER 22 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999875554443
No 254
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.25 E-value=0.037 Score=60.23 Aligned_cols=157 Identities=16% Similarity=0.179 Sum_probs=93.6
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHH-HHHhCCCCeEEEEecchHHHHHHHHHHhcccc-cCc
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQ-VYSTREHSRILVCAASNSAADHMLERLISNEV-AGI 476 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~q-ll~~~~~~rILv~apSN~Aad~l~erL~~~~~-~~~ 476 (806)
...++-|++|+-.+++.+ .++..+--|+|||-+-+-=|.+ |+.+...-..||+|||+..|-.|.+.....+. .++
T Consensus 82 ~~PT~IQ~~aiP~~L~g~---dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~igl 158 (476)
T KOG0330|consen 82 KKPTKIQSEAIPVALGGR---DVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGL 158 (476)
T ss_pred CCCchhhhhhcchhhCCC---cEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCe
Confidence 367889999999999854 4799999999999875554444 44444456899999999999999988765321 111
Q ss_pred ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccc-cc-ccCCcCCCCcEEEEecCCCC
Q 038509 477 KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSL-LN-TNGIKRGNFSHIFLDEAGQA 554 (806)
Q Consensus 477 ~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~-l~-~~~~~~~~Fd~ViIDEAsQ~ 554 (806)
.... -++.. .... .......+..|+++|.-.... +. ..++.-....++++|||-..
T Consensus 159 r~~~--lvGG~-------~m~~-------------q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrl 216 (476)
T KOG0330|consen 159 RVAV--LVGGM-------DMML-------------QANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRL 216 (476)
T ss_pred EEEE--EecCc-------hHHH-------------HHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHHhh
Confidence 1100 01100 0000 001222455678888743321 11 23444556789999999655
Q ss_pred cchhHHHHHhh---cccCCCEEEEecCCC
Q 038509 555 SEPESMIPIAN---LCTKQTVVVLAGDPK 580 (806)
Q Consensus 555 ~epe~li~L~~---l~~~~~~lVLvGDp~ 580 (806)
.+-+....|.. ...+..+.+|++-.+
T Consensus 217 Ld~dF~~~ld~ILk~ip~erqt~LfsATM 245 (476)
T KOG0330|consen 217 LDMDFEEELDYILKVIPRERQTFLFSATM 245 (476)
T ss_pred hhhhhHHHHHHHHHhcCccceEEEEEeec
Confidence 54433333222 233556777776543
No 255
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.24 E-value=0.026 Score=62.84 Aligned_cols=38 Identities=21% Similarity=0.340 Sum_probs=29.4
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
..+++.||+|+|||||++..+.++.......+|.+++.
T Consensus 138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~ 175 (374)
T PRK14722 138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT 175 (374)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 46899999999999999998887664333357766654
No 256
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=95.23 E-value=0.085 Score=57.87 Aligned_cols=48 Identities=21% Similarity=0.331 Sum_probs=33.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcc-c--CCCEEEEecC-CCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLC-T--KQTVVVLAGD-PKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~-~--~~~~lVLvGD-p~QL~PvI~s~ 589 (806)
+.+.++|||+| +.+..+..-+|.+.. . ..+.++|+.+ +.+|.|+|.|.
T Consensus 106 g~~KV~iI~~a-~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SR 157 (325)
T PRK06871 106 GGNKVVYIQGA-ERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSR 157 (325)
T ss_pred CCceEEEEech-hhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhh
Confidence 46799999999 666665665555443 2 2456666655 67999998875
No 257
>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=95.23 E-value=0.11 Score=58.47 Aligned_cols=22 Identities=27% Similarity=0.371 Sum_probs=18.1
Q ss_pred CEEEEcCCCCChHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~q 441 (806)
.++..||+|||||++..+.-.+
T Consensus 211 Nli~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 211 NLIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred cEEEECCCCCCHHHHHHHHhHH
Confidence 4899999999999987765544
No 258
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=95.20 E-value=0.023 Score=54.05 Aligned_cols=26 Identities=27% Similarity=0.446 Sum_probs=17.7
Q ss_pred cEEEEecCCCCcchhHHHHHhhcccCC
Q 038509 544 SHIFLDEAGQASEPESMIPIANLCTKQ 570 (806)
Q Consensus 544 d~ViIDEAsQ~~epe~li~L~~l~~~~ 570 (806)
.++++||+..+ .++.+..|..+....
T Consensus 67 ~il~lDEin~a-~~~v~~~L~~ll~~~ 92 (139)
T PF07728_consen 67 GILVLDEINRA-PPEVLESLLSLLEER 92 (139)
T ss_dssp EEEEESSCGG---HHHHHTTHHHHSSS
T ss_pred eEEEECCcccC-CHHHHHHHHHHHhhC
Confidence 68999999444 487777776665543
No 259
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.20 E-value=0.044 Score=61.41 Aligned_cols=121 Identities=20% Similarity=0.248 Sum_probs=72.2
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCC--CCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChh
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTRE--HSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTD 497 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~--~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~ 497 (806)
-++|.+|-|||||..-+-=|.|++...+ .-|-+|+-||...+..+..-+..... +.=+-++..... ..+..+
T Consensus 185 DIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~-----~tgL~V~~~sgq-~sl~~E 258 (620)
T KOG0350|consen 185 DICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNS-----GTGLAVCSLSGQ-NSLEDE 258 (620)
T ss_pred ceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhcc-----CCceEEEecccc-cchHHH
Confidence 4799999999999877777888887653 34678999999999888776654211 111112222211 112222
Q ss_pred hhhhhchhhhhccCCchhhhccceeeeeeeccccc-cc-ccCCcCCCCcEEEEecCCCCcc
Q 038509 498 FIRFCFFEESIFKCPPREALGRYRIIISTYMSSSL-LN-TNGIKRGNFSHIFLDEAGQASE 556 (806)
Q Consensus 498 ~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~-l~-~~~~~~~~Fd~ViIDEAsQ~~e 556 (806)
..+... ..-..+.+|+++|..-.-. +. ..++.-.|..++|||||-..+.
T Consensus 259 ~~qL~~----------~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEADRll~ 309 (620)
T KOG0350|consen 259 ARQLAS----------DPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLLD 309 (620)
T ss_pred HHHHhc----------CCCccccceEEcCchHHHHhccCCCCcchhhceEEEechHHHHHH
Confidence 222111 1112367899998743321 11 2344456778999999955443
No 260
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=95.19 E-value=0.034 Score=59.43 Aligned_cols=39 Identities=23% Similarity=0.337 Sum_probs=28.5
Q ss_pred CCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEecCCCC
Q 038509 542 NFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAGDPKQ 581 (806)
Q Consensus 542 ~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvGDp~Q 581 (806)
.|..||+||| .++.-.+-.+|..... .+.++.+++-+-|
T Consensus 131 ~fKlvILDEA-DaMT~~AQnALRRviek~t~n~rF~ii~n~~~ 172 (360)
T KOG0990|consen 131 AFKLVILDEA-DAMTRDAQNALRRVIEKYTANTRFATISNPPQ 172 (360)
T ss_pred ceeEEEecch-hHhhHHHHHHHHHHHHHhccceEEEEeccChh
Confidence 6899999999 7776666666664332 3567888888766
No 261
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.18 E-value=0.039 Score=57.64 Aligned_cols=44 Identities=11% Similarity=0.149 Sum_probs=34.1
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHM 464 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l 464 (806)
..++|.|+||||||+.....+..+++ ++.+++++++.....+.+
T Consensus 25 ~~~~i~G~~G~GKTtl~~~~~~~~~~--~g~~~~yi~~e~~~~~~~ 68 (230)
T PRK08533 25 SLILIEGDESTGKSILSQRLAYGFLQ--NGYSVSYVSTQLTTTEFI 68 (230)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHh--CCCcEEEEeCCCCHHHHH
Confidence 36899999999999988787777765 457888888766654443
No 262
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.17 E-value=0.03 Score=59.40 Aligned_cols=36 Identities=28% Similarity=0.410 Sum_probs=27.9
Q ss_pred CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEE
Q 038509 416 KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRIL 452 (806)
Q Consensus 416 ~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rIL 452 (806)
...+.+||.||-|||||||++..|-++-++ ....||
T Consensus 123 ~~~GLILVTGpTGSGKSTTlAamId~iN~~-~~~HIl 158 (353)
T COG2805 123 SPRGLILVTGPTGSGKSTTLAAMIDYINKH-KAKHIL 158 (353)
T ss_pred CCCceEEEeCCCCCcHHHHHHHHHHHHhcc-CCcceE
Confidence 345789999999999999999998876543 344454
No 263
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.15 E-value=0.048 Score=61.59 Aligned_cols=43 Identities=35% Similarity=0.518 Sum_probs=28.2
Q ss_pred HHHHHHHHHHH----hCCCCCCEEEEcCCCCChHHHHHHHHHHHHHh
Q 038509 403 EEQTRSVEIIL----GCKGAPPYVIYGPPGTGKTMTLVEAILQVYST 445 (806)
Q Consensus 403 ~eQ~~AV~~il----~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~ 445 (806)
++|.+.+...+ .....+.++|+||||||||+++...+.++-..
T Consensus 36 e~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~ 82 (394)
T PRK00411 36 EEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEI 82 (394)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 34444455444 22223458999999999999887777666543
No 264
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=95.11 E-value=0.041 Score=58.70 Aligned_cols=39 Identities=28% Similarity=0.385 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHHhC-CCCCCEEEEcCCCCChHHHHHHHHHH
Q 038509 402 NEEQTRSVEIILGC-KGAPPYVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 402 N~eQ~~AV~~il~~-~~~~~~lI~GPPGTGKT~tlv~~i~q 441 (806)
++..++.++.++.. ....|+++.||||||||+.+ ..+.+
T Consensus 4 t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA-~~la~ 43 (262)
T TIGR02640 4 TDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLA-MHVAR 43 (262)
T ss_pred CHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHH-HHHHH
Confidence 45555555555431 12357999999999999864 44443
No 265
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=95.10 E-value=0.14 Score=60.25 Aligned_cols=51 Identities=25% Similarity=0.205 Sum_probs=43.3
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
-.++.-|==.|||..++-.|..++...++.+|+++||..+.++.+.+++..
T Consensus 256 ~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~ 306 (738)
T PHA03368 256 ATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGA 306 (738)
T ss_pred ceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHH
Confidence 367888889999999986666666666899999999999999999888876
No 266
>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=95.10 E-value=0.067 Score=65.28 Aligned_cols=71 Identities=23% Similarity=0.301 Sum_probs=50.7
Q ss_pred CCCHHHHHHHHHHHhC-CCCCCEEEEcCCCCChHHHHHHHHHHHHH-hCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGC-KGAPPYVIYGPPGTGKTMTLVEAILQVYS-TREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~-~~~~~~lI~GPPGTGKT~tlv~~i~qll~-~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..=+.|++.+..+... ......++.+|.|||||..+...++.... .....+|.+||.|++-...+.+-|.+
T Consensus 10 ~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 10 KIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 3458899988877642 22346899999999999665555544433 22346999999999988877776654
No 267
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=95.08 E-value=0.029 Score=65.08 Aligned_cols=42 Identities=26% Similarity=0.400 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
.++++|.+.+..++... .+.++|.||.|||||||+..++..+
T Consensus 225 g~~~~~~~~l~~~~~~~-~GlilitGptGSGKTTtL~a~L~~l 266 (486)
T TIGR02533 225 GMSPELLSRFERLIRRP-HGIILVTGPTGSGKTTTLYAALSRL 266 (486)
T ss_pred CCCHHHHHHHHHHHhcC-CCEEEEEcCCCCCHHHHHHHHHhcc
Confidence 68999999999887643 3578999999999999997665544
No 268
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=95.08 E-value=0.12 Score=60.93 Aligned_cols=42 Identities=17% Similarity=0.258 Sum_probs=26.1
Q ss_pred CHHHHHHHHHHHhCCCCC-CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 402 NEEQTRSVEIILGCKGAP-PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~-~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
++.-.+.+...+.....+ .|++.||||+|||+++-..+..+.
T Consensus 21 qe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~ 63 (563)
T PRK06647 21 QDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLN 63 (563)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence 334444455555443333 489999999999987655444443
No 269
>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=95.06 E-value=0.15 Score=44.30 Aligned_cols=33 Identities=24% Similarity=0.332 Sum_probs=26.2
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
+++.|.+|+|||++....+..+.+ .+.+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~--~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAK--RGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEC
Confidence 578899999999998887776654 467777766
No 270
>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=95.06 E-value=0.039 Score=55.60 Aligned_cols=49 Identities=22% Similarity=0.346 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILV 453 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv 453 (806)
.++++|.+.+...+... ..++|.||+|+||||++.. +..++. +..+++.
T Consensus 9 ~~~~~~~~~l~~~v~~g--~~i~I~G~tGSGKTTll~a-L~~~i~--~~~~~i~ 57 (186)
T cd01130 9 TFSPLQAAYLWLAVEAR--KNILISGGTGSGKTTLLNA-LLAFIP--PDERIIT 57 (186)
T ss_pred CCCHHHHHHHHHHHhCC--CEEEEECCCCCCHHHHHHH-HHhhcC--CCCCEEE
Confidence 57899999999888753 3589999999999988744 444443 4445543
No 271
>PHA00350 putative assembly protein
Probab=95.01 E-value=0.11 Score=58.21 Aligned_cols=25 Identities=32% Similarity=0.485 Sum_probs=20.2
Q ss_pred CEEEEcCCCCChHHHHHH-HHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVE-AILQVYS 444 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~-~i~qll~ 444 (806)
.++++|.||||||..++. .|...++
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk 28 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALK 28 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHH
Confidence 479999999999998887 4555555
No 272
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=95.00 E-value=0.038 Score=55.63 Aligned_cols=51 Identities=27% Similarity=0.442 Sum_probs=36.9
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhC--------CCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTR--------EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~--------~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.||||+|||+.+...+..+.... .+.+||++..-+. ...+.+|+..
T Consensus 33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~ 91 (193)
T PF13481_consen 33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRA 91 (193)
T ss_dssp SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHH
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHH
Confidence 3589999999999999999998887521 4578999988777 5566777764
No 273
>PRK05973 replicative DNA helicase; Provisional
Probab=94.99 E-value=0.045 Score=57.27 Aligned_cols=49 Identities=16% Similarity=0.218 Sum_probs=39.6
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.|+||+|||+...+.+...++ .+.++++.+.--+ .+.+.+|+..
T Consensus 65 sl~LIaG~PG~GKT~lalqfa~~~a~--~Ge~vlyfSlEes-~~~i~~R~~s 113 (237)
T PRK05973 65 DLVLLGARPGHGKTLLGLELAVEAMK--SGRTGVFFTLEYT-EQDVRDRLRA 113 (237)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHHh--cCCeEEEEEEeCC-HHHHHHHHHH
Confidence 36899999999999999888887765 3678999888666 4777788765
No 274
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=94.99 E-value=0.035 Score=59.10 Aligned_cols=46 Identities=20% Similarity=0.260 Sum_probs=34.2
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERL 468 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL 468 (806)
.++|.|+||||||+.....+.+.++ .+.++++++.-. ..+.+.+++
T Consensus 38 ~~lI~G~pGtGKT~l~~qf~~~~a~--~Ge~vlyis~Ee-~~~~~~~~l 83 (259)
T TIGR03878 38 VINITGVSDTGKSLMVEQFAVTQAS--RGNPVLFVTVES-PANFVYTSL 83 (259)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHh--CCCcEEEEEecC-CchHHHHHH
Confidence 5899999999999988887777665 467899888764 334444444
No 275
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=94.97 E-value=0.05 Score=58.35 Aligned_cols=34 Identities=24% Similarity=0.357 Sum_probs=26.8
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.+.+.||||+|||||++..+..+.+ .+.+|++++
T Consensus 74 vi~l~G~~G~GKTTt~akLA~~l~~--~g~~V~li~ 107 (272)
T TIGR00064 74 VILFVGVNGVGKTTTIAKLANKLKK--QGKSVLLAA 107 (272)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHh--cCCEEEEEe
Confidence 4667799999999999998877754 356777665
No 276
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.93 E-value=0.13 Score=59.80 Aligned_cols=46 Identities=20% Similarity=0.374 Sum_probs=26.3
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhc-ccC--CCEEEEec-CCCCCCceee
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANL-CTK--QTVVVLAG-DPKQLGPVIY 587 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l-~~~--~~~lVLvG-Dp~QL~PvI~ 587 (806)
+.+.++||||| +.+..+....|... -.+ ...+|++. ++.++++.+.
T Consensus 118 ~~~KVvIIDEa-d~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~ 167 (486)
T PRK14953 118 GKYKVYIIDEA-HMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTIL 167 (486)
T ss_pred CCeeEEEEECh-hhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHH
Confidence 35789999999 55555444444322 222 34566665 4555665544
No 277
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=94.92 E-value=0.68 Score=52.62 Aligned_cols=277 Identities=17% Similarity=0.126 Sum_probs=141.3
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHH-HHHHHHHHHH---------HhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTM-TLVEAILQVY---------STREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~-tlv~~i~qll---------~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
.-++-|+.|+-..+..++ .+-.+-.|+|||. .+.-++..+. ....+..-+++|||+..|..|.+--.
T Consensus 267 eptpIqR~aipl~lQ~rD---~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~ 343 (673)
T KOG0333|consen 267 EPTPIQRQAIPLGLQNRD---PIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETN 343 (673)
T ss_pred CCchHHHhhccchhccCC---eeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHH
Confidence 668999999987776544 5888999999993 3333333322 22245677899999999999977654
Q ss_pred cccccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccc-cccccCCcCCCCcEEEE
Q 038509 470 SNEVAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSS-LLNTNGIKRGNFSHIFL 548 (806)
Q Consensus 470 ~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~-~l~~~~~~~~~Fd~ViI 548 (806)
+... .+. ..++++....+ +++.-| +.-.-+.++++|..-.- .+.+..+-.....+|+.
T Consensus 344 kf~~-~lg-~r~vsvigg~s--------------~EEq~f-----qls~gceiviatPgrLid~Lenr~lvl~qctyvvl 402 (673)
T KOG0333|consen 344 KFGK-PLG-IRTVSVIGGLS--------------FEEQGF-----QLSMGCEIVIATPGRLIDSLENRYLVLNQCTYVVL 402 (673)
T ss_pred Hhcc-ccc-ceEEEEecccc--------------hhhhhh-----hhhccceeeecCchHHHHHHHHHHHHhccCceEec
Confidence 4211 111 23333322111 111111 22245677777764321 12223334457799999
Q ss_pred ecCCC----CcchhHHHHHhhcccCCCEEEEecCCCCCCceeecchhhhcCCCcc-HHHHHhhcccccCCCccceecccc
Q 038509 549 DEAGQ----ASEPESMIPIANLCTKQTVVVLAGDPKQLGPVIYSKDAETFGLGKS-YLERLFECEFYRNGDEGYVTKLVR 623 (806)
Q Consensus 549 DEAsQ----~~epe~li~L~~l~~~~~~lVLvGDp~QL~PvI~s~~a~~~gl~~S-l~eRL~~~~~~~~~~~~~v~~L~~ 623 (806)
|||.. -.||+..-.|..+- -+-.+. +-+.. --++++.. +.... -+...+.-
T Consensus 403 deadrmiDmgfE~dv~~iL~~mP----------------ssn~k~-----~tde~~~~~~~~~~-~~~~k--~yrqT~mf 458 (673)
T KOG0333|consen 403 DEADRMIDMGFEPDVQKILEQMP----------------SSNAKP-----DTDEKEGEERVRKN-FSSSK--KYRQTVMF 458 (673)
T ss_pred cchhhhhcccccHHHHHHHHhCC----------------ccccCC-----CccchhhHHHHHhh-ccccc--ceeEEEEE
Confidence 99964 34566665555332 111110 00000 11111111 00000 01111222
Q ss_pred cccChhHHHHhhhhhhcCCcccccCCccccccccccccCCCCCCCEEEEeccCcccccCCCCCccCHHHHHHHHHHHHHH
Q 038509 624 NYRCHPAILDLPSKLFYGGELLACKDDATSLSSAKVDIFPNKDFPVLFFGIQGCDEREGNNPSWFNRFEVSKVVDIINKL 703 (806)
Q Consensus 624 nYRs~p~I~~~~n~lfY~~~L~~~~~~~~~~~~~~~~~lp~~~~pv~f~~~~g~~~~~~~~~S~~N~~Ea~~V~~~v~~L 703 (806)
.-=|.|.+-.++..+|-+--.... +..|....- -..-|+-..|-+. ...+..+
T Consensus 459 tatm~p~verlar~ylr~pv~vti-------------------------g~~gk~~~r-veQ~v~m~~ed~k-~kkL~ei 511 (673)
T KOG0333|consen 459 TATMPPAVERLARSYLRRPVVVTI-------------------------GSAGKPTPR-VEQKVEMVSEDEK-RKKLIEI 511 (673)
T ss_pred ecCCChHHHHHHHHHhhCCeEEEe-------------------------ccCCCCccc-hheEEEEecchHH-HHHHHHH
Confidence 223788888888877643222211 111111000 0000111112223 2333334
Q ss_pred HHcCCCCCCeEEEEcCChHHHHHHHHHhhcCCCCCeEECcccccccceeeEEE
Q 038509 704 RENTELNETDIGVITPYRQQVLKIKKVLETWDMPDVKVGTVEQFQGQEREVII 756 (806)
Q Consensus 704 ~~~~~~~~~dIgIItPy~~Qv~~i~~~L~~~~~~~v~V~TVd~fQG~E~dvVI 756 (806)
++. ..++ -|-|.+.+.+-+..|.+.|.+.+ +.+.|.|..+|||-.-.+
T Consensus 512 l~~-~~~p-piIIFvN~kk~~d~lAk~LeK~g---~~~~tlHg~k~qeQRe~a 559 (673)
T KOG0333|consen 512 LES-NFDP-PIIIFVNTKKGADALAKILEKAG---YKVTTLHGGKSQEQRENA 559 (673)
T ss_pred HHh-CCCC-CEEEEEechhhHHHHHHHHhhcc---ceEEEeeCCccHHHHHHH
Confidence 443 2333 36677888999999999999865 678899999998854333
No 278
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=94.92 E-value=0.048 Score=61.80 Aligned_cols=40 Identities=25% Similarity=0.415 Sum_probs=26.2
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
..+...+.+...+... ..+++.||||||||+++. ++.+.+
T Consensus 179 i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~-~la~~l 218 (459)
T PRK11331 179 IPETTIETILKRLTIK--KNIILQGPPGVGKTFVAR-RLAYLL 218 (459)
T ss_pred CCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHH-HHHHHh
Confidence 3455555555555533 358999999999997654 444444
No 279
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=94.91 E-value=0.082 Score=62.87 Aligned_cols=64 Identities=16% Similarity=0.016 Sum_probs=49.7
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
...+-|..++-.++.. . +.....|+|||.+.+-.+.... ..+..++|+|||...|....+-+..
T Consensus 103 ~p~~VQ~~~~~~ll~G--~---Iae~~TGeGKTla~~lp~~~~a--l~G~~v~VvTptreLA~qdae~~~~ 166 (656)
T PRK12898 103 RHFDVQLMGGLALLSG--R---LAEMQTGEGKTLTATLPAGTAA--LAGLPVHVITVNDYLAERDAELMRP 166 (656)
T ss_pred CCChHHHHHHHHHhCC--C---eeeeeCCCCcHHHHHHHHHHHh--hcCCeEEEEcCcHHHHHHHHHHHHH
Confidence 4568898888877752 2 8999999999988776555433 3568999999999999888777654
No 280
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=94.90 E-value=0.038 Score=54.80 Aligned_cols=33 Identities=27% Similarity=0.423 Sum_probs=25.7
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
+++.||||+|||+++...+..+.+ .+.+++++.
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~--~g~~v~~i~ 35 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKK--KGKKVLLVA 35 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH--CCCcEEEEE
Confidence 588999999999998887776665 356776655
No 281
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.88 E-value=0.041 Score=61.75 Aligned_cols=149 Identities=20% Similarity=0.178 Sum_probs=75.3
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHH-HHHHH---hCCCCeEEEEecchHHHHHHHHHHhcccccCcc
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAI-LQVYS---TREHSRILVCAASNSAADHMLERLISNEVAGIK 477 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i-~qll~---~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~ 477 (806)
++-|.+-|--+|-.++ ++-.+.-|||||..-+-=| ..|+. ..+..||||++||+..|-.+.....+... ...
T Consensus 205 TpIQ~a~IPvallgkD---Ica~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaq-Ft~ 280 (691)
T KOG0338|consen 205 TPIQVATIPVALLGKD---ICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQ-FTD 280 (691)
T ss_pred CchhhhcccHHhhcch---hhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHh-hcc
Confidence 4556555554443322 3555678999996533322 23332 22567999999999988877654433100 000
Q ss_pred cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccc--cccccCCcCCCCcEEEEecCCCCc
Q 038509 478 ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSS--LLNTNGIKRGNFSHIFLDEAGQAS 555 (806)
Q Consensus 478 ~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~--~l~~~~~~~~~Fd~ViIDEAsQ~~ 555 (806)
-.+-|..... ..+......-...+||++|..-.- ...+..+......++|+|||-..+
T Consensus 281 --I~~~L~vGGL------------------~lk~QE~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRML 340 (691)
T KOG0338|consen 281 --ITVGLAVGGL------------------DLKAQEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRML 340 (691)
T ss_pred --ceeeeeecCc------------------cHHHHHHHHhhCCCEEEecchhHHHHhccCCCccccceeEEEechHHHHH
Confidence 0000100000 000000111245678888874321 112233444566789999996655
Q ss_pred ch---hHHHHHhhcccCCCEEE
Q 038509 556 EP---ESMIPIANLCTKQTVVV 574 (806)
Q Consensus 556 ep---e~li~L~~l~~~~~~lV 574 (806)
+. +.+.-|..+|.++.|-+
T Consensus 341 eegFademnEii~lcpk~RQTm 362 (691)
T KOG0338|consen 341 EEGFADEMNEIIRLCPKNRQTM 362 (691)
T ss_pred HHHHHHHHHHHHHhccccccce
Confidence 53 33444555666544433
No 282
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=94.86 E-value=0.19 Score=60.15 Aligned_cols=71 Identities=23% Similarity=0.251 Sum_probs=52.0
Q ss_pred CCCHHHHHHHHHHHh--CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILG--CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~--~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.+++.|.+++..... ..+...++|.+.=|=|||..+=-.+..+.......+|.|+|||-.|++.+.+-+.+
T Consensus 211 ~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~ 283 (758)
T COG1444 211 CLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGK 283 (758)
T ss_pred hcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHHH
Confidence 678889888775532 22223799999999999988764553333322246999999999999999887765
No 283
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=94.86 E-value=0.18 Score=55.27 Aligned_cols=48 Identities=15% Similarity=0.270 Sum_probs=32.7
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc--CCCEEEEec-CCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT--KQTVVVLAG-DPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~lVLvG-Dp~QL~PvI~s~ 589 (806)
+.+.+||||+| ..++....-.|..... +.+.+||+. ++.+|.|+|.|.
T Consensus 123 ~~~kVvII~~a-e~m~~~aaNaLLK~LEEPp~~~fILi~~~~~~Ll~TI~SR 173 (314)
T PRK07399 123 APRKVVVIEDA-ETMNEAAANALLKTLEEPGNGTLILIAPSPESLLPTIVSR 173 (314)
T ss_pred CCceEEEEEch-hhcCHHHHHHHHHHHhCCCCCeEEEEECChHhCcHHHHhh
Confidence 36799999999 6666655555544332 234566655 888999998875
No 284
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.85 E-value=0.035 Score=62.71 Aligned_cols=69 Identities=22% Similarity=0.295 Sum_probs=54.0
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHH-HHHHHHHHHHhCC----------CCeEEEEecchHHHHHHHHH
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMT-LVEAILQVYSTRE----------HSRILVCAASNSAADHMLER 467 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~t-lv~~i~qll~~~~----------~~rILv~apSN~Aad~l~er 467 (806)
...++-|+.++..+...++ .+..|+-|+|||.. +.=++.++++..+ .-+.|++|||+..|+.+.++
T Consensus 95 ~~ptpvQk~sip~i~~Grd---l~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~ne 171 (482)
T KOG0335|consen 95 TKPTPVQKYSIPIISGGRD---LMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNE 171 (482)
T ss_pred cCCCcceeeccceeecCCc---eEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHH
Confidence 3678999999988887544 59999999999976 4445555655421 36899999999999999888
Q ss_pred Hhc
Q 038509 468 LIS 470 (806)
Q Consensus 468 L~~ 470 (806)
-.+
T Consensus 172 a~k 174 (482)
T KOG0335|consen 172 ARK 174 (482)
T ss_pred HHh
Confidence 765
No 285
>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=94.84 E-value=0.064 Score=59.19 Aligned_cols=77 Identities=18% Similarity=0.264 Sum_probs=43.3
Q ss_pred chhHHHHHHHHHHhhccCCceecCCCCcccccccCCCCCCCC----CCCHHHHHHHHHHHh-----CCCCCCEEEEcCCC
Q 038509 358 RINMRRMYQAVQAAENLEPNLLFPSQSTKRRSIKAAPFVPFN----SLNEEQTRSVEIILG-----CKGAPPYVIYGPPG 428 (806)
Q Consensus 358 r~~~~r~~~Al~~~~~l~~~~lfp~~~~~~~~~~~~~~~~~~----~LN~eQ~~AV~~il~-----~~~~~~~lI~GPPG 428 (806)
|..++|++.|+.... ..+..++.... ..+..|. .+++...+.|..+-. .....++++.||||
T Consensus 18 ~~a~qr~~dmI~~~g--~~~~~~~~~~~-------~~y~~F~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPG 88 (361)
T smart00763 18 ANAHQRLLDMIGEAG--VEDVVENNRGI-------KRYRFFDHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVG 88 (361)
T ss_pred HHHHHHHHHHHhccC--cEEeccCCcce-------eeccccchhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCC
Confidence 566777888875422 12333332221 1122222 566666666655432 11235789999999
Q ss_pred CChHHHHHHHHHHHHH
Q 038509 429 TGKTMTLVEAILQVYS 444 (806)
Q Consensus 429 TGKT~tlv~~i~qll~ 444 (806)
||||+ ++++++..+.
T Consensus 89 sGKSt-la~~La~~l~ 103 (361)
T smart00763 89 GGKSS-LVECLKRGLE 103 (361)
T ss_pred CCHHH-HHHHHHHHHh
Confidence 99997 4566665554
No 286
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=94.77 E-value=0.055 Score=64.10 Aligned_cols=42 Identities=21% Similarity=0.301 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
.+.++|.+.+..++... .+.++|.||.|||||||+...+..+
T Consensus 299 g~~~~~~~~l~~~~~~~-~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKP-QGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCCHHHHHHHHHHHHhc-CCeEEEECCCCCCHHHHHHHHHHhh
Confidence 67899999998877533 3679999999999999997766654
No 287
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=94.72 E-value=0.16 Score=56.13 Aligned_cols=48 Identities=23% Similarity=0.232 Sum_probs=33.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEec-CCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAG-DPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvG-Dp~QL~PvI~s~ 589 (806)
+.+.++|||+| +.+.++..-.|.+... +++.+||+. ++.+|.|+|.|.
T Consensus 131 ~~~kV~iI~~a-e~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SR 182 (342)
T PRK06964 131 GGARVVVLYPA-EALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSR 182 (342)
T ss_pred CCceEEEEech-hhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhc
Confidence 56899999999 6666666665554432 244566655 568899999874
No 288
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=94.69 E-value=0.14 Score=56.49 Aligned_cols=48 Identities=19% Similarity=0.209 Sum_probs=33.8
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc-C--CCEEEEecC-CCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT-K--QTVVVLAGD-PKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~-~--~~~lVLvGD-p~QL~PvI~s~ 589 (806)
+.+.++|||+| +.++.+.--.|.+... + ++-++|+-+ +.+|.|+|.|.
T Consensus 107 g~~kV~iI~~a-e~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSR 158 (334)
T PRK07993 107 GGAKVVWLPDA-ALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSR 158 (334)
T ss_pred CCceEEEEcch-HhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhc
Confidence 46799999999 6666666666554432 2 445666555 68899999875
No 289
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.63 E-value=0.022 Score=60.80 Aligned_cols=24 Identities=46% Similarity=0.702 Sum_probs=18.8
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
..++++||||||||+ ++.+++|-+
T Consensus 178 RliLlhGPPGTGKTS-LCKaLaQkL 201 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTS-LCKALAQKL 201 (423)
T ss_pred eEEEEeCCCCCChhH-HHHHHHHhh
Confidence 458999999999997 566666654
No 290
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=94.61 E-value=0.11 Score=58.17 Aligned_cols=69 Identities=20% Similarity=0.367 Sum_probs=43.9
Q ss_pred CHHHHHHHHHHHh----CCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCC-eEEEEecchHHHHHHHHHHhc
Q 038509 402 NEEQTRSVEIILG----CKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHS-RILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 402 N~eQ~~AV~~il~----~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~-rILv~apSN~Aad~l~erL~~ 470 (806)
=++|.+.+..++. ...+.-.+|.|+||||||.|+-..+.++....+.. -+-|=|..+.--..+..++.+
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence 4566666665553 22222389999999999999888887776543333 344545555555566666654
No 291
>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=94.61 E-value=0.06 Score=56.49 Aligned_cols=49 Identities=14% Similarity=0.160 Sum_probs=36.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.||||||||+.....+...++ .+.++++++..- ..+.+.+++..
T Consensus 22 s~~lI~G~pGsGKT~la~~~l~~~~~--~ge~~lyvs~ee-~~~~i~~~~~~ 70 (237)
T TIGR03877 22 NVVLLSGGPGTGKSIFSQQFLWNGLQ--MGEPGIYVALEE-HPVQVRRNMAQ 70 (237)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHH--cCCcEEEEEeeC-CHHHHHHHHHH
Confidence 35899999999999988777766554 468999999765 44556666553
No 292
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=94.60 E-value=0.049 Score=58.74 Aligned_cols=37 Identities=22% Similarity=0.383 Sum_probs=28.3
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+++.||.|+|||||++..+.++.....+.+|.+++.
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 5789999999999999988887765323467766654
No 293
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.57 E-value=0.075 Score=58.48 Aligned_cols=36 Identities=22% Similarity=0.318 Sum_probs=28.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
..++++||||||||+.+..++.+++. .+.+|++++.
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~--~g~~V~y~t~ 219 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLD--RGKSVIYRTA 219 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH--CCCeEEEEEH
Confidence 56999999999999987777777765 4577877664
No 294
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=94.53 E-value=0.076 Score=58.75 Aligned_cols=45 Identities=27% Similarity=0.304 Sum_probs=30.0
Q ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCC-CeEEEEecchHHHHHHHH
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYSTREH-SRILVCAASNSAADHMLE 466 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~~~~~-~rILv~apSN~Aad~l~e 466 (806)
+|.||+|+|||++++..+...+...++ ..+++++.+..|.+.+..
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~~~~~~~~~~~~~ 46 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIASTYRQARDIFGR 46 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEEESSHHHHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEecCHHHHHHHHHH
Confidence 588999999999988877766665565 677777666666666444
No 295
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.52 E-value=0.21 Score=58.22 Aligned_cols=51 Identities=16% Similarity=0.296 Sum_probs=38.9
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecchHHHHHHHHHHhcc
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
+..++|.|.-|+||||-+-.-+ ++.+ ...+|.++-|-+-||-.++.|....
T Consensus 66 nqvlIviGeTGsGKSTQipQyL---~eaG~~~~g~I~~TQPRRVAavslA~RVAeE 118 (674)
T KOG0922|consen 66 NQVLIVIGETGSGKSTQIPQYL---AEAGFASSGKIACTQPRRVAAVSLAKRVAEE 118 (674)
T ss_pred CCEEEEEcCCCCCccccHhHHH---HhcccccCCcEEeecCchHHHHHHHHHHHHH
Confidence 4568999999999999765433 2222 2334888889999999999999874
No 296
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=94.51 E-value=0.15 Score=55.85 Aligned_cols=48 Identities=17% Similarity=0.274 Sum_probs=33.6
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcc-c--CCCEEEEe-cCCCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLC-T--KQTVVVLA-GDPKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~-~--~~~~lVLv-GDp~QL~PvI~s~ 589 (806)
+.+.++|||+| +.+..+..-+|.+.. . .++.+||+ -++.+|.|+|.|.
T Consensus 107 ~~~kV~iI~~a-e~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SR 158 (319)
T PRK06090 107 NGYRLFVIEPA-DAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSR 158 (319)
T ss_pred CCceEEEecch-hhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhc
Confidence 46799999999 666666666555443 2 23556666 5578999999875
No 297
>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=94.51 E-value=0.046 Score=55.71 Aligned_cols=35 Identities=29% Similarity=0.435 Sum_probs=24.3
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEE
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVC 454 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ 454 (806)
+.++|.||+||||||++...+..+.. ..+.+|+..
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~-~~~~~i~t~ 36 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINK-NKTHHILTI 36 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhh-cCCcEEEEE
Confidence 45899999999999998766555433 223455543
No 298
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=94.48 E-value=0.19 Score=56.94 Aligned_cols=49 Identities=14% Similarity=0.291 Sum_probs=37.6
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEecchH-HHHHHHHHHh
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCAASNS-AADHMLERLI 469 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~apSN~-Aad~l~erL~ 469 (806)
.++.|+.|||||.+++..+...+... ++.+++++.++.. ..+.+...+.
T Consensus 4 ~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~ 54 (396)
T TIGR01547 4 IIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIE 54 (396)
T ss_pred EEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHH
Confidence 68899999999999887777666554 7899999999866 5555555444
No 299
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=94.46 E-value=0.13 Score=62.46 Aligned_cols=70 Identities=21% Similarity=0.285 Sum_probs=55.7
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHH-HHHhC-----CCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQ-VYSTR-----EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~q-ll~~~-----~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+..+++.|+.|+..|.... .+||.+|-|||||-+..--+.. +++.. .+-.+|++||=.+....+..||..
T Consensus 20 ~~~~t~~Q~~a~~~i~~G~---nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~ 95 (814)
T COG1201 20 FTSLTPPQRYAIPEIHSGE---NVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE 95 (814)
T ss_pred cCCCCHHHHHHHHHHhCCC---ceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 4489999999999999643 3799999999999886555443 44441 235789999999999999999976
No 300
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=94.46 E-value=0.07 Score=59.63 Aligned_cols=36 Identities=22% Similarity=0.241 Sum_probs=27.0
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILV 453 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv 453 (806)
.+.++|.||+||||||++...+.++....+..+|+.
T Consensus 149 ~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 356899999999999999877766655434456654
No 301
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=94.46 E-value=0.047 Score=58.92 Aligned_cols=24 Identities=33% Similarity=0.526 Sum_probs=17.7
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
++++.||||||||+++. ++.+.+.
T Consensus 60 ~vll~G~pGTGKT~lA~-~ia~~l~ 83 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVAL-RMAQILH 83 (284)
T ss_pred eEEEEcCCCCCHHHHHH-HHHHHHH
Confidence 68999999999998654 4444443
No 302
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=94.42 E-value=0.074 Score=55.14 Aligned_cols=49 Identities=20% Similarity=0.232 Sum_probs=38.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.|+||+|||+.....+...++ .+.++++++... ..+.+.+++..
T Consensus 17 ~~~li~G~~G~GKt~~~~~~~~~~~~--~g~~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 17 HVIVVIGEYGTGKTTFSLQFLYQGLK--NGEKAMYISLEE-REERILGYAKS 65 (224)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHh--CCCeEEEEECCC-CHHHHHHHHHH
Confidence 35899999999999988877776665 368899988866 46777777754
No 303
>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=94.40 E-value=0.061 Score=58.70 Aligned_cols=39 Identities=15% Similarity=0.247 Sum_probs=29.7
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~ 440 (806)
.++++-..+|...+... .+++|.||||||||+.+...+.
T Consensus 48 ~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~ 86 (327)
T TIGR01650 48 LFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAA 86 (327)
T ss_pred cCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHH
Confidence 67888888888777543 4699999999999986554443
No 304
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=94.40 E-value=0.083 Score=59.88 Aligned_cols=64 Identities=22% Similarity=0.368 Sum_probs=51.3
Q ss_pred CHHHHHHHHHHHhC--CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 402 NEEQTRSVEIILGC--KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 402 N~eQ~~AV~~il~~--~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
...|-+||..+... .+...-.+.|.-|||||.|++..|.++ +..-||+||+...|..|..-+.+
T Consensus 14 aGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~-----~rPtLV~AhNKTLAaQLy~Efk~ 79 (663)
T COG0556 14 AGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV-----QRPTLVLAHNKTLAAQLYSEFKE 79 (663)
T ss_pred CCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh-----CCCeEEEecchhHHHHHHHHHHH
Confidence 45688888887642 223346899999999999999988875 35679999999999999888875
No 305
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=94.39 E-value=0.22 Score=61.59 Aligned_cols=66 Identities=17% Similarity=0.298 Sum_probs=55.2
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.|++.|++|+..+-... -++|.+|-|+|||.+.-.+|.+.++ .+.|+.++||..+..+.....+..
T Consensus 119 ~LD~fQ~~a~~~Ler~e---sVlV~ApTssGKTvVaeyAi~~al~--~~qrviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 119 ELDPFQQEAIAILERGE---SVLVCAPTSSGKTVVAEYAIALALR--DGQRVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred CcCHHHHHHHHHHhCCC---cEEEEccCCCCcchHHHHHHHHHHH--cCCceEeccchhhhhhhHHHHHHH
Confidence 79999999998776533 3799999999999998888887776 457899999998888887777765
No 306
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=94.35 E-value=0.18 Score=58.56 Aligned_cols=131 Identities=15% Similarity=0.179 Sum_probs=79.3
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcccccCcccccEEEcccCCCCCCCCChhhhh
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVAGIKENEILRLNATSRPYEDVPTDFIR 500 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~ 500 (806)
.+-.=|=--|||..++-+|.-+++.-.+-+|.++|+-+.++.-+.+.+... ..|+....+. ......
T Consensus 205 TVFLVPRRHGKTWf~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~---------lrrwF~~~~v-i~~k~~--- 271 (668)
T PHA03372 205 TVFLVPRRHGKTWFIIPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFR---------CRRMFPRKHT-IENKDN--- 271 (668)
T ss_pred eEEEecccCCceehHHHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHH---------HhhhcCccce-eeecCc---
Confidence 355558889999999999999998778899999999999988776666431 1111111110 000000
Q ss_pred hhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCCCCcchhHHHHHh-hcccCCCEEEEecCC
Q 038509 501 FCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAGQASEPESMIPIA-NLCTKQTVVVLAGDP 579 (806)
Q Consensus 501 ~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAsQ~~epe~li~L~-~l~~~~~~lVLvGDp 579 (806)
.-.+..|. .+..++.++|... ...+...|+.+||||| .-..|+.+..+. .+..+++++|.+--+
T Consensus 272 -----tI~~s~pg----~Kst~~fasc~n~-----NsiRGQ~fnll~VDEA-~FI~~~a~~tilgfm~q~~~KiIfISS~ 336 (668)
T PHA03372 272 -----VISIDHRG----AKSTALFASCYNT-----NSIRGQNFHLLLVDEA-HFIKKDAFNTILGFLAQNTTKIIFISST 336 (668)
T ss_pred -----EEEEecCC----CcceeeehhhccC-----ccccCCCCCEEEEehh-hccCHHHHHHhhhhhcccCceEEEEeCC
Confidence 00111111 1123344444333 3445668999999999 666666665544 345566778877544
No 307
>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=94.34 E-value=0.096 Score=54.92 Aligned_cols=51 Identities=25% Similarity=0.365 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhCCCCCC-EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 403 EEQTRSVEIILGCKGAPP-YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 403 ~eQ~~AV~~il~~~~~~~-~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
++-.++++.+....+... +=|+||||.||+|.+-+.+..+.+ .+.+|-|+|
T Consensus 13 ~~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~--~g~~VaVlA 64 (266)
T PF03308_consen 13 PEARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRE--RGKRVAVLA 64 (266)
T ss_dssp HHHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHH--TT--EEEEE
T ss_pred HHHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhh--cCCceEEEE
Confidence 344456666665433333 459999999999988888877776 456655544
No 308
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=94.34 E-value=0.12 Score=63.93 Aligned_cols=69 Identities=19% Similarity=0.260 Sum_probs=55.1
Q ss_pred CCCHHHHHHHHHHHhC-CCCCC--EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGC-KGAPP--YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~-~~~~~--~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++.|..||..+... ....| =||.|--|=|||-++..++-..+. .+++|.|++||--.|..-.+.+.+
T Consensus 594 eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~--~GKQVAvLVPTTlLA~QHy~tFke 665 (1139)
T COG1197 594 EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM--DGKQVAVLVPTTLLAQQHYETFKE 665 (1139)
T ss_pred cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc--CCCeEEEEcccHHhHHHHHHHHHH
Confidence 6799999999999752 11223 399999999999999988876665 569999999999998876666554
No 309
>CHL00181 cbbX CbbX; Provisional
Probab=94.33 E-value=0.055 Score=58.49 Aligned_cols=23 Identities=30% Similarity=0.413 Sum_probs=17.0
Q ss_pred CEEEEcCCCCChHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
++++.||||||||+++...+..+
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~ 83 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADIL 83 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 47999999999998654444433
No 310
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=94.33 E-value=0.047 Score=54.62 Aligned_cols=35 Identities=29% Similarity=0.420 Sum_probs=25.8
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
|.++|.|..||||||+|-+.+. ....+.++.++..
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~---~~~~~~~~~vI~n 35 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK---RNRQGERVAVIVN 35 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH---HHTTTS-EEEEEC
T ss_pred CEEEEEcCCCCCHHHHHHHHHH---HhcCCceeEEEEc
Confidence 4579999999999999877665 3346788887764
No 311
>PRK06921 hypothetical protein; Provisional
Probab=94.31 E-value=0.07 Score=57.03 Aligned_cols=38 Identities=24% Similarity=0.352 Sum_probs=29.1
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
...++++||||||||+.+..++.++... .+..++.++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~-~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRK-KGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhh-cCceEEEEEH
Confidence 3468999999999999887777777653 2567777775
No 312
>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=94.31 E-value=0.06 Score=54.82 Aligned_cols=38 Identities=39% Similarity=0.643 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 403 EEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 403 ~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
+.-+.|+.-+.... ..+++.||||||||+ ++.++..++
T Consensus 9 e~aKrAL~iAAaG~--h~lLl~GppGtGKTm-lA~~l~~lL 46 (206)
T PF01078_consen 9 EEAKRALEIAAAGG--HHLLLIGPPGTGKTM-LARRLPSLL 46 (206)
T ss_dssp HHHHHHHHHHHHCC----EEEES-CCCTHHH-HHHHHHHCS
T ss_pred HHHHHHHHHHHcCC--CCeEEECCCCCCHHH-HHHHHHHhC
Confidence 44566666555433 349999999999997 456666655
No 313
>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=94.31 E-value=0.12 Score=64.53 Aligned_cols=64 Identities=22% Similarity=0.327 Sum_probs=45.7
Q ss_pred CCCHHHHHHHHH---HHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHH
Q 038509 400 SLNEEQTRSVEI---ILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLER 467 (806)
Q Consensus 400 ~LN~eQ~~AV~~---il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~er 467 (806)
+..+.|.+.+.. .+.. ....+|.+|.|||||..-.-.+..... .+.+|+|.|||....+.+..+
T Consensus 245 ~~r~~Q~~~~~~i~~~~~~--~~~~~~eA~TG~GKT~ayLlp~~~~~~--~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 245 EYRPEQLKLAELVLDQLTH--SEKSLIEAPTGTGKTLGYLLPALYYAI--TEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred ccCHHHHHHHHHHHHHhcc--CCcEEEECCCCCchhHHHHHHHHHHhc--CCCeEEEEeCcHHHHHHHHHH
Confidence 356889975554 4432 245899999999999765544443333 567999999999988887653
No 314
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=94.25 E-value=0.1 Score=58.54 Aligned_cols=70 Identities=20% Similarity=0.329 Sum_probs=52.5
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHH-HHHHHHHHHHhC----CCCeEEEEecchHHHHHHHHHHhc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMT-LVEAILQVYSTR----EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~t-lv~~i~qll~~~----~~~rILv~apSN~Aad~l~erL~~ 470 (806)
|..+++-|.+.+.-++..++ ++..+--|||||.. ++-++..+++.. ++-.++|++||+..|-.+..-+.+
T Consensus 102 F~~MT~VQ~~ti~pll~gkD---vl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~ 176 (543)
T KOG0342|consen 102 FETMTPVQQKTIPPLLEGKD---VLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKE 176 (543)
T ss_pred ccchhHHHHhhcCccCCCcc---ceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHH
Confidence 45789999999888887553 69999999999976 344444444432 456799999999998887665544
No 315
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=94.23 E-value=0.44 Score=57.39 Aligned_cols=164 Identities=18% Similarity=0.172 Sum_probs=89.5
Q ss_pred CCCHHHHHHHHHHHhC---C----CCCCEEEEcCCCCChHHHHHHHHHHHHHhCCC-----CeEEEEecchHHHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGC---K----GAPPYVIYGPPGTGKTMTLVEAILQVYSTREH-----SRILVCAASNSAADHMLER 467 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~---~----~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~-----~rILv~apSN~Aad~l~er 467 (806)
.|-+.|++.++.+-.+ . +..=+++.=-||+|||.-++..+.-+++..|. .+.||++|+-- +.+=.+-
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sL-v~nWkkE 316 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSL-VNNWKKE 316 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHH-HHHHHHH
Confidence 7999999999976431 1 22236777789999999999999999998899 99999999633 3332333
Q ss_pred HhcccccCcc-cccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEE
Q 038509 468 LISNEVAGIK-ENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHI 546 (806)
Q Consensus 468 L~~~~~~~~~-~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~V 546 (806)
+.+- ... .-..+.+...... .+.+...+-...+. .-...|.+....++. .....+....++.+
T Consensus 317 F~KW---l~~~~i~~l~~~~~~~~------~w~~~~sil~~~~~------~~~~~vli~sye~~~-~~~~~il~~~~glL 380 (776)
T KOG0390|consen 317 FGKW---LGNHRINPLDFYSTKKS------SWIKLKSILFLGYK------QFTTPVLIISYETAS-DYCRKILLIRPGLL 380 (776)
T ss_pred HHHh---ccccccceeeeecccch------hhhhhHHHHHhhhh------heeEEEEeccHHHHH-HHHHHHhcCCCCeE
Confidence 3221 111 1122233222221 01110000000000 000111222222211 11233445678999
Q ss_pred EEecCCCCcch--hHHHHHhhcccCCCEEEEecCCCC
Q 038509 547 FLDEAGQASEP--ESMIPIANLCTKQTVVVLAGDPKQ 581 (806)
Q Consensus 547 iIDEAsQ~~ep--e~li~L~~l~~~~~~lVLvGDp~Q 581 (806)
|.||+-.--+- ..+.+|..+-. ..||+|-|=|.|
T Consensus 381 VcDEGHrlkN~~s~~~kaL~~l~t-~rRVLLSGTp~Q 416 (776)
T KOG0390|consen 381 VCDEGHRLKNSDSLTLKALSSLKT-PRRVLLTGTPIQ 416 (776)
T ss_pred EECCCCCccchhhHHHHHHHhcCC-CceEEeeCCccc
Confidence 99999433332 23455554433 358999999999
No 316
>PRK04328 hypothetical protein; Provisional
Probab=94.23 E-value=0.079 Score=56.04 Aligned_cols=49 Identities=14% Similarity=0.165 Sum_probs=36.9
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.||||||||+.....+.+-++ .+.++++++......+ +.+++.+
T Consensus 24 s~ili~G~pGsGKT~l~~~fl~~~~~--~ge~~lyis~ee~~~~-i~~~~~~ 72 (249)
T PRK04328 24 NVVLLSGGPGTGKSIFSQQFLWNGLQ--MGEPGVYVALEEHPVQ-VRRNMRQ 72 (249)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHh--cCCcEEEEEeeCCHHH-HHHHHHH
Confidence 35899999999999988877776654 4688899987666555 5555543
No 317
>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=94.22 E-value=0.16 Score=61.11 Aligned_cols=47 Identities=17% Similarity=0.127 Sum_probs=35.8
Q ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+...+.|+|||.+.+-.+. +....+..++|+|||.-.|....+-+..
T Consensus 73 Iaem~TGeGKTLva~lpa~--l~aL~G~~V~VvTpt~~LA~qdae~~~~ 119 (745)
T TIGR00963 73 IAEMKTGEGKTLTATLPAY--LNALTGKGVHVVTVNDYLAQRDAEWMGQ 119 (745)
T ss_pred eeeecCCCccHHHHHHHHH--HHHHhCCCEEEEcCCHHHHHHHHHHHHH
Confidence 8999999999987654442 2222467899999999999888876654
No 318
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.20 E-value=0.11 Score=56.70 Aligned_cols=36 Identities=17% Similarity=0.181 Sum_probs=28.2
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
..++++||||||||+.+..++.++.. .+.++.++..
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l~~--~g~~v~~~~~ 192 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANELAK--KGVSSTLLHF 192 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH--cCCCEEEEEH
Confidence 35899999999999998888877775 4566666654
No 319
>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=94.19 E-value=0.086 Score=53.94 Aligned_cols=37 Identities=24% Similarity=0.429 Sum_probs=29.6
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecch
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASN 458 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN 458 (806)
.+.|.||||||||+.....+..... .+.++++++..+
T Consensus 14 i~~i~G~~GsGKT~l~~~~~~~~~~--~g~~v~yi~~e~ 50 (209)
T TIGR02237 14 ITQIYGPPGSGKTNICMILAVNAAR--QGKKVVYIDTEG 50 (209)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHh--CCCeEEEEECCC
Confidence 5899999999999998887777665 357777777754
No 320
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=94.18 E-value=0.041 Score=51.03 Aligned_cols=22 Identities=36% Similarity=0.427 Sum_probs=16.9
Q ss_pred EEEEcCCCCChHHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~ql 442 (806)
++|.|+|||||||++-++..++
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 4799999999998766555443
No 321
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.12 E-value=0.065 Score=58.74 Aligned_cols=34 Identities=24% Similarity=0.365 Sum_probs=26.4
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.+.+.||+|+|||||++..+..+.. .+.+|++++
T Consensus 116 vi~lvGpnGsGKTTt~~kLA~~l~~--~g~~V~Li~ 149 (318)
T PRK10416 116 VILVVGVNGVGKTTTIGKLAHKYKA--QGKKVLLAA 149 (318)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHh--cCCeEEEEe
Confidence 4678999999999999888876653 356777654
No 322
>PHA02533 17 large terminase protein; Provisional
Probab=94.09 E-value=0.66 Score=54.48 Aligned_cols=68 Identities=16% Similarity=0.117 Sum_probs=53.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.|++.|+..+..+... ...+|.=|=..|||++++..+.......++.+++++|++...|..+.+++..
T Consensus 59 ~L~p~Q~~i~~~~~~~---R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~ 126 (534)
T PHA02533 59 QMRDYQKDMLKIMHKN---RFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQ 126 (534)
T ss_pred CCcHHHHHHHHHHhcC---eEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 5899999998876432 2357889999999999886655444445778999999999999999888764
No 323
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=94.07 E-value=0.12 Score=55.09 Aligned_cols=47 Identities=21% Similarity=0.257 Sum_probs=32.5
Q ss_pred HHHHHHHhCCCCCC-EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 407 RSVEIILGCKGAPP-YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 407 ~AV~~il~~~~~~~-~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
+++..+....+.++ +=|+|+||.||+|.+-..+.++.. .+.||-|+|
T Consensus 39 ~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~--~G~rVaVlA 86 (323)
T COG1703 39 ELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRE--RGHRVAVLA 86 (323)
T ss_pred HHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHH--CCcEEEEEE
Confidence 45555554444443 459999999999988777777765 467766554
No 324
>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=94.01 E-value=0.094 Score=54.91 Aligned_cols=48 Identities=21% Similarity=0.307 Sum_probs=37.8
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
.++|.|+||||||+.+...+.+++.. .+.++++++.-..+. ++.+|+.
T Consensus 15 l~lI~G~~G~GKT~~~~~~~~~~~~~-~g~~vly~s~E~~~~-~~~~r~~ 62 (242)
T cd00984 15 LIIIAARPSMGKTAFALNIAENIAKK-QGKPVLFFSLEMSKE-QLLQRLL 62 (242)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHHh-CCCceEEEeCCCCHH-HHHHHHH
Confidence 68999999999999999988888764 268999999866555 4445554
No 325
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.01 E-value=0.28 Score=58.56 Aligned_cols=40 Identities=25% Similarity=0.308 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHhCCCC-CCEEEEcCCCCChHHHHHHHHHHH
Q 038509 403 EEQTRSVEIILGCKGA-PPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 403 ~eQ~~AV~~il~~~~~-~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
+.-.+.+...+..... ..+|+.||||+|||+++-..+..+
T Consensus 22 ~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l 62 (585)
T PRK14950 22 EHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAV 62 (585)
T ss_pred HHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence 3334444444443322 247999999999998765554444
No 326
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=93.98 E-value=0.077 Score=54.70 Aligned_cols=35 Identities=26% Similarity=0.501 Sum_probs=28.4
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.++|.|+||||||+.....+.+... .+.++++++.
T Consensus 21 i~~i~G~~GsGKT~l~~~~a~~~~~--~g~~v~yi~~ 55 (218)
T cd01394 21 VTQVYGPPGTGKTNIAIQLAVETAG--QGKKVAYIDT 55 (218)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEEC
Confidence 5899999999999999888887765 3567877753
No 327
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=93.97 E-value=0.16 Score=61.82 Aligned_cols=47 Identities=17% Similarity=0.179 Sum_probs=37.2
Q ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+....-|+|||.+.+-.+. +....+..++|+|||...|....+.+..
T Consensus 95 Iaem~TGeGKTL~a~lp~~--l~al~G~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 95 IAEMQTGEGKTLTATMPLY--LNALEGKGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred eeeecCCCcchHHHHHHHH--HHHHcCCCeEEEeCCHHHHHHHHHHHHH
Confidence 9999999999987655443 2223578999999999999888887654
No 328
>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=93.97 E-value=0.074 Score=52.78 Aligned_cols=45 Identities=18% Similarity=0.209 Sum_probs=34.7
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
++|.||||||||+.....+.. .+.++++++-....-+++.+|+..
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHHHHHHHHH
Confidence 689999999999876554432 346888888777777788888765
No 329
>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=93.96 E-value=0.092 Score=56.05 Aligned_cols=50 Identities=20% Similarity=0.240 Sum_probs=38.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.||||+|||+.+...+.+++.. .+.++++++.-.. .+.+..|+..
T Consensus 31 ~~~~i~g~~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~~-~~~~~~r~~~ 80 (271)
T cd01122 31 ELIILTAGTGVGKTTFLREYALDLITQ-HGVRVGTISLEEP-VVRTARRLLG 80 (271)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHHh-cCceEEEEEcccC-HHHHHHHHHH
Confidence 468999999999999998888877653 2688999987654 4566677654
No 330
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=93.95 E-value=0.11 Score=54.20 Aligned_cols=49 Identities=20% Similarity=0.338 Sum_probs=37.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.|+||||||+.....+...++ .+.++++++..+.. +.+.+++.+
T Consensus 26 ~~~~i~G~~GsGKt~l~~~~~~~~~~--~g~~~~y~~~e~~~-~~~~~~~~~ 74 (234)
T PRK06067 26 SLILIEGDHGTGKSVLSQQFVYGALK--QGKKVYVITTENTS-KSYLKQMES 74 (234)
T ss_pred cEEEEECCCCCChHHHHHHHHHHHHh--CCCEEEEEEcCCCH-HHHHHHHHH
Confidence 46899999999999988777666655 46899999987665 456666554
No 331
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=93.93 E-value=0.1 Score=57.04 Aligned_cols=47 Identities=21% Similarity=0.257 Sum_probs=34.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLER 467 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~er 467 (806)
..+.|.||||||||+.....+.+..+ .+.+++++..-+..-....++
T Consensus 56 ~iteI~G~~GsGKTtLaL~~~~~~~~--~g~~v~yId~E~~~~~~~a~~ 102 (321)
T TIGR02012 56 RIIEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDPVYARK 102 (321)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEEcccchhHHHHHHH
Confidence 36899999999999998888887776 457777776655544443333
No 332
>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=93.83 E-value=0.041 Score=52.37 Aligned_cols=17 Identities=35% Similarity=0.813 Sum_probs=14.3
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
+++.|||||||||.+..
T Consensus 2 ii~~G~pgsGKSt~a~~ 18 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKR 18 (143)
T ss_dssp EEEEESTTSSHHHHHHH
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999987443
No 333
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.74 E-value=0.37 Score=57.58 Aligned_cols=46 Identities=15% Similarity=0.262 Sum_probs=27.5
Q ss_pred CCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEecC-CCCCCceeec
Q 038509 542 NFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAGD-PKQLGPVIYS 588 (806)
Q Consensus 542 ~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvGD-p~QL~PvI~s 588 (806)
.+.+|||||| +.+..+....|..... ....+||+-+ ...|.|.|.|
T Consensus 121 ~~KVvIIdea-~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~S 170 (614)
T PRK14971 121 KYKIYIIDEV-HMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILS 170 (614)
T ss_pred CcEEEEEECc-ccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHh
Confidence 5789999999 5555555555544332 3456777665 3445555443
No 334
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=93.73 E-value=0.093 Score=54.41 Aligned_cols=36 Identities=25% Similarity=0.494 Sum_probs=29.4
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS 457 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS 457 (806)
.++|.||||||||+.+...+.+.++ .+.++++++.-
T Consensus 25 i~~i~G~~GsGKT~l~~~la~~~~~--~~~~v~yi~~e 60 (225)
T PRK09361 25 ITQIYGPPGSGKTNICLQLAVEAAK--NGKKVIYIDTE 60 (225)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEECC
Confidence 5899999999999999888887775 35777777664
No 335
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=93.71 E-value=0.086 Score=59.57 Aligned_cols=20 Identities=50% Similarity=0.977 Sum_probs=15.7
Q ss_pred CEEEEcCCCCChHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~ 440 (806)
-++++||||||||+++ .+++
T Consensus 167 gvLL~GppGtGKT~lA-kaia 186 (389)
T PRK03992 167 GVLLYGPPGTGKTLLA-KAVA 186 (389)
T ss_pred ceEEECCCCCChHHHH-HHHH
Confidence 3899999999999864 4443
No 336
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=93.67 E-value=0.12 Score=53.89 Aligned_cols=37 Identities=24% Similarity=0.346 Sum_probs=28.1
Q ss_pred cEEEEecCCCCcchhHHHHHhhcccC------CCEEEEecCCCC
Q 038509 544 SHIFLDEAGQASEPESMIPIANLCTK------QTVVVLAGDPKQ 581 (806)
Q Consensus 544 d~ViIDEAsQ~~epe~li~L~~l~~~------~~~lVLvGDp~Q 581 (806)
-+++|||| |+...+.+..|..+... .-+++|+|-|+=
T Consensus 133 v~l~vdEa-h~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L 175 (269)
T COG3267 133 VVLMVDEA-HDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKL 175 (269)
T ss_pred eEEeehhH-hhhChhHHHHHHHHHhhcccccCceeeeecCCccc
Confidence 68999999 98888888888866432 125888887764
No 337
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.66 E-value=0.09 Score=60.00 Aligned_cols=37 Identities=22% Similarity=0.305 Sum_probs=27.7
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+++.||+|+|||||++..+..+.....+.+|.+++.
T Consensus 223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 4788999999999999988877752234567765554
No 338
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=93.66 E-value=0.47 Score=51.08 Aligned_cols=48 Identities=17% Similarity=0.345 Sum_probs=34.2
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEecCC-CCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAGDP-KQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvGDp-~QL~PvI~s~ 589 (806)
+.+.++|||+| +.+.++..-.|.+... .++.++|+.+. .+|.|+|.|.
T Consensus 94 ~~~kv~ii~~a-d~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SR 145 (290)
T PRK05917 94 SPYKIYIIHEA-DRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSR 145 (290)
T ss_pred CCceEEEEech-hhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhc
Confidence 56899999999 7777766666655442 24567776665 7788888764
No 339
>PHA00729 NTP-binding motif containing protein
Probab=93.65 E-value=0.057 Score=55.84 Aligned_cols=23 Identities=35% Similarity=0.546 Sum_probs=18.1
Q ss_pred CEEEEcCCCCChHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
-++|+|+||||||+.....+.++
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDV 41 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 48999999999998766555544
No 340
>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=93.63 E-value=0.061 Score=63.48 Aligned_cols=46 Identities=22% Similarity=0.370 Sum_probs=36.8
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
..++|.|-+|+|||+.|..+. +. -.-||+..|..||.++..+|...
T Consensus 60 ~~ylITGtAGaGKStsIq~L~-~~------ldCviTGaT~vAaQNls~~L~~~ 105 (818)
T PF02689_consen 60 SVYLITGTAGAGKSTSIQTLA-EN------LDCVITGATVVAAQNLSSKLSRS 105 (818)
T ss_pred EEEEEeccCCCCccchHHHHH-hh------hCeEEecchhhhHhHHHHHhccc
Confidence 348999999999999765432 22 35799999999999999999853
No 341
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=93.57 E-value=0.15 Score=47.80 Aligned_cols=48 Identities=25% Similarity=0.223 Sum_probs=29.1
Q ss_pred EEcCCCCChHHHHHHHHHHHHHhCCC-CeEEEE-----ecchHHHHHHHHHHhc
Q 038509 423 IYGPPGTGKTMTLVEAILQVYSTREH-SRILVC-----AASNSAADHMLERLIS 470 (806)
Q Consensus 423 I~GPPGTGKT~tlv~~i~qll~~~~~-~rILv~-----apSN~Aad~l~erL~~ 470 (806)
..||||||||.+.--++..+++.+-. .-|... -|.+.-++...+.|.+
T Consensus 58 fHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~ 111 (127)
T PF06309_consen 58 FHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKS 111 (127)
T ss_pred eecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHH
Confidence 89999999999876666666764422 223221 1345555555555543
No 342
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=93.56 E-value=0.1 Score=63.00 Aligned_cols=41 Identities=34% Similarity=0.444 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHh----CCCCCC-EEEEcCCCCChHHHHHHHHHHHH
Q 038509 403 EEQTRSVEIILG----CKGAPP-YVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 403 ~eQ~~AV~~il~----~~~~~~-~lI~GPPGTGKT~tlv~~i~qll 443 (806)
++|.+.+..++. .....- ++|.|+||||||.|+-..+.+|.
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence 455556655543 222222 46999999999999888776654
No 343
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=93.53 E-value=0.088 Score=59.70 Aligned_cols=35 Identities=20% Similarity=0.180 Sum_probs=26.5
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+++.|++|+|||||++..+..+.+ .+.+|++++-
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~--~G~kV~lV~~ 136 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQR--KGFKPCLVCA 136 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH--CCCCEEEEcC
Confidence 4689999999999999988876653 3567665443
No 344
>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=93.51 E-value=0.13 Score=42.79 Aligned_cols=22 Identities=27% Similarity=0.360 Sum_probs=16.2
Q ss_pred EEEEcCCCCChHHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~ql 442 (806)
+.|.|+||||||+.+......+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999997655444433
No 345
>CHL00195 ycf46 Ycf46; Provisional
Probab=93.48 E-value=0.28 Score=56.90 Aligned_cols=22 Identities=36% Similarity=0.522 Sum_probs=17.0
Q ss_pred CEEEEcCCCCChHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
.+++.||||||||.++ .+++..
T Consensus 261 GILL~GPpGTGKTllA-kaiA~e 282 (489)
T CHL00195 261 GLLLVGIQGTGKSLTA-KAIAND 282 (489)
T ss_pred eEEEECCCCCcHHHHH-HHHHHH
Confidence 4899999999999754 555443
No 346
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.48 E-value=0.29 Score=55.56 Aligned_cols=69 Identities=17% Similarity=0.289 Sum_probs=52.4
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC-------CCCeEEEEecchHHHHHHHHHHhc
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR-------EHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-------~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++.-|+++|-.+|+.++ ++|.++-|||||..-+-=|.+.+... .+.=-||++||+..|-.+.+-+.+
T Consensus 158 ~~pTsVQkq~IP~lL~grD---~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qK 233 (708)
T KOG0348|consen 158 SAPTSVQKQAIPVLLEGRD---ALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQK 233 (708)
T ss_pred CccchHhhcchhhhhcCcc---eEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHH
Confidence 3788999999999998554 69999999999976555455555432 234569999999999887666554
No 347
>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=93.44 E-value=0.19 Score=54.99 Aligned_cols=43 Identities=23% Similarity=0.276 Sum_probs=32.8
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADH 463 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~ 463 (806)
..+.|.||||||||+.....+....+ .+.+++++.+-++.-..
T Consensus 56 ~iteI~Gp~GsGKTtLal~~~~~~~~--~g~~~vyId~E~~~~~~ 98 (325)
T cd00983 56 RIIEIYGPESSGKTTLALHAIAEAQK--LGGTVAFIDAEHALDPV 98 (325)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH--cCCCEEEECccccHHHH
Confidence 36899999999999998888887765 35677777765544433
No 348
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=93.42 E-value=0.066 Score=53.08 Aligned_cols=24 Identities=42% Similarity=0.648 Sum_probs=18.3
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
++|+|+||+||||.+...+.++-+
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~ 25 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKK 25 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHHHHhhc
Confidence 689999999999988776665543
No 349
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=93.42 E-value=0.15 Score=56.36 Aligned_cols=45 Identities=22% Similarity=0.240 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE
Q 038509 404 EQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILV 453 (806)
Q Consensus 404 eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv 453 (806)
.....+..++..+ ..++|.||+||||||++...+..+ .+..||+.
T Consensus 148 ~~~~~L~~~v~~~--~nili~G~tgSGKTTll~aL~~~i---p~~~ri~t 192 (332)
T PRK13900 148 KIKEFLEHAVISK--KNIIISGGTSTGKTTFTNAALREI---PAIERLIT 192 (332)
T ss_pred HHHHHHHHHHHcC--CcEEEECCCCCCHHHHHHHHHhhC---CCCCeEEE
Confidence 3445555555543 348999999999999886544333 23456654
No 350
>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=93.40 E-value=0.074 Score=56.83 Aligned_cols=49 Identities=27% Similarity=0.349 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 403 EEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 403 ~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
+...+.+...+.. .+.++|.||+||||||++...+..+-. ...+|+++-
T Consensus 114 ~~~~~~l~~~v~~--~~~ili~G~tGSGKTT~l~all~~i~~--~~~~iv~iE 162 (270)
T PF00437_consen 114 EEIAEFLRSAVRG--RGNILISGPTGSGKTTLLNALLEEIPP--EDERIVTIE 162 (270)
T ss_dssp HHHHHHHHHCHHT--TEEEEEEESTTSSHHHHHHHHHHHCHT--TTSEEEEEE
T ss_pred HHHHHHHhhcccc--ceEEEEECCCccccchHHHHHhhhccc--cccceEEec
Confidence 4444445444332 245899999999999998666543321 125766644
No 351
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=93.40 E-value=0.12 Score=60.06 Aligned_cols=49 Identities=22% Similarity=0.329 Sum_probs=37.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.||||||||+.....+...++ .+.+++++++-.+. +.+.+|...
T Consensus 264 s~~li~G~~G~GKt~l~~~f~~~~~~--~ge~~~y~s~eEs~-~~i~~~~~~ 312 (484)
T TIGR02655 264 SIILATGATGTGKTLLVSKFLENACA--NKERAILFAYEESR-AQLLRNAYS 312 (484)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEEeeCCH-HHHHHHHHH
Confidence 35899999999999998888887776 46899999975544 455555543
No 352
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=93.36 E-value=0.077 Score=48.35 Aligned_cols=24 Identities=38% Similarity=0.627 Sum_probs=19.0
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
+.|+||||+|||+.+-..+..++.
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~l~~ 24 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKDLLK 24 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHHHHH
Confidence 368999999999987776666654
No 353
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=93.33 E-value=0.3 Score=53.70 Aligned_cols=48 Identities=19% Similarity=0.325 Sum_probs=29.8
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEecC-CCCCCceeecc
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAGD-PKQLGPVIYSK 589 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvGD-p~QL~PvI~s~ 589 (806)
+.+.++|||++ +.+.++....|..... ....+|++.. +..++|.|.|.
T Consensus 112 ~~~kV~iiEp~-~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SR 163 (325)
T PRK08699 112 GGLRVILIHPA-ESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSR 163 (325)
T ss_pred CCceEEEEech-hhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHH
Confidence 45788888888 6666666555544332 2345666655 45677776653
No 354
>PRK12608 transcription termination factor Rho; Provisional
Probab=93.28 E-value=0.16 Score=56.49 Aligned_cols=63 Identities=19% Similarity=0.270 Sum_probs=39.5
Q ss_pred HHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCe--EEEEecchHHHHHHHHHHh
Q 038509 407 RSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSR--ILVCAASNSAADHMLERLI 469 (806)
Q Consensus 407 ~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~r--ILv~apSN~Aad~l~erL~ 469 (806)
++|..++-.....-.+|+||||||||+.+...+..+..+++.-. ++++.....-+.++.+.+.
T Consensus 122 RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~ 186 (380)
T PRK12608 122 RVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVK 186 (380)
T ss_pred hhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHh
Confidence 35555542111123699999999999988887777766544433 4455555555666666654
No 355
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.27 E-value=0.12 Score=58.49 Aligned_cols=46 Identities=30% Similarity=0.587 Sum_probs=30.3
Q ss_pred CCCHHHHHHHHHHHhCCCCC-------------CEEEEcCCCCChHHHHHHHHHHHHHhC
Q 038509 400 SLNEEQTRSVEIILGCKGAP-------------PYVIYGPPGTGKTMTLVEAILQVYSTR 446 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~-------------~~lI~GPPGTGKT~tlv~~i~qll~~~ 446 (806)
.|+.|=....+++...+-.| =++++||||||||. ++..|-.++...
T Consensus 225 GLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTL-iARqIGkMLNAr 283 (744)
T KOG0741|consen 225 GLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTL-IARQIGKMLNAR 283 (744)
T ss_pred cchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhH-HHHHHHHHhcCC
Confidence 66666655555554432222 26999999999996 566777777654
No 356
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.26 E-value=0.19 Score=58.22 Aligned_cols=54 Identities=20% Similarity=0.257 Sum_probs=38.9
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
+..++|.|-+|+||||-|=.-+...=....+++|-++-|-+.||-.++.|+.+.
T Consensus 280 ~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~E 333 (902)
T KOG0923|consen 280 HQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEE 333 (902)
T ss_pred CcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHH
Confidence 456899999999999975432221111124566888889999999999999874
No 357
>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=93.18 E-value=0.17 Score=52.59 Aligned_cols=47 Identities=17% Similarity=0.297 Sum_probs=33.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERL 468 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL 468 (806)
..++|.|+||||||+.+...+.+.++ ++.++++++.-.. ++.+.++.
T Consensus 21 ~~~~i~G~~G~GKT~l~~~~~~~~~~--~g~~~~~is~e~~-~~~i~~~~ 67 (229)
T TIGR03881 21 FFVAVTGEPGTGKTIFCLHFAYKGLR--DGDPVIYVTTEES-RESIIRQA 67 (229)
T ss_pred eEEEEECCCCCChHHHHHHHHHHHHh--cCCeEEEEEccCC-HHHHHHHH
Confidence 36899999999999988877766654 4677877776443 34555553
No 358
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=93.12 E-value=0.35 Score=58.19 Aligned_cols=66 Identities=23% Similarity=0.378 Sum_probs=51.8
Q ss_pred CCCHHHHHHHHHHHhC--CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGC--KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~--~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.....|..|+..+... .+....++.|..|||||.|++..+.++ +..+||+||+...|..+.+-|..
T Consensus 9 ~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~-----~~p~Lvi~~n~~~A~ql~~el~~ 76 (655)
T TIGR00631 9 QPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV-----NRPTLVIAHNKTLAAQLYNEFKE 76 (655)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh-----CCCEEEEECCHHHHHHHHHHHHH
Confidence 3467899998887643 222246799999999999998866543 46799999999999999998865
No 359
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=93.12 E-value=0.12 Score=56.00 Aligned_cols=34 Identities=24% Similarity=0.336 Sum_probs=27.1
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.+++.|.-|+||||||...+.++.. .+.+|++.|
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~~--~g~~VllaA 174 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLKQ--QGKSVLLAA 174 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHHH--CCCeEEEEe
Confidence 3689999999999999998887775 456766644
No 360
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.11 E-value=0.16 Score=56.68 Aligned_cols=45 Identities=20% Similarity=0.344 Sum_probs=32.1
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec-ch--HHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA-SN--SAADHML 465 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap-SN--~Aad~l~ 465 (806)
..+.+.||+|+|||||++..+.++.. .+.+|++++. +. .|++.+.
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~--~GkkVglI~aDt~RiaAvEQLk 289 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHG--KKKTVGFITTDHSRIGTVQQLQ 289 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHH--cCCcEEEEecCCcchHHHHHHH
Confidence 35789999999999999998887764 3567765554 33 3555544
No 361
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=93.08 E-value=0.13 Score=59.79 Aligned_cols=22 Identities=36% Similarity=0.693 Sum_probs=16.6
Q ss_pred CEEEEcCCCCChHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~q 441 (806)
-++++||||||||+++...+.+
T Consensus 218 GILLyGPPGTGKT~LAKAlA~e 239 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANS 239 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHh
Confidence 4899999999999864444333
No 362
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=93.01 E-value=0.14 Score=55.62 Aligned_cols=53 Identities=17% Similarity=0.241 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
..++++|.+.+..++..+- -++|.|+-||||||++-.....+- +..||+.+=-
T Consensus 156 gt~~~~~a~~L~~av~~r~--NILisGGTGSGKTTlLNal~~~i~---~~eRvItiED 208 (355)
T COG4962 156 GTMIRRAAKFLRRAVGIRC--NILISGGTGSGKTTLLNALSGFID---SDERVITIED 208 (355)
T ss_pred CCcCHHHHHHHHHHHhhce--eEEEeCCCCCCHHHHHHHHHhcCC---CcccEEEEee
Confidence 4899999999999998653 389999999999998766544332 4568877643
No 363
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=93.01 E-value=0.15 Score=56.47 Aligned_cols=47 Identities=19% Similarity=0.283 Sum_probs=30.8
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILV 453 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv 453 (806)
+.+..+.+..++..+. .++|.||+||||||++...+. .+ .+..+++.
T Consensus 148 ~~~~~~~l~~~v~~~~--nilI~G~tGSGKTTll~aLl~-~i--~~~~rivt 194 (344)
T PRK13851 148 NGDLEAFLHACVVGRL--TMLLCGPTGSGKTTMSKTLIS-AI--PPQERLIT 194 (344)
T ss_pred cHHHHHHHHHHHHcCC--eEEEECCCCccHHHHHHHHHc-cc--CCCCCEEE
Confidence 4555566666665443 489999999999998765443 33 24456654
No 364
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=92.97 E-value=0.29 Score=56.02 Aligned_cols=132 Identities=19% Similarity=0.185 Sum_probs=83.2
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHH--HHHHHhCCCCeEEEEecchHH----HHHHHHHHhccc
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAI--LQVYSTREHSRILVCAASNSA----ADHMLERLISNE 472 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i--~qll~~~~~~rILv~apSN~A----ad~l~erL~~~~ 472 (806)
..|-|-|..||++-|-.... .+|..+-+||||.+ .+.+ -.++. .+.+.|.+.|--+. -+.+.+|+.+.
T Consensus 215 ~eLlPVQ~laVe~GLLeG~n--llVVSaTasGKTLI-gElAGi~~~l~--~g~KmlfLvPLVALANQKy~dF~~rYs~L- 288 (830)
T COG1202 215 EELLPVQVLAVEAGLLEGEN--LLVVSATASGKTLI-GELAGIPRLLS--GGKKMLFLVPLVALANQKYEDFKERYSKL- 288 (830)
T ss_pred ceecchhhhhhhhccccCCc--eEEEeccCCCcchH-HHhhCcHHHHh--CCCeEEEEehhHHhhcchHHHHHHHhhcc-
Confidence 37999999999987753332 68899999999964 3332 23333 47899998885444 45677777542
Q ss_pred ccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCC
Q 038509 473 VAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAG 552 (806)
Q Consensus 473 ~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAs 552 (806)
.-..-+|++...-...+ +. .....-..++||+.|+-+...+...+...+..-+|+|||.
T Consensus 289 ----glkvairVG~srIk~~~------------~p----v~~~t~~dADIIVGTYEGiD~lLRtg~~lgdiGtVVIDEi- 347 (830)
T COG1202 289 ----GLKVAIRVGMSRIKTRE------------EP----VVVDTSPDADIIVGTYEGIDYLLRTGKDLGDIGTVVIDEI- 347 (830)
T ss_pred ----cceEEEEechhhhcccC------------Cc----cccCCCCCCcEEEeechhHHHHHHcCCcccccceEEeeee-
Confidence 22233555543211000 00 0011225789999999887766555566678899999999
Q ss_pred CCcch
Q 038509 553 QASEP 557 (806)
Q Consensus 553 Q~~ep 557 (806)
+..+-
T Consensus 348 HtL~d 352 (830)
T COG1202 348 HTLED 352 (830)
T ss_pred eeccc
Confidence 55544
No 365
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=92.95 E-value=0.16 Score=59.23 Aligned_cols=50 Identities=16% Similarity=0.197 Sum_probs=36.2
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.||||||||+...+.+.+-++. .+.++|++++-.+. +.+.+...+
T Consensus 22 ~~~Li~G~pGsGKT~la~qfl~~g~~~-~ge~~lyvs~eE~~-~~l~~~~~~ 71 (484)
T TIGR02655 22 RSTLVSGTSGTGKTLFSIQFLYNGIIH-FDEPGVFVTFEESP-QDIIKNARS 71 (484)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHh-CCCCEEEEEEecCH-HHHHHHHHH
Confidence 468999999999999887776654442 36889999986444 555555544
No 366
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=92.95 E-value=0.18 Score=54.25 Aligned_cols=52 Identities=17% Similarity=0.255 Sum_probs=34.5
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
-|+...+..+..+...+...+-|.|+||+||||.+...+..+. ...++.++.
T Consensus 87 ~n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~---~~~~~~VI~ 138 (290)
T PRK10463 87 KNNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLK---DSVPCAVIE 138 (290)
T ss_pred HhHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhc---cCCCEEEEC
Confidence 3565666666666655555577999999999998776666543 224555553
No 367
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.93 E-value=0.71 Score=51.97 Aligned_cols=65 Identities=20% Similarity=0.236 Sum_probs=45.9
Q ss_pred HHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 404 EQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 404 eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
+|++-...++... ..+++.|-.|+|||+-+-..+........ ..|.++-|-+.||-.++.|..+.
T Consensus 50 ~~k~~F~~~l~~n--Q~~v~vGetgsGKttQiPq~~~~~~~~~~-~~v~CTQprrvaamsva~RVadE 114 (699)
T KOG0925|consen 50 EQKEEFLKLLLNN--QIIVLVGETGSGKTTQIPQFVLEYELSHL-TGVACTQPRRVAAMSVAQRVADE 114 (699)
T ss_pred HhHHHHHHHHhcC--ceEEEEecCCCCccccCcHHHHHHHHhhc-cceeecCchHHHHHHHHHHHHHH
Confidence 4555555556533 45899999999999988776665544332 45555667788999999999864
No 368
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=92.91 E-value=0.23 Score=55.39 Aligned_cols=39 Identities=21% Similarity=0.379 Sum_probs=30.5
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+.+.+.||-|-|||||++.++++........+|-++|-
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITt 241 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITT 241 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEe
Confidence 356899999999999999999988773345667765553
No 369
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.91 E-value=0.21 Score=56.40 Aligned_cols=49 Identities=20% Similarity=0.309 Sum_probs=33.1
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc--hHHHHHHHHHHh
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS--NSAADHMLERLI 469 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS--N~Aad~l~erL~ 469 (806)
.+++.||+|+|||||++..+...... .+.+|++++.- +.|+.....+..
T Consensus 225 vi~lvGptGvGKTTtaaKLA~~~~~~-~G~~V~Lit~Dt~R~aA~eQLk~yA 275 (432)
T PRK12724 225 VVFFVGPTGSGKTTSIAKLAAKYFLH-MGKSVSLYTTDNYRIAAIEQLKRYA 275 (432)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHh-cCCeEEEecccchhhhHHHHHHHHH
Confidence 47899999999999999888765332 45677666542 344444444443
No 370
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.90 E-value=0.14 Score=59.10 Aligned_cols=37 Identities=22% Similarity=0.378 Sum_probs=28.0
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
..+.+.||.|+|||||++.++..+.......+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 3588999999999999999887765443345676554
No 371
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=92.88 E-value=0.068 Score=58.05 Aligned_cols=40 Identities=28% Similarity=0.633 Sum_probs=24.8
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+|++||||||||.. +.+++. ..+. ||-+.+.-++.+++..
T Consensus 188 VLLYGPPGTGKTLL-AkAVA~----~T~A-----tFIrvvgSElVqKYiG 227 (406)
T COG1222 188 VLLYGPPGTGKTLL-AKAVAN----QTDA-----TFIRVVGSELVQKYIG 227 (406)
T ss_pred eEeeCCCCCcHHHH-HHHHHh----ccCc-----eEEEeccHHHHHHHhc
Confidence 89999999999963 444432 2232 3334455566666654
No 372
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=92.88 E-value=0.14 Score=58.37 Aligned_cols=36 Identities=22% Similarity=0.322 Sum_probs=27.0
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+++.|+||+|||||++..+..+... .+.++++++.
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~-~g~kV~lV~~ 136 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKK-QGKKVLLVAC 136 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHh-CCCeEEEEec
Confidence 37899999999999999988876532 3466655444
No 373
>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=92.87 E-value=0.086 Score=52.61 Aligned_cols=17 Identities=29% Similarity=0.602 Sum_probs=14.2
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.|||||||||....
T Consensus 2 i~i~G~pGsGKst~a~~ 18 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAK 18 (183)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999986444
No 374
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=92.85 E-value=0.084 Score=51.23 Aligned_cols=20 Identities=40% Similarity=0.479 Sum_probs=15.4
Q ss_pred EEEEcCCCCChHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~ 440 (806)
+.|.|||||||||+....+.
T Consensus 3 ItIsG~pGsG~TTva~~lAe 22 (179)
T COG1102 3 ITISGLPGSGKTTVARELAE 22 (179)
T ss_pred EEeccCCCCChhHHHHHHHH
Confidence 57999999999987554433
No 375
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=92.82 E-value=0.1 Score=58.52 Aligned_cols=18 Identities=50% Similarity=0.984 Sum_probs=14.8
Q ss_pred EEEEcCCCCChHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~ 438 (806)
++++||||||||+++...
T Consensus 159 vLL~GppGtGKT~lakai 176 (364)
T TIGR01242 159 VLLYGPPGTGKTLLAKAV 176 (364)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 899999999999765443
No 376
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=92.77 E-value=0.31 Score=57.70 Aligned_cols=66 Identities=29% Similarity=0.318 Sum_probs=43.5
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCC----CCeEEEEecchHHHHHHHHHHhcc
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTRE----HSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~----~~rILv~apSN~Aad~l~erL~~~ 471 (806)
-++| +++..|-. ++.++|.|--|+||||-+=.-+...=.... +.=|-|+-|-+.||-.+++|....
T Consensus 259 aeEq-~IMEaIn~---n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~E 328 (1172)
T KOG0926|consen 259 AEEQ-RIMEAINE---NPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAFE 328 (1172)
T ss_pred HHHH-HHHHHhhc---CCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHHH
Confidence 3444 34444433 467899999999999975543322111111 345788889999999999999763
No 377
>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=92.70 E-value=0.09 Score=52.56 Aligned_cols=21 Identities=29% Similarity=0.445 Sum_probs=16.6
Q ss_pred CCEEEEcCCCCChHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAI 439 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i 439 (806)
+.++|.|||||||||.+..++
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~ 24 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIV 24 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHH
Confidence 468999999999998654444
No 378
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=92.58 E-value=0.17 Score=51.77 Aligned_cols=39 Identities=23% Similarity=0.324 Sum_probs=28.2
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhC----CCCeEEEEecchHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTR----EHSRILVCAASNSA 460 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~----~~~rILv~apSN~A 460 (806)
++|.||||+||||.|-+.+. ++... .+.++.++--++.-
T Consensus 140 tLiigpP~~GKTTlLRdiaR-~~s~g~~~~l~kkv~IiDersEI 182 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIAR-LLSDGINQFLPKKVGIIDERSEI 182 (308)
T ss_pred eEEecCCCCChHHHHHHHHH-HhhccccccCCceEEEEeccchh
Confidence 79999999999998777554 44433 66777776655543
No 379
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=92.58 E-value=0.24 Score=55.68 Aligned_cols=135 Identities=18% Similarity=0.285 Sum_probs=89.7
Q ss_pred CCCCCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhccccc
Q 038509 395 FVPFNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNEVA 474 (806)
Q Consensus 395 ~~~~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~~~ 474 (806)
+.|-..+-+.|.+.+....++.....-+|.=|=|+|||.+-+.++..+ .++.||++.|+.+++.-....... .
T Consensus 297 LKPst~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~ti-----kK~clvLcts~VSVeQWkqQfk~w--s 369 (776)
T KOG1123|consen 297 LKPSTQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACTI-----KKSCLVLCTSAVSVEQWKQQFKQW--S 369 (776)
T ss_pred cCcccccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeeee-----cccEEEEecCccCHHHHHHHHHhh--c
Confidence 344447889999999988875433345788899999998877766543 478999999999999887776542 1
Q ss_pred CcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccC---------CcCCCCcE
Q 038509 475 GIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNG---------IKRGNFSH 545 (806)
Q Consensus 475 ~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~---------~~~~~Fd~ 545 (806)
.+....+.|+-+..+.. .-..+.|+++|++..+.-.... +....+-.
T Consensus 370 ti~d~~i~rFTsd~Ke~------------------------~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGl 425 (776)
T KOG1123|consen 370 TIQDDQICRFTSDAKER------------------------FPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGL 425 (776)
T ss_pred ccCccceEEeecccccc------------------------CCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeee
Confidence 24445566665443311 1134668888887654322211 23456889
Q ss_pred EEEecCCCCcchhHHH
Q 038509 546 IFLDEAGQASEPESMI 561 (806)
Q Consensus 546 ViIDEAsQ~~epe~li 561 (806)
+++||. +......+.
T Consensus 426 lllDEV-HvvPA~MFR 440 (776)
T KOG1123|consen 426 LLLDEV-HVVPAKMFR 440 (776)
T ss_pred EEeehh-ccchHHHHH
Confidence 999999 766554443
No 380
>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=92.57 E-value=0.13 Score=57.20 Aligned_cols=36 Identities=25% Similarity=0.402 Sum_probs=25.2
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEE
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVC 454 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ 454 (806)
.+.++|.||+|+|||||+...+.++.. ....+|+.+
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~i~~-~~~~~i~ti 157 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDYINK-NAAGHIITI 157 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhhCc-CCCCEEEEE
Confidence 356899999999999999766655432 234555554
No 381
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=92.55 E-value=0.13 Score=53.71 Aligned_cols=34 Identities=24% Similarity=0.415 Sum_probs=27.0
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
++|.|++|||||+.+...+..+.+ .-..|.++|+
T Consensus 16 ~viIG~sGSGKT~li~~lL~~~~~--~f~~I~l~t~ 49 (241)
T PF04665_consen 16 MVIIGKSGSGKTTLIKSLLYYLRH--KFDHIFLITP 49 (241)
T ss_pred EEEECCCCCCHHHHHHHHHHhhcc--cCCEEEEEec
Confidence 789999999999999888766544 2367777777
No 382
>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=92.55 E-value=0.16 Score=56.72 Aligned_cols=27 Identities=26% Similarity=0.347 Sum_probs=21.9
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHH
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
.+.++|.||.|||||||+...+..+..
T Consensus 134 ~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 134 EGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 467999999999999999776665543
No 383
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=92.54 E-value=0.29 Score=55.76 Aligned_cols=133 Identities=18% Similarity=0.208 Sum_probs=81.1
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHH-HHHHHHHHHhC----CCCeEEEEecchHHHHHHHHHHhcccc
Q 038509 399 NSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTL-VEAILQVYSTR----EHSRILVCAASNSAADHMLERLISNEV 473 (806)
Q Consensus 399 ~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tl-v~~i~qll~~~----~~~rILv~apSN~Aad~l~erL~~~~~ 473 (806)
-.+++-|++.|-.+|..++ ++=.+--|||||... +-.+..|+... .+--.||++||+..|-.+.+-|.+.+.
T Consensus 90 v~~teiQ~~~Ip~aL~G~D---vlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvgk 166 (758)
T KOG0343|consen 90 VKMTEIQRDTIPMALQGHD---VLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVGK 166 (758)
T ss_pred ccHHHHHHhhcchhccCcc---cccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHhh
Confidence 3789999999999997543 466667899999763 33444455433 456789999999999999988876322
Q ss_pred cCc-ccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccc--cccccCCcCCCCcEEEEec
Q 038509 474 AGI-KENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSS--LLNTNGIKRGNFSHIFLDE 550 (806)
Q Consensus 474 ~~~-~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~--~l~~~~~~~~~Fd~ViIDE 550 (806)
.+. ..+-| ++.. ++. ...+.+.+..|++||..-.. +-....+.......+|+||
T Consensus 167 ~h~fSaGLi--iGG~-----~~k----------------~E~eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDE 223 (758)
T KOG0343|consen 167 HHDFSAGLI--IGGK-----DVK----------------FELERISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDE 223 (758)
T ss_pred cccccccee--ecCc-----hhH----------------HHHHhhhcCCeEEechHHHHHHhhhcCCCCCCcceEEEecc
Confidence 110 01100 0000 000 01234567788999874321 1112233444567899999
Q ss_pred CCCCcch
Q 038509 551 AGQASEP 557 (806)
Q Consensus 551 AsQ~~ep 557 (806)
|-.+.+.
T Consensus 224 ADR~LDM 230 (758)
T KOG0343|consen 224 ADRMLDM 230 (758)
T ss_pred HHHHHHH
Confidence 9665554
No 384
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.53 E-value=0.12 Score=59.16 Aligned_cols=38 Identities=16% Similarity=0.430 Sum_probs=23.6
Q ss_pred HHHHHHHHHh-CCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 405 QTRSVEIILG-CKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 405 Q~~AV~~il~-~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
|.++|+.++. .....+++|.||||||||+. +.++.+..
T Consensus 25 re~vI~lll~aalag~hVLL~GpPGTGKT~L-AraLa~~~ 63 (498)
T PRK13531 25 RSHAIRLCLLAALSGESVFLLGPPGIAKSLI-ARRLKFAF 63 (498)
T ss_pred cHHHHHHHHHHHccCCCEEEECCCChhHHHH-HHHHHHHh
Confidence 4445554432 11235699999999999975 44555443
No 385
>PRK06851 hypothetical protein; Provisional
Probab=92.47 E-value=0.094 Score=58.30 Aligned_cols=33 Identities=27% Similarity=0.366 Sum_probs=25.0
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILV 453 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv 453 (806)
..++|.|+||||||+++...+..+.+ .+.+|.+
T Consensus 215 ~~~~i~G~pG~GKstl~~~i~~~a~~--~G~~v~~ 247 (367)
T PRK06851 215 NRYFLKGRPGTGKSTMLKKIAKAAEE--RGFDVEV 247 (367)
T ss_pred eEEEEeCCCCCcHHHHHHHHHHHHHh--CCCeEEE
Confidence 35899999999999988877777665 3455443
No 386
>PRK06620 hypothetical protein; Validated
Probab=92.45 E-value=0.16 Score=52.40 Aligned_cols=18 Identities=33% Similarity=0.451 Sum_probs=15.2
Q ss_pred CCEEEEcCCCCChHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLV 436 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv 436 (806)
++++|+||||||||+.+.
T Consensus 45 ~~l~l~Gp~G~GKThLl~ 62 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTK 62 (214)
T ss_pred ceEEEECCCCCCHHHHHH
Confidence 348999999999998654
No 387
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=92.44 E-value=0.29 Score=53.87 Aligned_cols=35 Identities=23% Similarity=0.328 Sum_probs=24.7
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+-|.||||+||||++-..+..+.. .+.+|.+++-
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~--~g~~v~vi~~ 92 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIE--QGHKVAVLAV 92 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEEe
Confidence 3679999999999877666555543 3567766654
No 388
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.41 E-value=0.44 Score=51.61 Aligned_cols=69 Identities=22% Similarity=0.214 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCe-EEEEecchHHHHHHHHHHhcc
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSR-ILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~r-ILv~apSN~Aad~l~erL~~~ 471 (806)
.-++-|...|-.||..++ ++=.+--|||||...+--|.+-+...|... -|++|||+..|-.+.|++...
T Consensus 29 ~pTpiQ~~cIpkILeGrd---cig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~al 98 (442)
T KOG0340|consen 29 KPTPIQQACIPKILEGRD---CIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIAL 98 (442)
T ss_pred CCCchHhhhhHHHhcccc---cccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHHh
Confidence 568899999999998654 466677899999988777777776665444 589999999999999999764
No 389
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=92.39 E-value=0.18 Score=55.65 Aligned_cols=24 Identities=29% Similarity=0.538 Sum_probs=19.2
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
+-+++.||||||||+ ++.++..++
T Consensus 30 ~~vLl~G~pG~gKT~-lar~la~ll 53 (334)
T PRK13407 30 GGVLVFGDRGTGKST-AVRALAALL 53 (334)
T ss_pred CcEEEEcCCCCCHHH-HHHHHHHHC
Confidence 359999999999997 566666665
No 390
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=92.38 E-value=0.15 Score=59.46 Aligned_cols=23 Identities=30% Similarity=0.434 Sum_probs=17.9
Q ss_pred CCEEEEcCCCCChHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~q 441 (806)
...++.||||+|||+|+--++..
T Consensus 46 ~iLlLtGP~G~GKtttv~~La~e 68 (519)
T PF03215_consen 46 RILLLTGPSGCGKTTTVKVLAKE 68 (519)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 46899999999999987544433
No 391
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=92.33 E-value=0.38 Score=60.54 Aligned_cols=65 Identities=17% Similarity=0.218 Sum_probs=45.3
Q ss_pred CCCHHHHH---HHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHH
Q 038509 400 SLNEEQTR---SVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLER 467 (806)
Q Consensus 400 ~LN~eQ~~---AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~er 467 (806)
+.-+.|.+ +|...+... ...+|.+|.|||||..-.--+.... ...+++|+|.|+|...-+.|.++
T Consensus 257 e~R~~Q~~m~~~v~~~l~~~--~~~~iEA~TGtGKTlaYLlpa~~~a-~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 257 EKREGQQEMMKEVYTALRDS--EHALIEAGTGTGKSLAYLLPAAYFA-KKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred cCCHHHHHHHHHHHHHHhcC--CCEEEECCCCCchhHHHHHHHHHHh-hccCCeEEEEcCCHHHHHHHHHh
Confidence 34578887 555556533 4589999999999975322222222 23578999999999999998775
No 392
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=92.33 E-value=0.34 Score=58.68 Aligned_cols=70 Identities=23% Similarity=0.384 Sum_probs=51.8
Q ss_pred CCCHHHHHHHHHHHhC-CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGC-KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~-~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..-++|++.+..+... .+....+|.+|.|||||......+...... .+.+|+++|.|+..-+.+.++...
T Consensus 15 ~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~-~~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 15 EPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYARE-EGKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHH-cCCcEEEECCCHHHHHHHHHhhcc
Confidence 5678898887665432 122348999999999998766555544432 458999999999999999888755
No 393
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=92.32 E-value=0.34 Score=50.63 Aligned_cols=51 Identities=20% Similarity=0.254 Sum_probs=30.0
Q ss_pred HHHHHHHHH-H---HhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 403 EEQTRSVEI-I---LGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 403 ~eQ~~AV~~-i---l~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
+.|++++.. . +...+...+|++|+.|||||+++-.++..+.. .+-|++=+.
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~--~GLRlIev~ 87 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD--QGLRLIEVS 87 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh--cCceEEEEC
Confidence 345555443 3 23333346899999999999876554444432 345544443
No 394
>KOG3125 consensus Thymidine kinase [Nucleotide transport and metabolism]
Probab=92.31 E-value=0.92 Score=45.26 Aligned_cols=36 Identities=31% Similarity=0.327 Sum_probs=29.8
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
...+|.||==+|||+.|..++.+... .+.++|++-+
T Consensus 28 ~i~vI~gPMfSGKTt~LLrr~r~~~~--~grrv~liK~ 63 (234)
T KOG3125|consen 28 TIHVILGPMFSGKTTELLRRIRREII--AGRRVLLIKY 63 (234)
T ss_pred eEEEEeccccCcchHHHHHHHHHHHh--cCceEEEEEe
Confidence 35699999999999999999987665 4678888765
No 395
>PRK08118 topology modulation protein; Reviewed
Probab=92.25 E-value=0.12 Score=51.22 Aligned_cols=20 Identities=20% Similarity=0.464 Sum_probs=15.2
Q ss_pred EEEEcCCCCChHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~q 441 (806)
++|.||||+||||. +..+..
T Consensus 4 I~I~G~~GsGKSTl-ak~L~~ 23 (167)
T PRK08118 4 IILIGSGGSGKSTL-ARQLGE 23 (167)
T ss_pred EEEECCCCCCHHHH-HHHHHH
Confidence 68999999999974 444443
No 396
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.24 E-value=0.28 Score=56.85 Aligned_cols=37 Identities=19% Similarity=0.341 Sum_probs=28.4
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
..+.|.||.|+||||++..++..+...+.+.+|.+++
T Consensus 351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 4578999999999999988887776544456776654
No 397
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.20 E-value=0.2 Score=55.69 Aligned_cols=35 Identities=26% Similarity=0.288 Sum_probs=27.1
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
..+++.||.|+|||||++.++.++... +.+|.+++
T Consensus 207 ~ii~lvGptGvGKTTt~akLA~~l~~~--g~~V~lIt 241 (407)
T PRK12726 207 RIISLIGQTGVGKTTTLVKLGWQLLKQ--NRTVGFIT 241 (407)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEe
Confidence 457899999999999999988876553 45665444
No 398
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=92.19 E-value=0.24 Score=52.42 Aligned_cols=23 Identities=39% Similarity=0.748 Sum_probs=18.1
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.++++||||.|||| ++..|+.-+
T Consensus 54 HvLl~GPPGlGKTT-LA~IIA~Em 76 (332)
T COG2255 54 HVLLFGPPGLGKTT-LAHIIANEL 76 (332)
T ss_pred eEEeeCCCCCcHHH-HHHHHHHHh
Confidence 58999999999996 566665544
No 399
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.16 E-value=0.2 Score=56.81 Aligned_cols=40 Identities=28% Similarity=0.282 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhCCCCCC-EEEEcCCCCChHHHHHHHHHHH
Q 038509 403 EEQTRSVEIILGCKGAPP-YVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 403 ~eQ~~AV~~il~~~~~~~-~lI~GPPGTGKT~tlv~~i~ql 442 (806)
+.-.+.+...+.....+. ++++||||+|||+++-..+..+
T Consensus 22 ~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l 62 (397)
T PRK14955 22 EHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAV 62 (397)
T ss_pred HHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHh
Confidence 333444555554433343 8899999999998654444433
No 400
>PTZ00301 uridine kinase; Provisional
Probab=92.10 E-value=0.22 Score=51.27 Aligned_cols=25 Identities=20% Similarity=0.317 Sum_probs=18.3
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
.+.|.|||||||||.....+.++..
T Consensus 5 iIgIaG~SgSGKTTla~~l~~~l~~ 29 (210)
T PTZ00301 5 VIGISGASGSGKSSLSTNIVSELMA 29 (210)
T ss_pred EEEEECCCcCCHHHHHHHHHHHHHh
Confidence 4679999999999876554445544
No 401
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=92.09 E-value=0.39 Score=58.06 Aligned_cols=66 Identities=21% Similarity=0.339 Sum_probs=52.8
Q ss_pred CCCHHHHHHHHHHHhC--CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 400 SLNEEQTRSVEIILGC--KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~--~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.++..|..++..++.. .+....+|.|.+|||||.+++..+.+ .+..+|++||+...|+.+.+-|..
T Consensus 12 ~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~-----~~r~vLIVt~~~~~A~~l~~dL~~ 79 (652)
T PRK05298 12 KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIAR-----LQRPTLVLAHNKTLAAQLYSEFKE 79 (652)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHH-----hCCCEEEEECCHHHHHHHHHHHHH
Confidence 7899999999988653 22224679999999999998764433 246899999999999999998865
No 402
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=92.08 E-value=0.13 Score=54.14 Aligned_cols=22 Identities=27% Similarity=0.572 Sum_probs=15.8
Q ss_pred EEcCCCCChHHHHHHHHHHHHHh
Q 038509 423 IYGPPGTGKTMTLVEAILQVYST 445 (806)
Q Consensus 423 I~GPPGTGKT~tlv~~i~qll~~ 445 (806)
|.|||||||||. +..+.+.+..
T Consensus 1 ViGpaGSGKTT~-~~~~~~~~~~ 22 (238)
T PF03029_consen 1 VIGPAGSGKTTF-CKGLSEWLES 22 (238)
T ss_dssp -EESTTSSHHHH-HHHHHHHHTT
T ss_pred CCCCCCCCHHHH-HHHHHHHHHh
Confidence 689999999975 5566666653
No 403
>PF12846 AAA_10: AAA-like domain
Probab=92.08 E-value=0.26 Score=52.87 Aligned_cols=42 Identities=24% Similarity=0.407 Sum_probs=34.6
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAAD 462 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad 462 (806)
+.++|.|++|+|||+++...+.+++. .+..+++.=+...-.+
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~--~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIR--RGPRVVIFDPKGDYSP 43 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHH--cCCCEEEEcCCchHHH
Confidence 34899999999999999988888887 4578888888766655
No 404
>PRK09354 recA recombinase A; Provisional
Probab=92.06 E-value=0.27 Score=54.37 Aligned_cols=47 Identities=21% Similarity=0.260 Sum_probs=34.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLER 467 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~er 467 (806)
..+.|.||||||||+.....+....+ .+.+++++..-++.-....++
T Consensus 61 ~IteI~G~~GsGKTtLal~~~~~~~~--~G~~~~yId~E~s~~~~~a~~ 107 (349)
T PRK09354 61 RIVEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDPVYAKK 107 (349)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEECCccchHHHHHHH
Confidence 36899999999999999888887765 457777777655554444333
No 405
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=92.04 E-value=0.14 Score=57.92 Aligned_cols=36 Identities=33% Similarity=0.553 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHH
Q 038509 404 EQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 404 eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
+=++|+.-+.... .-.++.||||||||+++ .++-.+
T Consensus 186 ~AKrAleiAAAGg--HnLl~~GpPGtGKTmla-~Rl~~l 221 (490)
T COG0606 186 QAKRALEIAAAGG--HNLLLVGPPGTGKTMLA-SRLPGL 221 (490)
T ss_pred HHHHHHHHHHhcC--CcEEEecCCCCchHHhh-hhhccc
Confidence 3344544333322 23899999999999864 344333
No 406
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=92.04 E-value=0.27 Score=55.06 Aligned_cols=48 Identities=21% Similarity=0.348 Sum_probs=35.9
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
..++|.|+||+|||+.+...+..+.. .+.++|+++...+ .+.+..|..
T Consensus 83 slvLI~G~pG~GKStLllq~a~~~a~--~g~~VlYvs~EEs-~~qi~~Ra~ 130 (372)
T cd01121 83 SVILIGGDPGIGKSTLLLQVAARLAK--RGGKVLYVSGEES-PEQIKLRAD 130 (372)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHh--cCCeEEEEECCcC-HHHHHHHHH
Confidence 35899999999999998888877765 3468999887654 345555543
No 407
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=92.04 E-value=0.21 Score=57.03 Aligned_cols=20 Identities=50% Similarity=1.037 Sum_probs=15.6
Q ss_pred EEEEcCCCCChHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~q 441 (806)
++++||||||||+++ .+++.
T Consensus 220 VLL~GPPGTGKT~LA-raIA~ 239 (438)
T PTZ00361 220 VILYGPPGTGKTLLA-KAVAN 239 (438)
T ss_pred EEEECCCCCCHHHHH-HHHHH
Confidence 899999999999864 44443
No 408
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=92.01 E-value=0.51 Score=52.85 Aligned_cols=48 Identities=25% Similarity=0.324 Sum_probs=31.9
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE-Eecc-hHHHHHHHHHHhc
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILV-CAAS-NSAADHMLERLIS 470 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv-~apS-N~Aad~l~erL~~ 470 (806)
++..|-=|+|||||....+.++-+ .+.++|+ +|-+ +.||-+=++.|.+
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk--~~~kvllVaaD~~RpAA~eQL~~La~ 152 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKK--KGKKVLLVAADTYRPAAIEQLKQLAE 152 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHH--cCCceEEEecccCChHHHHHHHHHHH
Confidence 578899999999999888887766 4556554 4444 3444444444544
No 409
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=91.99 E-value=0.25 Score=57.74 Aligned_cols=19 Identities=42% Similarity=0.749 Sum_probs=15.4
Q ss_pred CEEEEcCCCCChHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~ 438 (806)
-+++.||||||||+++-..
T Consensus 90 giLL~GppGtGKT~la~al 108 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAV 108 (495)
T ss_pred cEEEECCCCCCHHHHHHHH
Confidence 3899999999999865433
No 410
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=91.98 E-value=0.22 Score=60.81 Aligned_cols=47 Identities=11% Similarity=0.046 Sum_probs=35.8
Q ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
+...+.|+|||.+.+-.+...+ ..+..++|+|||.-.|....+-+..
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~a--l~G~~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNA--ISGRGVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred cccccCCCCchHHHHHHHHHHH--hcCCCEEEEcCCHHHHHHHHHHHHH
Confidence 6788999999987665444222 2457899999999999888877664
No 411
>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=91.93 E-value=0.22 Score=53.34 Aligned_cols=30 Identities=30% Similarity=0.625 Sum_probs=21.6
Q ss_pred HHHHHhCCCCCCEEEEcCCCCChHHHHHHHHH
Q 038509 409 VEIILGCKGAPPYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 409 V~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~ 440 (806)
++..+.. ..|+++.||+|||||.++...+.
T Consensus 26 l~~l~~~--~~pvLl~G~~GtGKT~li~~~l~ 55 (272)
T PF12775_consen 26 LDLLLSN--GRPVLLVGPSGTGKTSLIQNFLS 55 (272)
T ss_dssp HHHHHHC--TEEEEEESSTTSSHHHHHHHHHH
T ss_pred HHHHHHc--CCcEEEECCCCCchhHHHHhhhc
Confidence 4444443 34799999999999998766543
No 412
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=91.87 E-value=0.1 Score=51.10 Aligned_cols=19 Identities=42% Similarity=0.520 Sum_probs=13.2
Q ss_pred EEEEcCCCCChHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAI 439 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i 439 (806)
++|.|+|||||||++..+.
T Consensus 2 I~i~G~~stGKTTL~~~L~ 20 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALA 20 (163)
T ss_dssp EEEE--TTSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6899999999998754433
No 413
>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=91.85 E-value=0.43 Score=59.34 Aligned_cols=113 Identities=23% Similarity=0.361 Sum_probs=0.0
Q ss_pred HHHHHHHH----------HhCCCCCC--EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhccc
Q 038509 405 QTRSVEII----------LGCKGAPP--YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNE 472 (806)
Q Consensus 405 Q~~AV~~i----------l~~~~~~~--~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~ 472 (806)
|..||..+ +...+.|. +++.||||+|||.++...+..+.. ....+..+-.+.-.-..-..+|....
T Consensus 571 Q~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~--~~~~~~~~dmse~~~~~~~~~l~g~~ 648 (852)
T TIGR03345 571 QDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYG--GEQNLITINMSEFQEAHTVSRLKGSP 648 (852)
T ss_pred hHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhC--CCcceEEEeHHHhhhhhhhccccCCC
Q ss_pred ccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCC
Q 038509 473 VAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAG 552 (806)
Q Consensus 473 ~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAs 552 (806)
...+.... +......+....+++|++||.
T Consensus 649 ~gyvg~~~--------------------------------------------------~g~L~~~v~~~p~svvllDEi- 677 (852)
T TIGR03345 649 PGYVGYGE--------------------------------------------------GGVLTEAVRRKPYSVVLLDEV- 677 (852)
T ss_pred CCcccccc--------------------------------------------------cchHHHHHHhCCCcEEEEech-
Q ss_pred CCcchhHHHHHhhcccCC
Q 038509 553 QASEPESMIPIANLCTKQ 570 (806)
Q Consensus 553 Q~~epe~li~L~~l~~~~ 570 (806)
.-..|+.+..|..+...+
T Consensus 678 eka~~~v~~~Llq~ld~g 695 (852)
T TIGR03345 678 EKAHPDVLELFYQVFDKG 695 (852)
T ss_pred hhcCHHHHHHHHHHhhcc
No 414
>PHA02244 ATPase-like protein
Probab=91.82 E-value=0.26 Score=54.59 Aligned_cols=23 Identities=30% Similarity=0.483 Sum_probs=17.6
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
.|++|.||||||||+.+ +++.+.
T Consensus 120 ~PVLL~GppGtGKTtLA-~aLA~~ 142 (383)
T PHA02244 120 IPVFLKGGAGSGKNHIA-EQIAEA 142 (383)
T ss_pred CCEEEECCCCCCHHHHH-HHHHHH
Confidence 57999999999999864 444443
No 415
>PRK14531 adenylate kinase; Provisional
Probab=91.81 E-value=0.14 Score=51.29 Aligned_cols=17 Identities=35% Similarity=0.769 Sum_probs=14.2
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.|||||||||....
T Consensus 5 i~i~G~pGsGKsT~~~~ 21 (183)
T PRK14531 5 LLFLGPPGAGKGTQAAR 21 (183)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 78999999999986443
No 416
>PRK13768 GTPase; Provisional
Probab=91.79 E-value=0.21 Score=53.00 Aligned_cols=33 Identities=15% Similarity=0.153 Sum_probs=25.8
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
++|.||+|+||||++...+..+.. .+.+++++.
T Consensus 5 i~v~G~~G~GKTt~~~~~~~~l~~--~g~~v~~i~ 37 (253)
T PRK13768 5 VFFLGTAGSGKTTLTKALSDWLEE--QGYDVAIVN 37 (253)
T ss_pred EEEECCCCccHHHHHHHHHHHHHh--cCCceEEEE
Confidence 689999999999988777766654 457777764
No 417
>PRK00131 aroK shikimate kinase; Reviewed
Probab=91.74 E-value=0.16 Score=49.85 Aligned_cols=22 Identities=27% Similarity=0.242 Sum_probs=16.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~ 440 (806)
..++|.|+||||||++......
T Consensus 5 ~~i~l~G~~GsGKstla~~La~ 26 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAK 26 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHH
Confidence 3589999999999986544433
No 418
>PRK03839 putative kinase; Provisional
Probab=91.73 E-value=0.15 Score=50.96 Aligned_cols=20 Identities=35% Similarity=0.589 Sum_probs=15.2
Q ss_pred EEEEcCCCCChHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~q 441 (806)
++|.|+|||||||.. .++++
T Consensus 3 I~l~G~pGsGKsT~~-~~La~ 22 (180)
T PRK03839 3 IAITGTPGVGKTTVS-KLLAE 22 (180)
T ss_pred EEEECCCCCCHHHHH-HHHHH
Confidence 689999999999854 43433
No 419
>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=91.73 E-value=0.25 Score=51.78 Aligned_cols=49 Identities=24% Similarity=0.359 Sum_probs=36.4
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHh----------CCCCeEEEEecchHHHHHHHHHHhc
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYST----------REHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~----------~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.+|.||||||||+.+...+..+... ..+.+||+++-=..+ +++.+|+..
T Consensus 4 ~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~ 62 (239)
T cd01125 4 SALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEA 62 (239)
T ss_pred eEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHH
Confidence 5899999999999988887766531 145688888854443 577788765
No 420
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=91.73 E-value=0.48 Score=50.73 Aligned_cols=38 Identities=18% Similarity=0.102 Sum_probs=27.0
Q ss_pred HHHHHHHHHHhC--CCCCCEEEEcCCCCChHHHHHHHHHH
Q 038509 404 EQTRSVEIILGC--KGAPPYVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 404 eQ~~AV~~il~~--~~~~~~lI~GPPGTGKT~tlv~~i~q 441 (806)
...+.+...|.. .+...+.|+|++|+|||+.+.+.+..
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~ 42 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARD 42 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCH
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccc
Confidence 344556556654 44457899999999999987776654
No 421
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=91.68 E-value=0.19 Score=49.96 Aligned_cols=46 Identities=20% Similarity=0.222 Sum_probs=31.4
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
.++|.||||||||+.....+.. .+.+++.++.....-+++.+|+..
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~-----~~~~~~~iat~~~~~~e~~~ri~~ 48 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQ-----SGLQVLYIATAQPFDDEMAARIAH 48 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHH-----cCCCcEeCcCCCCChHHHHHHHHH
Confidence 3799999999999864443322 134566666655666788888865
No 422
>COG3911 Predicted ATPase [General function prediction only]
Probab=91.65 E-value=0.15 Score=48.74 Aligned_cols=21 Identities=33% Similarity=0.634 Sum_probs=17.2
Q ss_pred CCEEEEcCCCCChHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAI 439 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i 439 (806)
..+++.|+||+||||.|.+..
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa 30 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALA 30 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHH
Confidence 358999999999999776543
No 423
>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=91.63 E-value=0.14 Score=51.45 Aligned_cols=17 Identities=35% Similarity=0.768 Sum_probs=14.0
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.|||||||||....
T Consensus 2 I~i~G~pGsGKst~a~~ 18 (194)
T cd01428 2 ILLLGPPGSGKGTQAER 18 (194)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999975433
No 424
>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=91.63 E-value=0.14 Score=49.24 Aligned_cols=18 Identities=28% Similarity=0.414 Sum_probs=14.7
Q ss_pred EEEEcCCCCChHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~ 438 (806)
++|.|+||+||||+....
T Consensus 2 i~l~G~~GsGKST~a~~l 19 (150)
T cd02021 2 IVVMGVSGSGKSTVGKAL 19 (150)
T ss_pred EEEEcCCCCCHHHHHHHH
Confidence 689999999999865543
No 425
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=91.58 E-value=0.15 Score=51.37 Aligned_cols=24 Identities=33% Similarity=0.520 Sum_probs=19.0
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
+.+++.|+||+|||+..-+.+..|
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L 25 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKEL 25 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHH
Confidence 457899999999998876665544
No 426
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=91.52 E-value=0.3 Score=57.46 Aligned_cols=37 Identities=30% Similarity=0.557 Sum_probs=24.1
Q ss_pred HHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHH
Q 038509 406 TRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 406 ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.+++...+......+++|.||||||||+. +.++.+..
T Consensus 74 i~~l~~al~~~~~~~vLi~Ge~GtGKt~l-Ar~i~~~~ 110 (531)
T TIGR02902 74 IKALKAALCGPNPQHVIIYGPPGVGKTAA-ARLVLEEA 110 (531)
T ss_pred HHHHHHHHhCCCCceEEEECCCCCCHHHH-HHHHHHHh
Confidence 34444444333446899999999999974 55555443
No 427
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=91.50 E-value=0.18 Score=48.19 Aligned_cols=24 Identities=33% Similarity=0.638 Sum_probs=18.0
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHH
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
.|-+||.|-|||||||+ +++++..
T Consensus 7 ~PNILvtGTPG~GKstl-~~~lae~ 30 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTL-AERLAEK 30 (176)
T ss_pred CCCEEEeCCCCCCchhH-HHHHHHH
Confidence 35689999999999986 4445443
No 428
>PRK14532 adenylate kinase; Provisional
Probab=91.43 E-value=0.15 Score=51.29 Aligned_cols=17 Identities=29% Similarity=0.774 Sum_probs=14.1
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.|||||||||....
T Consensus 3 i~~~G~pGsGKsT~a~~ 19 (188)
T PRK14532 3 LILFGPPAAGKGTQAKR 19 (188)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999986433
No 429
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=91.41 E-value=0.11 Score=50.94 Aligned_cols=20 Identities=35% Similarity=0.541 Sum_probs=15.4
Q ss_pred CEEEEcCCCCChHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~ 440 (806)
.++|.|.|||||||+ +.++.
T Consensus 2 ~I~ITGTPGvGKTT~-~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTV-CKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHH-HHHHH
Confidence 368999999999975 44444
No 430
>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=91.38 E-value=0.28 Score=53.44 Aligned_cols=35 Identities=26% Similarity=0.320 Sum_probs=26.3
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
..+.|.||||+|||+++...+..+.. .+.++.+++
T Consensus 35 ~~i~i~G~~G~GKttl~~~l~~~~~~--~~~~v~~i~ 69 (300)
T TIGR00750 35 HRVGITGTPGAGKSTLLEALGMELRR--RGLKVAVIA 69 (300)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEe
Confidence 35789999999999988776665544 356777765
No 431
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=91.38 E-value=1.6 Score=38.57 Aligned_cols=73 Identities=22% Similarity=0.288 Sum_probs=49.7
Q ss_pred eeEecceeEEEEEEEecCCccEEEEEEEEeecCCCCceeEEecCCCCCCCCCCCcccccccccccCeeeCCCCeEEEEEE
Q 038509 59 SILVGETSKCSITIQNTTPEPVEVWGIRIYCSEPANSLTLSLMEPPSGKPDPQKDQGFLEGFSIEDRVLQPLRTLTIWLS 138 (806)
Q Consensus 59 ~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 138 (806)
.+..|+...+++.|+|.|.....=..++++.....- .-.. + ..|.||++.++.+.
T Consensus 14 ~~~~g~~~~i~~~V~N~G~~~~~~~~v~~~~~~~~~----~~~~-------------------i--~~L~~g~~~~v~~~ 68 (101)
T PF07705_consen 14 NVVPGEPVTITVTVKNNGTADAENVTVRLYLDGNSV----STVT-------------------I--PSLAPGESETVTFT 68 (101)
T ss_dssp EEETTSEEEEEEEEEE-SSS-BEEEEEEEEETTEEE----EEEE-------------------E--SEB-TTEEEEEEEE
T ss_pred cccCCCEEEEEEEEEECCCCCCCCEEEEEEECCcee----ccEE-------------------E--CCcCCCcEEEEEEE
Confidence 688899999999999999998766666665322211 0000 0 25899999999999
Q ss_pred EecCCCceeeEEEEEEec
Q 038509 139 CKPKEMGLHKSVVQFDIG 156 (806)
Q Consensus 139 ~~~~~~g~~~~~~~~~f~ 156 (806)
+.+...|.|.-.+..+-.
T Consensus 69 ~~~~~~G~~~i~~~iD~~ 86 (101)
T PF07705_consen 69 WTPPSPGSYTIRVVIDPD 86 (101)
T ss_dssp EE-SS-CEEEEEEEESTT
T ss_pred EEeCCCCeEEEEEEEeeC
Confidence 999989999877777643
No 432
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.37 E-value=5.8 Score=44.27 Aligned_cols=99 Identities=13% Similarity=0.245 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHHHHcCCCCCCeEEEEcCChHHHHHHHHHhhcCCCCCeEE----------CcccccccceeeEEEEEecc
Q 038509 692 EVSKVVDIINKLRENTELNETDIGVITPYRQQVLKIKKVLETWDMPDVKV----------GTVEQFQGQEREVIIVSTVR 761 (806)
Q Consensus 692 Ea~~V~~~v~~L~~~~~~~~~dIgIItPy~~Qv~~i~~~L~~~~~~~v~V----------~TVd~fQG~E~dvVIiS~vr 761 (806)
.++.+..++..+-. -+.++.-+|-++....++.++..|+..|+..-.+ ..+..|-|+-.-+.+++.|-
T Consensus 244 ~a~K~aaLl~il~~--~~~~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdva 321 (529)
T KOG0337|consen 244 KAEKEAALLSILGG--RIKDKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVA 321 (529)
T ss_pred cHHHHHHHHHHHhc--cccccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhh
Confidence 34444444433322 2346677888999999999999999876643222 24556777777788887775
Q ss_pred CCCcC-cccccccccccCCCCCceeecccccc
Q 038509 762 STVKH-NEFDRTYCLGFLSNPRRFNVAITRAR 792 (806)
Q Consensus 762 s~~~~-~~~d~~~~lgfl~~~rrlnVAlTRAK 792 (806)
+.--. .-.|..-++.|-.+++.|-+-+.|..
T Consensus 322 aRG~diplldnvinyd~p~~~klFvhRVgr~a 353 (529)
T KOG0337|consen 322 ARGLDIPLLDNVINYDFPPDDKLFVHRVGRVA 353 (529)
T ss_pred hccCCCccccccccccCCCCCceEEEEecchh
Confidence 43111 11233345566677777776666654
No 433
>PRK14527 adenylate kinase; Provisional
Probab=91.33 E-value=0.17 Score=51.10 Aligned_cols=20 Identities=30% Similarity=0.564 Sum_probs=15.9
Q ss_pred CCEEEEcCCCCChHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~ 438 (806)
..++|.||||+||||.....
T Consensus 7 ~~i~i~G~pGsGKsT~a~~L 26 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERL 26 (191)
T ss_pred cEEEEECCCCCCHHHHHHHH
Confidence 45899999999999865443
No 434
>PRK11823 DNA repair protein RadA; Provisional
Probab=91.31 E-value=0.35 Score=55.67 Aligned_cols=47 Identities=23% Similarity=0.361 Sum_probs=35.8
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
.++|.|+||+|||+.+...+..+.+ .+.++|+++...+. +.+..|..
T Consensus 82 ~~lI~G~pG~GKTtL~lq~a~~~a~--~g~~vlYvs~Ees~-~qi~~ra~ 128 (446)
T PRK11823 82 VVLIGGDPGIGKSTLLLQVAARLAA--AGGKVLYVSGEESA-SQIKLRAE 128 (446)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEEccccH-HHHHHHHH
Confidence 5899999999999998888877664 35789998875544 45655543
No 435
>PRK08233 hypothetical protein; Provisional
Probab=91.30 E-value=0.14 Score=50.75 Aligned_cols=18 Identities=28% Similarity=0.200 Sum_probs=14.4
Q ss_pred CEEEEcCCCCChHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~ 437 (806)
.+.|.|+|||||||....
T Consensus 5 iI~I~G~~GsGKtTla~~ 22 (182)
T PRK08233 5 IITIAAVSGGGKTTLTER 22 (182)
T ss_pred EEEEECCCCCCHHHHHHH
Confidence 467899999999986543
No 436
>PRK12678 transcription termination factor Rho; Provisional
Probab=91.27 E-value=0.25 Score=57.35 Aligned_cols=30 Identities=23% Similarity=0.330 Sum_probs=24.4
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCe
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSR 450 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~r 450 (806)
.+|+||||||||++|..++.++..+++...
T Consensus 419 ~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~ 448 (672)
T PRK12678 419 GLIVSPPKAGKTTILQNIANAITTNNPECH 448 (672)
T ss_pred eEEeCCCCCCHHHHHHHHHHHHhhcCCCeE
Confidence 699999999999999887777776555544
No 437
>PRK02496 adk adenylate kinase; Provisional
Probab=91.26 E-value=0.18 Score=50.58 Aligned_cols=17 Identities=41% Similarity=0.813 Sum_probs=14.1
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.||||+||||....
T Consensus 4 i~i~G~pGsGKst~a~~ 20 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVV 20 (184)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999976443
No 438
>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=91.23 E-value=0.34 Score=46.93 Aligned_cols=34 Identities=29% Similarity=0.380 Sum_probs=25.6
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
+.+.|++|+|||+++...+..+.. .+.+++++..
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~--~g~~v~ii~~ 35 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRA--RGKRVAVLAI 35 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHH--CCCEEEEEEe
Confidence 578899999999988877766654 3567777653
No 439
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=91.20 E-value=0.3 Score=50.67 Aligned_cols=34 Identities=21% Similarity=0.298 Sum_probs=21.9
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEe
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCA 455 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~a 455 (806)
+-|.||+|+||||++ ..+..++... .+.++.++.
T Consensus 2 igI~G~sGSGKTTla-~~L~~~l~~~~~~~~v~vi~ 36 (220)
T cd02025 2 IGIAGSVAVGKSTTA-RVLQALLSRWPDHPNVELIT 36 (220)
T ss_pred EEeeCCCCCCHHHHH-HHHHHHHhhcCCCCcEEEEe
Confidence 568899999999875 4555555421 234555544
No 440
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=91.16 E-value=0.37 Score=48.37 Aligned_cols=41 Identities=27% Similarity=0.474 Sum_probs=28.5
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec---chHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA---SNSAADHM 464 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap---SN~Aad~l 464 (806)
+-|-||||||||+.+-..+..+... .++.|++. |+.=++.+
T Consensus 16 i~v~Gp~GSGKTaLie~~~~~L~~~---~~~aVI~~Di~t~~Da~~l 59 (202)
T COG0378 16 IGVGGPPGSGKTALIEKTLRALKDE---YKIAVITGDIYTKEDADRL 59 (202)
T ss_pred EEecCCCCcCHHHHHHHHHHHHHhh---CCeEEEeceeechhhHHHH
Confidence 5688999999999877777766542 57777664 44444444
No 441
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=91.15 E-value=0.34 Score=55.81 Aligned_cols=48 Identities=25% Similarity=0.396 Sum_probs=36.0
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
..++|.|+||+|||+.+...+.++.+ .+.++|+++.-.+. +.+..|..
T Consensus 95 svilI~G~pGsGKTTL~lq~a~~~a~--~g~kvlYvs~EEs~-~qi~~ra~ 142 (454)
T TIGR00416 95 SLILIGGDPGIGKSTLLLQVACQLAK--NQMKVLYVSGEESL-QQIKMRAI 142 (454)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHh--cCCcEEEEECcCCH-HHHHHHHH
Confidence 35899999999999999888877765 34689888876554 45555544
No 442
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=91.12 E-value=0.15 Score=49.97 Aligned_cols=17 Identities=29% Similarity=0.632 Sum_probs=13.3
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.|||||||||+...
T Consensus 1 i~l~G~~GsGKSTla~~ 17 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASA 17 (163)
T ss_pred CEEECCCCCCHHHHHHH
Confidence 36889999999975443
No 443
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=91.08 E-value=0.15 Score=57.60 Aligned_cols=20 Identities=55% Similarity=1.002 Sum_probs=15.8
Q ss_pred CEEEEcCCCCChHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~ 440 (806)
-+++.||||||||+++ .+++
T Consensus 181 gvLL~GppGTGKT~LA-kalA 200 (398)
T PTZ00454 181 GVLLYGPPGTGKTMLA-KAVA 200 (398)
T ss_pred eEEEECCCCCCHHHHH-HHHH
Confidence 4899999999999864 4443
No 444
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=91.08 E-value=0.2 Score=48.66 Aligned_cols=23 Identities=30% Similarity=0.505 Sum_probs=17.3
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
+.|+|+||+||||.+...+ ..++
T Consensus 8 i~ITG~PGvGKtTl~~ki~-e~L~ 30 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIA-EKLR 30 (179)
T ss_pred EEEeCCCCccHHHHHHHHH-HHHH
Confidence 6899999999998655544 4444
No 445
>PRK14528 adenylate kinase; Provisional
Probab=91.06 E-value=0.19 Score=50.64 Aligned_cols=17 Identities=35% Similarity=0.681 Sum_probs=14.2
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.||||+||||....
T Consensus 4 i~i~G~pGsGKtt~a~~ 20 (186)
T PRK14528 4 IIFMGPPGAGKGTQAKI 20 (186)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 78999999999986433
No 446
>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=91.06 E-value=0.27 Score=50.80 Aligned_cols=40 Identities=15% Similarity=0.213 Sum_probs=28.9
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhC----CCCeEEEEecch
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTR----EHSRILVCAASN 458 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~----~~~rILv~apSN 458 (806)
..+.|.||||+|||+.+...+....... .+.+++.++..+
T Consensus 20 ~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 20 RITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred cEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 4689999999999999888777665421 126777766644
No 447
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=91.01 E-value=0.49 Score=52.17 Aligned_cols=43 Identities=23% Similarity=0.403 Sum_probs=30.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHM 464 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l 464 (806)
.++++.||||||||+. ++.+++.+. .+-..+-|++.-.+.|.+
T Consensus 44 ~~vll~G~PG~gKT~l-a~~lA~~l~--~~~~~i~~t~~l~p~d~~ 86 (329)
T COG0714 44 GHVLLEGPPGVGKTLL-ARALARALG--LPFVRIQCTPDLLPSDLL 86 (329)
T ss_pred CCEEEECCCCccHHHH-HHHHHHHhC--CCeEEEecCCCCCHHHhc
Confidence 5699999999999974 555555553 345556677766666655
No 448
>PRK06547 hypothetical protein; Provisional
Probab=90.89 E-value=0.29 Score=48.76 Aligned_cols=20 Identities=30% Similarity=0.307 Sum_probs=15.3
Q ss_pred CCEEEEcCCCCChHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~ 438 (806)
..++|.|++|||||++....
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l 35 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGAL 35 (172)
T ss_pred EEEEEECCCCCCHHHHHHHH
Confidence 35678899999999865443
No 449
>PRK14530 adenylate kinase; Provisional
Probab=90.87 E-value=0.2 Score=51.70 Aligned_cols=18 Identities=28% Similarity=0.567 Sum_probs=14.7
Q ss_pred CEEEEcCCCCChHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~ 437 (806)
-++|.|||||||||....
T Consensus 5 ~I~i~G~pGsGKsT~~~~ 22 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSN 22 (215)
T ss_pred EEEEECCCCCCHHHHHHH
Confidence 478999999999986443
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=90.85 E-value=0.18 Score=48.78 Aligned_cols=19 Identities=37% Similarity=0.746 Sum_probs=13.9
Q ss_pred EEcCCCCChHHHHHHHHHHH
Q 038509 423 IYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 423 I~GPPGTGKT~tlv~~i~ql 442 (806)
|.|||||||||.. .++++-
T Consensus 1 i~G~PgsGK~t~~-~~la~~ 19 (151)
T PF00406_consen 1 ILGPPGSGKGTQA-KRLAKR 19 (151)
T ss_dssp EEESTTSSHHHHH-HHHHHH
T ss_pred CcCCCCCChHHHH-HHHHHh
Confidence 6899999999754 444443
No 451
>PRK04040 adenylate kinase; Provisional
Probab=90.83 E-value=0.2 Score=50.62 Aligned_cols=21 Identities=43% Similarity=0.600 Sum_probs=16.1
Q ss_pred CEEEEcCCCCChHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~ 440 (806)
.++|.|+||+||||.+..+..
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~ 24 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALE 24 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHH
Confidence 368999999999986554433
No 452
>PRK00279 adk adenylate kinase; Reviewed
Probab=90.82 E-value=0.2 Score=51.65 Aligned_cols=16 Identities=38% Similarity=0.835 Sum_probs=13.7
Q ss_pred EEEEcCCCCChHHHHH
Q 038509 421 YVIYGPPGTGKTMTLV 436 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv 436 (806)
++|.|||||||||...
T Consensus 3 I~v~G~pGsGKsT~a~ 18 (215)
T PRK00279 3 LILLGPPGAGKGTQAK 18 (215)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6899999999997643
No 453
>PLN02165 adenylate isopentenyltransferase
Probab=90.80 E-value=0.22 Score=54.55 Aligned_cols=22 Identities=32% Similarity=0.422 Sum_probs=17.7
Q ss_pred CCEEEEcCCCCChHHHHHHHHH
Q 038509 419 PPYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~ 440 (806)
..++|.||+|||||++....+.
T Consensus 44 ~iivIiGPTGSGKStLA~~LA~ 65 (334)
T PLN02165 44 KVVVIMGATGSGKSRLSVDLAT 65 (334)
T ss_pred CEEEEECCCCCcHHHHHHHHHH
Confidence 4689999999999987766433
No 454
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=90.77 E-value=0.43 Score=46.65 Aligned_cols=35 Identities=20% Similarity=0.296 Sum_probs=27.1
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecc
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAAS 457 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apS 457 (806)
+.|.|++|||||+++...+.++.. .+.+|.++-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~--~G~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKA--RGYRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEecc
Confidence 578899999999988777776643 36788887665
No 455
>PRK06696 uridine kinase; Validated
Probab=90.75 E-value=0.61 Score=48.38 Aligned_cols=34 Identities=15% Similarity=0.205 Sum_probs=21.9
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
.+.|.|++||||||+. ..+.+.+.. .+..+++++
T Consensus 24 iI~I~G~sgsGKSTlA-~~L~~~l~~-~g~~v~~~~ 57 (223)
T PRK06696 24 RVAIDGITASGKTTFA-DELAEEIKK-RGRPVIRAS 57 (223)
T ss_pred EEEEECCCCCCHHHHH-HHHHHHHHH-cCCeEEEec
Confidence 4679999999999865 455555543 234555433
No 456
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=90.72 E-value=0.38 Score=56.44 Aligned_cols=49 Identities=22% Similarity=0.265 Sum_probs=38.4
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.|+||||||+.+...+...++ .+.+++++++... .+.+.+++..
T Consensus 274 ~~~li~G~~G~GKT~l~~~~~~~~~~--~g~~~~yis~e~~-~~~i~~~~~~ 322 (509)
T PRK09302 274 SIILVSGATGTGKTLLASKFAEAACR--RGERCLLFAFEES-RAQLIRNARS 322 (509)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHh--CCCcEEEEEecCC-HHHHHHHHHH
Confidence 35899999999999998888877765 4689999998776 5556666543
No 457
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=90.64 E-value=0.34 Score=46.48 Aligned_cols=35 Identities=23% Similarity=0.300 Sum_probs=25.9
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
.+.|.|+.||||||.+...+.++.+ .+.++.++-+
T Consensus 2 vv~VvG~~~sGKTTl~~~Li~~l~~--~g~~v~~ik~ 36 (140)
T PF03205_consen 2 VVQVVGPKNSGKTTLIRKLINELKR--RGYRVAVIKH 36 (140)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH--TT--EEEEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhH--cCCceEEEEE
Confidence 3689999999999988888887765 4567665544
No 458
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=90.61 E-value=0.18 Score=52.56 Aligned_cols=16 Identities=63% Similarity=1.130 Sum_probs=13.9
Q ss_pred CEEEEcCCCCChHHHH
Q 038509 420 PYVIYGPPGTGKTMTL 435 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tl 435 (806)
-+|.+||||||||++.
T Consensus 153 nVLFyGppGTGKTm~A 168 (368)
T COG1223 153 NVLFYGPPGTGKTMMA 168 (368)
T ss_pred eeEEECCCCccHHHHH
Confidence 3799999999999864
No 459
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=90.59 E-value=4.6 Score=49.91 Aligned_cols=47 Identities=32% Similarity=0.492 Sum_probs=37.4
Q ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHH---HHHHHHhc
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAAD---HMLERLIS 470 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad---~l~erL~~ 470 (806)
+|.|-.|||||+.+++-+.+.++. +++|..++|+-..-. ++.+++..
T Consensus 5 ~lyg~~gtgkT~~l~~e~~~~~~~--gkpviyIvP~q~sFe~E~~~L~~~~~ 54 (1108)
T COG3857 5 LLYGRAGTGKTEILTEEIQEELEK--GKPVIYIVPSQMSFEKEKEILERLRQ 54 (1108)
T ss_pred eehhhccccHHHHHHHHHHHHHHc--CCcEEEEcccchhHHHHHHHHhCccc
Confidence 789999999999999999988874 589999999776654 44555443
No 460
>PRK05439 pantothenate kinase; Provisional
Probab=90.58 E-value=0.55 Score=51.17 Aligned_cols=34 Identities=24% Similarity=0.328 Sum_probs=23.1
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEe
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCA 455 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~a 455 (806)
+.|.||||+||||+. ..+..++... .+.++.+++
T Consensus 89 IgIaG~~gsGKSTla-~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 89 IGIAGSVAVGKSTTA-RLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred EEEECCCCCCHHHHH-HHHHHHHHhhCCCCceEEEe
Confidence 569999999999865 4555565433 345666655
No 461
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=90.55 E-value=0.61 Score=57.20 Aligned_cols=110 Identities=17% Similarity=0.256 Sum_probs=0.0
Q ss_pred HHHHHHHHHhC------------CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhccc
Q 038509 405 QTRSVEIILGC------------KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLISNE 472 (806)
Q Consensus 405 Q~~AV~~il~~------------~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~~~ 472 (806)
|..|+..+... +..+.+++.||||||||.++...+..+ +..+..+.-|.-.-..-..++....
T Consensus 459 Q~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~~~~lig~~ 533 (731)
T TIGR02639 459 QDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHTVSRLIGAP 533 (731)
T ss_pred cHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhcccHHHHhcCC
Q ss_pred ccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccCCcCCCCcEEEEecCC
Q 038509 473 VAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNGIKRGNFSHIFLDEAG 552 (806)
Q Consensus 473 ~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~~~~~~Fd~ViIDEAs 552 (806)
...+.... +......+....+.+|++||+
T Consensus 534 ~gyvg~~~--------------------------------------------------~~~l~~~~~~~p~~VvllDEi- 562 (731)
T TIGR02639 534 PGYVGFEQ--------------------------------------------------GGLLTEAVRKHPHCVLLLDEI- 562 (731)
T ss_pred CCCcccch--------------------------------------------------hhHHHHHHHhCCCeEEEEech-
Q ss_pred CCcchhHHHHHhhcccCC
Q 038509 553 QASEPESMIPIANLCTKQ 570 (806)
Q Consensus 553 Q~~epe~li~L~~l~~~~ 570 (806)
.-..|+....|..+...+
T Consensus 563 eka~~~~~~~Ll~~ld~g 580 (731)
T TIGR02639 563 EKAHPDIYNILLQVMDYA 580 (731)
T ss_pred hhcCHHHHHHHHHhhccC
No 462
>PRK07261 topology modulation protein; Provisional
Probab=90.53 E-value=0.22 Score=49.47 Aligned_cols=17 Identities=29% Similarity=0.434 Sum_probs=14.4
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.|+|||||||.+..
T Consensus 3 i~i~G~~GsGKSTla~~ 19 (171)
T PRK07261 3 IAIIGYSGSGKSTLARK 19 (171)
T ss_pred EEEEcCCCCCHHHHHHH
Confidence 68999999999986544
No 463
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=90.46 E-value=0.21 Score=51.29 Aligned_cols=17 Identities=41% Similarity=0.817 Sum_probs=14.0
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.|||||||||....
T Consensus 2 I~i~G~pGsGKsT~a~~ 18 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKR 18 (210)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999976443
No 464
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.45 E-value=0.73 Score=53.06 Aligned_cols=139 Identities=23% Similarity=0.333 Sum_probs=78.6
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHH-HHHHHHHHHh-----CCCCeEEEEecchHHHHHHHHHHhcc
Q 038509 398 FNSLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTL-VEAILQVYST-----REHSRILVCAASNSAADHMLERLISN 471 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tl-v~~i~qll~~-----~~~~rILv~apSN~Aad~l~erL~~~ 471 (806)
|..-++.|++|+-..+..+ -++..+|-|+|||..- +..+.+|... ..+-+.+|++|+...|.++.....+.
T Consensus 156 F~~Pt~iq~~aipvfl~~r---~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~ 232 (593)
T KOG0344|consen 156 FDEPTPIQKQAIPVFLEKR---DVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKY 232 (593)
T ss_pred CCCCCcccchhhhhhhccc---ceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhc
Confidence 3355778999988887744 3799999999996542 2222222221 13568999999999999887776653
Q ss_pred cccCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeeccccccccc---CCcCCCCcEEEE
Q 038509 472 EVAGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTN---GIKRGNFSHIFL 548 (806)
Q Consensus 472 ~~~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~---~~~~~~Fd~ViI 548 (806)
. .....-+|....... ..+. ..+.......++++++|......+... .+.-.+..++++
T Consensus 233 ~---~~~~t~~~a~~~~~~--~~~~-------------qk~a~~~~~k~dili~TP~ri~~~~~~~~~~idl~~V~~lV~ 294 (593)
T KOG0344|consen 233 S---IDEGTSLRAAQFSKP--AYPS-------------QKPAFLSDEKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVV 294 (593)
T ss_pred C---CCCCCchhhhhcccc--cchh-------------hccchhHHHHHHHHhcCHHHHHHHhcCCCccchhheeeeEee
Confidence 1 111221222111110 0000 001111224566667776543222211 123346789999
Q ss_pred ecCCCCcch
Q 038509 549 DEAGQASEP 557 (806)
Q Consensus 549 DEAsQ~~ep 557 (806)
|||-...+|
T Consensus 295 dEaD~lfe~ 303 (593)
T KOG0344|consen 295 DEADLLFEP 303 (593)
T ss_pred chHHhhhCh
Confidence 999999999
No 465
>PLN02200 adenylate kinase family protein
Probab=90.41 E-value=0.22 Score=52.11 Aligned_cols=19 Identities=26% Similarity=0.431 Sum_probs=14.9
Q ss_pred CEEEEcCCCCChHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEA 438 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~ 438 (806)
.++|.|||||||||.....
T Consensus 45 ii~I~G~PGSGKsT~a~~L 63 (234)
T PLN02200 45 ITFVLGGPGSGKGTQCEKI 63 (234)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 4689999999999864433
No 466
>CHL00095 clpC Clp protease ATP binding subunit
Probab=90.40 E-value=0.54 Score=58.46 Aligned_cols=28 Identities=11% Similarity=0.348 Sum_probs=20.6
Q ss_pred CCCcEEEEecCCCCcchhHHHHHhhcccC
Q 038509 541 GNFSHIFLDEAGQASEPESMIPIANLCTK 569 (806)
Q Consensus 541 ~~Fd~ViIDEAsQ~~epe~li~L~~l~~~ 569 (806)
..|++|++||+ .-..|+.+..|..+...
T Consensus 610 ~p~~VvllDei-eka~~~v~~~Llq~le~ 637 (821)
T CHL00095 610 KPYTVVLFDEI-EKAHPDIFNLLLQILDD 637 (821)
T ss_pred CCCeEEEECCh-hhCCHHHHHHHHHHhcc
Confidence 45789999999 55667777777666543
No 467
>PRK06762 hypothetical protein; Provisional
Probab=90.38 E-value=0.24 Score=48.59 Aligned_cols=18 Identities=33% Similarity=0.490 Sum_probs=14.5
Q ss_pred CEEEEcCCCCChHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~ 437 (806)
.++|.|+|||||||....
T Consensus 4 li~i~G~~GsGKST~A~~ 21 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAKQ 21 (166)
T ss_pred EEEEECCCCCCHHHHHHH
Confidence 478999999999976443
No 468
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=90.35 E-value=0.21 Score=51.29 Aligned_cols=36 Identities=31% Similarity=0.508 Sum_probs=24.1
Q ss_pred HHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHH
Q 038509 407 RSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 407 ~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
+.+...+.......++|.||.|+|||+.+.+.+..+
T Consensus 9 ~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 9 EKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp HHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred HHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 344445543334578999999999999876665544
No 469
>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=90.26 E-value=0.13 Score=48.28 Aligned_cols=39 Identities=15% Similarity=0.193 Sum_probs=23.5
Q ss_pred cEEEEecCCCCcchhHHHHHhhcccCCCEEEEecCCCCCCc
Q 038509 544 SHIFLDEAGQASEPESMIPIANLCTKQTVVVLAGDPKQLGP 584 (806)
Q Consensus 544 d~ViIDEAsQ~~epe~li~L~~l~~~~~~lVLvGDp~QL~P 584 (806)
.++++||...+..--+-..|..+.. .++-+-|....||.
T Consensus 64 ~ill~DEiNrappktQsAlLeam~E--r~Vt~~g~~~~lp~ 102 (131)
T PF07726_consen 64 NILLADEINRAPPKTQSALLEAMEE--RQVTIDGQTYPLPD 102 (131)
T ss_dssp SEEEEETGGGS-HHHHHHHHHHHHH--SEEEETTEEEE--S
T ss_pred ceeeecccccCCHHHHHHHHHHHHc--CeEEeCCEEEECCC
Confidence 5899999966664444444444433 36777788888776
No 470
>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=90.16 E-value=0.27 Score=46.75 Aligned_cols=21 Identities=29% Similarity=0.407 Sum_probs=16.3
Q ss_pred EEEEcCCCCChHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~q 441 (806)
+.|.|+||||||+........
T Consensus 2 I~i~G~~GsGKst~a~~la~~ 22 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKK 22 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999875554443
No 471
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=90.15 E-value=0.25 Score=49.43 Aligned_cols=17 Identities=41% Similarity=0.819 Sum_probs=14.1
Q ss_pred EEEEcCCCCChHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~ 437 (806)
++|.||||+||||....
T Consensus 3 iiilG~pGaGK~T~A~~ 19 (178)
T COG0563 3 ILILGPPGAGKSTLAKK 19 (178)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999975443
No 472
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=90.13 E-value=0.22 Score=54.73 Aligned_cols=39 Identities=26% Similarity=0.429 Sum_probs=25.7
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHh
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLI 469 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~ 469 (806)
+|.+||||||||.. +.+++.-. + +||-|..+-.+..+..
T Consensus 248 vLm~GPPGTGKTlL-AKAvATEc----~-----tTFFNVSsstltSKwR 286 (491)
T KOG0738|consen 248 VLMVGPPGTGKTLL-AKAVATEC----G-----TTFFNVSSSTLTSKWR 286 (491)
T ss_pred eeeeCCCCCcHHHH-HHHHHHhh----c-----CeEEEechhhhhhhhc
Confidence 79999999999974 44443221 1 5666766666665554
No 473
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=90.11 E-value=0.53 Score=52.15 Aligned_cols=49 Identities=22% Similarity=0.423 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEE
Q 038509 400 SLNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILV 453 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv 453 (806)
.+++++.+.+..++..+ ..++|.|+.|||||+++...+. ++. +..+++.
T Consensus 162 ~~~~~~~~~L~~~v~~~--~~ili~G~tGsGKTTll~al~~-~i~--~~~riv~ 210 (340)
T TIGR03819 162 TFPPGVARLLRAIVAAR--LAFLISGGTGSGKTTLLSALLA-LVA--PDERIVL 210 (340)
T ss_pred CCCHHHHHHHHHHHhCC--CeEEEECCCCCCHHHHHHHHHc-cCC--CCCcEEE
Confidence 46788888888777654 3599999999999988755433 332 4456554
No 474
>PF06159 DUF974: Protein of unknown function (DUF974); InterPro: IPR010378 This is a family of uncharacterised eukaryotic proteins.
Probab=90.11 E-value=2.1 Score=45.27 Aligned_cols=89 Identities=29% Similarity=0.428 Sum_probs=64.5
Q ss_pred ccCCCCCcceeeEecceeEEEEEEEecCCccEEEEEEEEeecCCCCceeEEecCCCCCCCCCCCcccccccccccCeeeC
Q 038509 49 PFPFVQGKPQSILVGETSKCSITIQNTTPEPVEVWGIRIYCSEPANSLTLSLMEPPSGKPDPQKDQGFLEGFSIEDRVLQ 128 (806)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 (806)
|-.|| .+-+|||+...|.+.|..+.++.-..+++.=.++...-++.+......+ -....|.
T Consensus 4 P~sfG-----~iylGEtF~~~l~~~N~s~~~v~~v~ikvemqT~s~~~r~~L~~~~~~~--------------~~~~~L~ 64 (249)
T PF06159_consen 4 PQSFG-----SIYLGETFSCYLSVNNDSNKPVRNVRIKVEMQTPSQSLRLPLSDNENSD--------------SPVASLA 64 (249)
T ss_pred CcccC-----CEeecCCEEEEEEeecCCCCceEEeEEEEEEeCCCCCccccCCCCcccc--------------ccccccC
Confidence 66799 9999999999999999999999888777754555542122222211000 0113599
Q ss_pred CCCeEEEEEEEecCCCceeeEEEEEEec
Q 038509 129 PLRTLTIWLSCKPKEMGLHKSVVQFDIG 156 (806)
Q Consensus 129 ~g~~~~~~~~~~~~~~g~~~~~~~~~f~ 156 (806)
||+++...|+..-|..|.|.=.+...+.
T Consensus 65 p~~~l~~iv~~~lkE~G~h~L~c~VsY~ 92 (249)
T PF06159_consen 65 PGESLDFIVSHELKELGNHTLVCTVSYT 92 (249)
T ss_pred CCCeEeEEEEEEeeecCceEEEEEEEEe
Confidence 9999999999999999999877766654
No 475
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=90.09 E-value=0.24 Score=50.78 Aligned_cols=38 Identities=26% Similarity=0.406 Sum_probs=23.0
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhC-CCCeEEEEecchH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTR-EHSRILVCAASNS 459 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~-~~~rILv~apSN~ 459 (806)
-+|.||||+||||-... ..+++... ++.-+.=+-|-|.
T Consensus 5 qvVIGPPgSGKsTYc~g-~~~fls~~gr~~~vVNLDPaNd 43 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNG-MSQFLSAIGRPVAVVNLDPAND 43 (290)
T ss_pred eEEEcCCCCCccchhhh-HHHHHHHhCCceEEEecCCccc
Confidence 48999999999987555 44555543 2223333445443
No 476
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=90.04 E-value=0.47 Score=48.59 Aligned_cols=40 Identities=25% Similarity=0.338 Sum_probs=26.7
Q ss_pred HhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEe
Q 038509 413 LGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCA 455 (806)
Q Consensus 413 l~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~a 455 (806)
+...+.+.+.+.|++|+||||++..++.++- ...++.+..
T Consensus 17 ~~~~~~~~i~~~G~~gsGKTTli~~l~~~~~---~~~~v~v~~ 56 (207)
T TIGR00073 17 LDKHGLVVLNFMSSPGSGKTTLIEKLIDNLK---DEVKIAVIE 56 (207)
T ss_pred hhhcCcEEEEEECCCCCCHHHHHHHHHHHHh---cCCeEEEEE
Confidence 3333444467999999999998887666542 234666655
No 477
>PRK15453 phosphoribulokinase; Provisional
Probab=90.04 E-value=0.45 Score=50.86 Aligned_cols=27 Identities=22% Similarity=0.453 Sum_probs=20.5
Q ss_pred CCCEEEEcCCCCChHHHHHHHHHHHHHh
Q 038509 418 APPYVIYGPPGTGKTMTLVEAILQVYST 445 (806)
Q Consensus 418 ~~~~lI~GPPGTGKT~tlv~~i~qll~~ 445 (806)
++.+.|.|+||+||||+ ++++.+++..
T Consensus 5 ~piI~ItG~SGsGKTTv-a~~l~~if~~ 31 (290)
T PRK15453 5 HPIIAVTGSSGAGTTTV-KRAFEKIFRR 31 (290)
T ss_pred CcEEEEECCCCCCHHHH-HHHHHHHHhh
Confidence 45688999999999976 4666666653
No 478
>PF13479 AAA_24: AAA domain
Probab=90.02 E-value=0.25 Score=50.97 Aligned_cols=26 Identities=38% Similarity=0.704 Sum_probs=19.9
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
++|.|+||+|||+++..+ .++|++..
T Consensus 6 ~lIyG~~G~GKTt~a~~~----------~k~l~id~ 31 (213)
T PF13479_consen 6 ILIYGPPGSGKTTLAASL----------PKPLFIDT 31 (213)
T ss_pred EEEECCCCCCHHHHHHhC----------CCeEEEEe
Confidence 799999999999876543 45666655
No 479
>PRK13764 ATPase; Provisional
Probab=90.01 E-value=0.52 Score=55.79 Aligned_cols=24 Identities=25% Similarity=0.253 Sum_probs=19.7
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.++|.|||||||||++..++..+.
T Consensus 259 ~ILIsG~TGSGKTTll~AL~~~i~ 282 (602)
T PRK13764 259 GILIAGAPGAGKSTFAQALAEFYA 282 (602)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHh
Confidence 489999999999999877665553
No 480
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=89.98 E-value=0.39 Score=53.62 Aligned_cols=30 Identities=23% Similarity=0.344 Sum_probs=21.0
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCe
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSR 450 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~r 450 (806)
.+|.||||+|||+.+...+..+..++++..
T Consensus 172 ~lIvgppGvGKTTLaK~Ian~I~~nhFDv~ 201 (416)
T PRK09376 172 GLIVAPPKAGKTVLLQNIANSITTNHPEVH 201 (416)
T ss_pred EEEeCCCCCChhHHHHHHHHHHHhhcCCeE
Confidence 699999999999766665555544434444
No 481
>PTZ00202 tuzin; Provisional
Probab=89.97 E-value=0.6 Score=52.70 Aligned_cols=62 Identities=16% Similarity=0.160 Sum_probs=37.6
Q ss_pred CHHHHHHHHHHHhCC--CC-CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 402 NEEQTRSVEIILGCK--GA-PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 402 N~eQ~~AV~~il~~~--~~-~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
-+.+.+++..++... .. ...+|.|++|+|||+.+..++..+ +.-.++.-+. ..+++...+..
T Consensus 267 ReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l-----~~~qL~vNpr--g~eElLr~LL~ 331 (550)
T PTZ00202 267 REAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE-----GMPAVFVDVR--GTEDTLRSVVK 331 (550)
T ss_pred cHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC-----CceEEEECCC--CHHHHHHHHHH
Confidence 355667777777521 12 357899999999999876665432 1224444444 34566666654
No 482
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=89.94 E-value=0.45 Score=55.81 Aligned_cols=50 Identities=18% Similarity=0.304 Sum_probs=36.8
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHHHHHHhc
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHMLERLIS 470 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l~erL~~ 470 (806)
..++|.|+||||||+.....+.+.+.. .+.++|+++..... +.+.+++..
T Consensus 32 s~~li~G~pGsGKT~l~~qf~~~~~~~-~ge~~lyis~ee~~-~~i~~~~~~ 81 (509)
T PRK09302 32 RPTLVSGTAGTGKTLFALQFLVNGIKR-FDEPGVFVTFEESP-EDIIRNVAS 81 (509)
T ss_pred cEEEEEeCCCCCHHHHHHHHHHHHHHh-cCCCEEEEEccCCH-HHHHHHHHH
Confidence 468999999999999888777666653 36889998886654 455555544
No 483
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.88 E-value=0.44 Score=56.86 Aligned_cols=41 Identities=24% Similarity=0.352 Sum_probs=27.8
Q ss_pred CCCHHHHHHHHHHHhCC-----CCCCEEEEcCCCCChHHHHHHHHH
Q 038509 400 SLNEEQTRSVEIILGCK-----GAPPYVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 400 ~LN~eQ~~AV~~il~~~-----~~~~~lI~GPPGTGKT~tlv~~i~ 440 (806)
..++.+.+.|...+... ....++|.||||||||+++-..+.
T Consensus 87 ~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~ 132 (637)
T TIGR00602 87 AVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSK 132 (637)
T ss_pred cCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHH
Confidence 45667767777666421 122489999999999998655443
No 484
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=89.86 E-value=0.66 Score=51.62 Aligned_cols=129 Identities=16% Similarity=0.121 Sum_probs=71.8
Q ss_pred CCHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC-------CCCeEEEEecchHHHHHHHHHHhcccc
Q 038509 401 LNEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR-------EHSRILVCAASNSAADHMLERLISNEV 473 (806)
Q Consensus 401 LN~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~-------~~~rILv~apSN~Aad~l~erL~~~~~ 473 (806)
-|--|..||-.+|...+ ++..+--|||||-+-+-=+.|.+-+. .+-.-+|++||...+..+..-+.+..
T Consensus 42 pTlIQs~aIplaLEgKD---vvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~- 117 (569)
T KOG0346|consen 42 PTLIQSSAIPLALEGKD---VVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLV- 117 (569)
T ss_pred cchhhhcccchhhcCcc---eeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHH-
Confidence 46678888888887543 68999999999977443334433211 23466899999999887766554310
Q ss_pred cCcccccEEEcccCCCCCCCCChhhhhhhchhhhhccCCchhhhccceeeeeeecccccccccC--CcCCCCcEEEEecC
Q 038509 474 AGIKENEILRLNATSRPYEDVPTDFIRFCFFEESIFKCPPREALGRYRIIISTYMSSSLLNTNG--IKRGNFSHIFLDEA 551 (806)
Q Consensus 474 ~~~~~~~i~Rl~~~~r~~~~i~~~~~~~~~~~~~~~~~~~~~~L~~~~Vi~~T~~s~~~l~~~~--~~~~~Fd~ViIDEA 551 (806)
..+...+|....+. ++.+...+ .-.+...+||++|..........+ ....+..+++||||
T Consensus 118 --~~c~k~lr~~nl~s---~~sdsv~~-------------~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEA 179 (569)
T KOG0346|consen 118 --EYCSKDLRAINLAS---SMSDSVNS-------------VALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEA 179 (569)
T ss_pred --HHHHHhhhhhhhhc---ccchHHHH-------------HHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEechh
Confidence 01111222211110 01111100 122345678888865432221111 24457789999999
No 485
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=89.83 E-value=0.39 Score=58.15 Aligned_cols=38 Identities=18% Similarity=0.313 Sum_probs=28.5
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEec
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAA 456 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ap 456 (806)
..+.+.||.|+|||||++..+..+......++|.+++.
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~ 223 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTT 223 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecC
Confidence 35789999999999999988877654333457766554
No 486
>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=89.80 E-value=0.44 Score=50.27 Aligned_cols=32 Identities=19% Similarity=0.370 Sum_probs=21.1
Q ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEE
Q 038509 421 YVIYGPPGTGKTMTLVEAILQVYSTREHSRILVC 454 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~ 454 (806)
+++.|+|||||||.......++-. .+.++.++
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~--~~~~v~~i 33 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSE--KNIDVIIL 33 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH--cCCceEEE
Confidence 689999999999876555544432 23444444
No 487
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=89.80 E-value=0.78 Score=56.77 Aligned_cols=45 Identities=13% Similarity=0.164 Sum_probs=38.0
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADHM 464 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~l 464 (806)
-+.|.=+-|||||.|.+..|.+|.+..+-.+++++.||++-..-.
T Consensus 61 n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv 105 (986)
T PRK15483 61 NIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGT 105 (986)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHH
Confidence 367888899999999999999999887788999999997654433
No 488
>CHL00095 clpC Clp protease ATP binding subunit
Probab=89.76 E-value=0.68 Score=57.57 Aligned_cols=54 Identities=28% Similarity=0.398 Sum_probs=33.2
Q ss_pred CHHHHHHHHHHHhCCCCCCEEEEcCCCCChHHHHHHHHHHHHHhC------CCCeEEEEec
Q 038509 402 NEEQTRSVEIILGCKGAPPYVIYGPPGTGKTMTLVEAILQVYSTR------EHSRILVCAA 456 (806)
Q Consensus 402 N~eQ~~AV~~il~~~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~------~~~rILv~ap 456 (806)
.+++.+.+..+|..+.....++.||||+|||+++ +.+++.+... .+.+++.+..
T Consensus 184 r~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~-~~la~~i~~~~vp~~l~~~~i~~l~~ 243 (821)
T CHL00095 184 REKEIERVIQILGRRTKNNPILIGEPGVGKTAIA-EGLAQRIVNRDVPDILEDKLVITLDI 243 (821)
T ss_pred cHHHHHHHHHHHcccccCCeEEECCCCCCHHHHH-HHHHHHHHhCCCChhhcCCeEEEeeH
Confidence 3455556666776444445799999999999865 5555544322 2456665443
No 489
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=89.75 E-value=0.96 Score=55.13 Aligned_cols=65 Identities=17% Similarity=0.269 Sum_probs=44.1
Q ss_pred CCHHHHH---HHHHHHhCC---CCCCEEEEcCCCCChHHHHHHHHHHHHH-hCCCCeEEEEecchHHHHHHHHH
Q 038509 401 LNEEQTR---SVEIILGCK---GAPPYVIYGPPGTGKTMTLVEAILQVYS-TREHSRILVCAASNSAADHMLER 467 (806)
Q Consensus 401 LN~eQ~~---AV~~il~~~---~~~~~lI~GPPGTGKT~tlv~~i~qll~-~~~~~rILv~apSN~Aad~l~er 467 (806)
-=+.|.+ +|...+... +....+|.+|.|||||.. ..+-.++. ...+++|+|.|.|...-+.|..+
T Consensus 26 ~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTla--YLlPai~~A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 26 PRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLS--YLLAGIPIARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred cCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHH--HHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhh
Confidence 3567877 555555532 124589999999999964 33332222 12578999999999998888654
No 490
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=89.73 E-value=0.37 Score=49.14 Aligned_cols=40 Identities=23% Similarity=0.413 Sum_probs=27.3
Q ss_pred CCEEEEcCCCCChHHHHHHHHHHHHHhC--CCCeEEEEecch
Q 038509 419 PPYVIYGPPGTGKTMTLVEAILQVYSTR--EHSRILVCAASN 458 (806)
Q Consensus 419 ~~~lI~GPPGTGKT~tlv~~i~qll~~~--~~~rILv~apSN 458 (806)
+.++|.|.+|||||+++...+.+++... ...++.++-+.+
T Consensus 39 ~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~ 80 (205)
T PF01580_consen 39 PHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPKG 80 (205)
T ss_dssp -SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTS
T ss_pred ceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCCc
Confidence 3589999999999999999999888633 344566666543
No 491
>PTZ00088 adenylate kinase 1; Provisional
Probab=89.70 E-value=0.28 Score=51.15 Aligned_cols=20 Identities=35% Similarity=0.690 Sum_probs=15.3
Q ss_pred EEEEcCCCCChHHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAILQ 441 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~q 441 (806)
++|.||||+||||.. ..+++
T Consensus 9 Ivl~G~PGsGK~T~a-~~La~ 28 (229)
T PTZ00088 9 IVLFGAPGVGKGTFA-EILSK 28 (229)
T ss_pred EEEECCCCCCHHHHH-HHHHH
Confidence 799999999999754 44433
No 492
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=89.66 E-value=1.2 Score=33.85 Aligned_cols=45 Identities=16% Similarity=0.277 Sum_probs=32.2
Q ss_pred EEEEEecCCccEEEEEEEEeecCCCCceeEEecCCCCCCCCCCCcccccccccccCeeeCCCCeEEEEEEE
Q 038509 69 SITIQNTTPEPVEVWGIRIYCSEPANSLTLSLMEPPSGKPDPQKDQGFLEGFSIEDRVLQPLRTLTIWLSC 139 (806)
Q Consensus 69 ~~~~~n~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 139 (806)
++.++|+|+.++.+..++.-|. -...+ .+...|.|||+..|.+++
T Consensus 1 ~F~~~N~g~~~L~I~~v~tsCg----Ct~~~----------------------~~~~~i~PGes~~i~v~y 45 (45)
T PF07610_consen 1 TFEFTNTGDSPLVITDVQTSCG----CTTAE----------------------YSKKPIAPGESGKIKVTY 45 (45)
T ss_pred CEEEEECCCCcEEEEEeeEccC----CEEee----------------------CCcceECCCCEEEEEEEC
Confidence 4789999999999999877432 11111 123469999999998864
No 493
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=89.66 E-value=0.3 Score=50.71 Aligned_cols=20 Identities=45% Similarity=0.861 Sum_probs=15.4
Q ss_pred EEEEcCCCCChHHHHHHHHH
Q 038509 421 YVIYGPPGTGKTMTLVEAIL 440 (806)
Q Consensus 421 ~lI~GPPGTGKT~tlv~~i~ 440 (806)
++..||||||||......++
T Consensus 208 vLmYGPPGTGKTlmARAcAa 227 (424)
T KOG0652|consen 208 VLMYGPPGTGKTLMARACAA 227 (424)
T ss_pred eEeeCCCCCcHHHHHHHHHH
Confidence 79999999999975444333
No 494
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=89.66 E-value=0.46 Score=54.07 Aligned_cols=23 Identities=30% Similarity=0.622 Sum_probs=18.9
Q ss_pred EEEcCCCCChHHHHHHHHHHHHH
Q 038509 422 VIYGPPGTGKTMTLVEAILQVYS 444 (806)
Q Consensus 422 lI~GPPGTGKT~tlv~~i~qll~ 444 (806)
.|.|||||||||.|-.++.++-+
T Consensus 73 avvGPpGtGKsTLirSlVrr~tk 95 (1077)
T COG5192 73 AVVGPPGTGKSTLIRSLVRRFTK 95 (1077)
T ss_pred EeecCCCCChhHHHHHHHHHHHH
Confidence 37999999999998887776554
No 495
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=89.65 E-value=0.58 Score=55.00 Aligned_cols=37 Identities=27% Similarity=0.338 Sum_probs=26.9
Q ss_pred CCcEEEEecCCCCcchhHHHHHhhccc---CCCEEEEecC
Q 038509 542 NFSHIFLDEAGQASEPESMIPIANLCT---KQTVVVLAGD 578 (806)
Q Consensus 542 ~Fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~lVLvGD 578 (806)
++++||+|||.-+++++....+-.+.. ++.-+|-||-
T Consensus 533 kP~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~H 572 (604)
T COG4178 533 KPKWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGH 572 (604)
T ss_pred CCCEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEecc
Confidence 679999999999999987776654432 3445666654
No 496
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=89.65 E-value=0.52 Score=51.53 Aligned_cols=40 Identities=18% Similarity=0.117 Sum_probs=29.9
Q ss_pred CCCCCHHHHHHHHHHHhC--------CCCCCEEEEcCCCCChHHHHHH
Q 038509 398 FNSLNEEQTRSVEIILGC--------KGAPPYVIYGPPGTGKTMTLVE 437 (806)
Q Consensus 398 ~~~LN~eQ~~AV~~il~~--------~~~~~~lI~GPPGTGKT~tlv~ 437 (806)
+..|+++|++++..++.. .....++|.|+||||||++...
T Consensus 105 l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~ 152 (309)
T PRK08154 105 LEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRM 152 (309)
T ss_pred HhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHH
Confidence 448999999998877641 1234588999999999986544
No 497
>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=89.60 E-value=0.28 Score=48.82 Aligned_cols=23 Identities=26% Similarity=0.310 Sum_probs=17.1
Q ss_pred CEEEEcCCCCChHHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQVY 443 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~qll 443 (806)
.++|.||+|+||||++- ++...+
T Consensus 3 ~~~i~G~sGsGKttl~~-~l~~~~ 25 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLD-YARARL 25 (179)
T ss_pred EEEEECCCCCCHHHHHH-HHHHHc
Confidence 47899999999998755 344333
No 498
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=89.54 E-value=0.64 Score=44.18 Aligned_cols=57 Identities=12% Similarity=0.093 Sum_probs=32.4
Q ss_pred CHHHHHHHHHHHhC--CCCCCEEEEcCCCCChHHHHHHHHHHHHHhCCCCeEEEEecchHHHHH
Q 038509 402 NEEQTRSVEIILGC--KGAPPYVIYGPPGTGKTMTLVEAILQVYSTREHSRILVCAASNSAADH 463 (806)
Q Consensus 402 N~eQ~~AV~~il~~--~~~~~~lI~GPPGTGKT~tlv~~i~qll~~~~~~rILv~apSN~Aad~ 463 (806)
|+++..++-..+.. .....+++.|+.|+|||+.+...+.. +. ..--|.+||=+-+.+
T Consensus 4 s~~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~-lg----~~~~v~SPTf~lv~~ 62 (133)
T TIGR00150 4 DEKAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQG-LG----IQGNVTSPTFTLVNE 62 (133)
T ss_pred CHHHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHH-cC----CCCcccCCCeeeeee
Confidence 45555555554432 23346889999999999876544443 31 112366776444433
No 499
>PRK05541 adenylylsulfate kinase; Provisional
Probab=89.53 E-value=0.48 Score=47.03 Aligned_cols=23 Identities=26% Similarity=0.241 Sum_probs=17.6
Q ss_pred CEEEEcCCCCChHHHHHHHHHHH
Q 038509 420 PYVIYGPPGTGKTMTLVEAILQV 442 (806)
Q Consensus 420 ~~lI~GPPGTGKT~tlv~~i~ql 442 (806)
.+++.|+|||||||.+......+
T Consensus 9 ~I~i~G~~GsGKst~a~~l~~~l 31 (176)
T PRK05541 9 VIWITGLAGSGKTTIAKALYERL 31 (176)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHH
Confidence 57899999999998765544444
No 500
>PRK01184 hypothetical protein; Provisional
Probab=89.52 E-value=0.27 Score=49.21 Aligned_cols=15 Identities=33% Similarity=0.441 Sum_probs=13.1
Q ss_pred CEEEEcCCCCChHHH
Q 038509 420 PYVIYGPPGTGKTMT 434 (806)
Q Consensus 420 ~~lI~GPPGTGKT~t 434 (806)
.++|.|||||||||+
T Consensus 3 ~i~l~G~~GsGKsT~ 17 (184)
T PRK01184 3 IIGVVGMPGSGKGEF 17 (184)
T ss_pred EEEEECCCCCCHHHH
Confidence 368999999999994
Done!