Query 001501
Match_columns 1066
No_of_seqs 613 out of 2600
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 02:24:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001501.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001501hhsearch_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 3E-180 8E-185 1523.0 63.2 788 118-917 38-931 (935)
2 TIGR00376 DNA helicase, putati 100.0 2.1E-79 4.6E-84 744.6 52.6 552 243-825 25-636 (637)
3 KOG1803 DNA helicase [Replicat 100.0 1.7E-79 3.7E-84 703.0 32.5 554 256-824 53-633 (649)
4 KOG1805 DNA replication helica 100.0 3.9E-62 8.4E-67 579.0 24.7 389 388-821 667-1077(1100)
5 KOG1807 Helicases [Replication 100.0 1.3E-51 2.9E-56 477.1 25.2 283 526-822 693-979 (1025)
6 COG1112 Superfamily I DNA and 100.0 4.4E-45 9.6E-50 457.1 36.7 487 326-824 207-754 (767)
7 PF09416 UPF1_Zn_bind: RNA hel 100.0 2.6E-47 5.6E-52 375.6 6.9 95 143-239 1-95 (152)
8 KOG1801 tRNA-splicing endonucl 100.0 3.1E-35 6.7E-40 366.2 25.7 293 531-825 514-815 (827)
9 KOG1804 RNA helicase [RNA proc 100.0 1.5E-36 3.3E-41 365.5 10.7 373 405-824 326-724 (775)
10 PF13087 AAA_12: AAA domain; P 100.0 3.8E-34 8.1E-39 301.2 7.8 195 602-799 1-200 (200)
11 PF13086 AAA_11: AAA domain; P 100.0 8.2E-31 1.8E-35 279.5 17.6 204 390-594 1-235 (236)
12 TIGR01075 uvrD DNA helicase II 100.0 6.4E-31 1.4E-35 327.0 17.2 304 389-727 3-360 (715)
13 PRK11773 uvrD DNA-dependent he 100.0 6.1E-31 1.3E-35 327.2 16.0 304 389-729 8-367 (721)
14 TIGR01073 pcrA ATP-dependent D 100.0 2.6E-30 5.6E-35 322.3 18.5 305 389-728 3-363 (726)
15 PRK10919 ATP-dependent DNA hel 100.0 4.7E-30 1E-34 316.2 17.0 238 390-641 2-294 (672)
16 PRK10875 recD exonuclease V su 100.0 2.7E-29 5.9E-34 303.4 18.6 153 391-594 153-310 (615)
17 PRK11054 helD DNA helicase IV; 100.0 7.7E-29 1.7E-33 303.7 20.1 367 389-798 195-663 (684)
18 TIGR01447 recD exodeoxyribonuc 100.0 1E-29 2.2E-34 306.7 12.0 337 393-801 148-574 (586)
19 KOG1806 DEAD box containing he 99.9 4.9E-28 1.1E-32 288.2 11.7 417 390-813 738-1262(1320)
20 TIGR01074 rep ATP-dependent DN 99.9 1.2E-27 2.5E-32 296.1 12.9 296 390-718 1-350 (664)
21 TIGR01448 recD_rel helicase, p 99.9 1.6E-26 3.6E-31 285.9 19.6 300 389-802 322-702 (720)
22 COG0210 UvrD Superfamily I DNA 99.9 2.9E-25 6.4E-30 274.4 19.7 310 390-731 2-371 (655)
23 TIGR02768 TraA_Ti Ti-type conj 99.9 6.4E-23 1.4E-27 254.9 21.9 300 389-811 351-723 (744)
24 TIGR00609 recB exodeoxyribonuc 99.9 3E-23 6.5E-28 267.6 19.1 170 550-733 295-493 (1087)
25 COG1074 RecB ATP-dependent exo 99.9 2E-23 4.3E-28 269.7 13.4 170 550-732 377-577 (1139)
26 TIGR02785 addA_Gpos recombinat 99.9 1.9E-22 4.2E-27 262.8 22.4 65 390-456 1-67 (1232)
27 PRK13826 Dtr system oriT relax 99.9 1.3E-21 2.8E-26 246.5 22.4 308 389-820 380-783 (1102)
28 PRK13909 putative recombinatio 99.9 1.3E-21 2.9E-26 248.9 21.0 153 550-732 327-494 (910)
29 PRK13889 conjugal transfer rel 99.9 2E-21 4.3E-26 244.0 22.0 169 389-643 345-517 (988)
30 PRK10876 recB exonuclease V su 99.9 2.5E-21 5.5E-26 250.4 18.0 169 550-732 376-574 (1181)
31 TIGR02784 addA_alphas double-s 99.8 5.7E-20 1.2E-24 239.5 23.1 168 550-730 390-606 (1141)
32 PF13604 AAA_30: AAA domain; P 99.8 3.7E-19 8.1E-24 188.3 9.4 173 390-643 1-178 (196)
33 PRK13709 conjugal transfer nic 99.8 6.2E-18 1.3E-22 221.3 20.6 172 389-642 966-1146(1747)
34 PRK14712 conjugal transfer nic 99.8 7.7E-18 1.7E-22 217.7 21.0 167 389-636 834-1009(1623)
35 COG3973 Superfamily I DNA and 99.7 4.3E-17 9.3E-22 188.9 13.6 209 549-797 526-745 (747)
36 TIGR02760 TraI_TIGR conjugativ 99.7 3.6E-16 7.7E-21 210.1 18.7 171 389-642 1018-1198(1960)
37 PF01443 Viral_helicase1: Vira 99.7 2.7E-16 5.8E-21 169.5 10.3 168 551-795 62-233 (234)
38 PF00580 UvrD-helicase: UvrD/R 99.6 1.1E-15 2.4E-20 170.8 7.6 64 391-456 1-67 (315)
39 TIGR02760 TraI_TIGR conjugativ 99.5 2.3E-13 5E-18 183.4 22.7 167 390-630 429-601 (1960)
40 COG0507 RecD ATP-dependent exo 99.5 3.6E-14 7.8E-19 177.2 10.7 133 389-595 318-453 (696)
41 PF09848 DUF2075: Uncharacteri 99.5 9.6E-14 2.1E-18 159.9 9.7 165 406-643 2-184 (352)
42 COG3972 Superfamily I DNA and 99.4 2.4E-13 5.2E-18 154.7 9.9 365 389-796 161-574 (660)
43 PF13361 UvrD_C: UvrD-like hel 99.3 1.2E-12 2.6E-17 147.9 4.2 96 618-733 1-101 (351)
44 PF05970 PIF1: PIF1-like helic 99.3 3.8E-12 8.2E-17 147.3 6.5 60 390-450 1-66 (364)
45 PF13245 AAA_19: Part of AAA d 99.2 2E-11 4.4E-16 109.9 7.5 58 397-454 1-62 (76)
46 PRK10536 hypothetical protein; 98.9 5.3E-09 1.1E-13 114.3 10.8 58 386-443 55-113 (262)
47 PF02562 PhoH: PhoH-like prote 98.9 1.7E-09 3.7E-14 115.0 6.5 58 389-446 3-61 (205)
48 TIGR02773 addB_Gpos ATP-depend 98.9 3.5E-08 7.6E-13 130.1 19.2 159 551-732 196-360 (1158)
49 smart00487 DEXDc DEAD-like hel 98.8 8.2E-08 1.8E-12 98.6 12.9 69 389-457 7-77 (201)
50 KOG1804 RNA helicase [RNA proc 98.7 3.1E-09 6.8E-14 130.3 0.8 391 388-827 118-550 (775)
51 cd00046 DEXDc DEAD-like helica 98.5 4.8E-07 1E-11 87.4 10.3 51 407-457 2-53 (144)
52 PRK10590 ATP-dependent RNA hel 98.5 2.3E-05 4.9E-10 93.9 26.7 69 389-457 22-98 (456)
53 PF13538 UvrD_C_2: UvrD-like h 98.5 2.3E-08 4.9E-13 94.6 0.1 50 742-795 55-104 (104)
54 PF00270 DEAD: DEAD/DEAH box h 98.4 2.1E-06 4.5E-11 87.5 11.9 66 392-457 1-67 (169)
55 PRK04537 ATP-dependent RNA hel 98.4 0.00026 5.7E-09 87.1 31.2 70 388-457 29-107 (572)
56 KOG2108 3'-5' DNA helicase [Re 98.3 4.6E-07 1E-11 110.7 5.1 65 390-456 13-80 (853)
57 PRK11634 ATP-dependent RNA hel 98.3 2.1E-05 4.6E-10 97.5 19.6 68 389-456 27-96 (629)
58 cd00268 DEADc DEAD-box helicas 98.3 9.1E-06 2E-10 85.9 13.3 69 389-457 20-92 (203)
59 TIGR00580 mfd transcription-re 98.2 2.3E-05 4.9E-10 100.5 17.5 67 390-457 451-523 (926)
60 PHA02558 uvsW UvsW helicase; P 98.2 8.3E-06 1.8E-10 98.7 12.2 68 390-457 114-181 (501)
61 PRK11192 ATP-dependent RNA hel 98.1 2.3E-05 4.9E-10 93.1 14.4 69 389-457 22-96 (434)
62 PRK10689 transcription-repair 98.1 4.2E-05 9E-10 100.2 17.2 66 390-456 600-671 (1147)
63 PRK05580 primosome assembly pr 98.1 2.9E-05 6.4E-10 97.2 15.0 75 389-464 143-221 (679)
64 PTZ00424 helicase 45; Provisio 98.0 2.6E-05 5.5E-10 91.4 12.0 70 388-457 48-119 (401)
65 PRK11776 ATP-dependent RNA hel 98.0 4.6E-05 9.9E-10 91.3 13.8 70 388-457 24-95 (460)
66 PRK10917 ATP-dependent DNA hel 98.0 5.3E-05 1.1E-09 95.1 13.6 67 390-457 261-333 (681)
67 TIGR00643 recG ATP-dependent D 98.0 5E-05 1.1E-09 94.5 13.2 67 390-457 235-307 (630)
68 PRK02362 ski2-like helicase; P 97.9 1.5E-05 3.2E-10 101.0 8.1 76 388-464 21-100 (737)
69 PRK00254 ski2-like helicase; P 97.9 3.8E-05 8.1E-10 97.1 11.0 68 388-456 21-90 (720)
70 PF07652 Flavi_DEAD: Flaviviru 97.9 4.5E-05 9.8E-10 76.7 8.1 53 405-458 4-57 (148)
71 PRK04837 ATP-dependent RNA hel 97.8 5.2E-05 1.1E-09 89.8 10.1 69 388-456 28-105 (423)
72 PRK01172 ski2-like helicase; P 97.8 7.3E-05 1.6E-09 93.9 11.9 66 390-456 22-87 (674)
73 PF04851 ResIII: Type III rest 97.8 3.6E-05 7.7E-10 79.1 7.2 64 390-457 3-73 (184)
74 COG1702 PhoH Phosphate starvat 97.8 0.0001 2.2E-09 83.3 10.4 55 388-442 126-181 (348)
75 COG1061 SSL2 DNA or RNA helica 97.8 7.5E-05 1.6E-09 89.1 10.0 65 389-457 35-103 (442)
76 PTZ00110 helicase; Provisional 97.7 0.00029 6.3E-09 86.4 14.2 70 388-457 150-226 (545)
77 COG1875 NYN ribonuclease and A 97.7 0.00011 2.5E-09 83.0 9.6 56 388-443 226-285 (436)
78 PRK13766 Hef nuclease; Provisi 97.7 0.00023 4.9E-09 90.8 13.2 67 390-457 15-81 (773)
79 PRK11448 hsdR type I restricti 97.7 0.00017 3.8E-09 94.2 11.4 69 390-458 413-487 (1123)
80 TIGR03817 DECH_helic helicase/ 97.7 0.00028 6.1E-09 89.3 13.0 71 388-458 34-105 (742)
81 PRK01297 ATP-dependent RNA hel 97.6 0.00027 5.9E-09 85.1 12.0 70 388-457 107-185 (475)
82 TIGR01054 rgy reverse gyrase. 97.6 0.00026 5.7E-09 93.2 11.4 67 390-457 78-144 (1171)
83 COG1204 Superfamily II helicas 97.6 0.00023 5E-09 89.8 10.1 77 388-464 29-109 (766)
84 PRK09401 reverse gyrase; Revie 97.6 0.00038 8.2E-09 91.6 12.3 67 390-457 80-146 (1176)
85 TIGR00603 rad25 DNA repair hel 97.6 0.00047 1E-08 86.0 12.4 64 390-457 255-321 (732)
86 PRK08181 transposase; Validate 97.5 0.00075 1.6E-08 75.4 12.6 53 388-441 85-141 (269)
87 TIGR00614 recQ_fam ATP-depende 97.5 0.001 2.2E-08 80.1 14.3 74 388-465 9-82 (470)
88 TIGR03117 cas_csf4 CRISPR-asso 97.5 0.00078 1.7E-08 83.2 13.1 58 398-455 8-67 (636)
89 PLN00206 DEAD-box ATP-dependen 97.5 0.00065 1.4E-08 82.8 12.3 68 389-456 142-218 (518)
90 PHA02653 RNA helicase NPH-II; 97.5 0.00087 1.9E-08 83.6 13.5 76 381-456 154-244 (675)
91 PRK14712 conjugal transfer nic 97.5 0.00078 1.7E-08 89.8 13.2 64 389-453 280-346 (1623)
92 smart00488 DEXDc2 DEAD-like he 97.4 0.0015 3.3E-08 73.8 13.8 65 392-456 10-83 (289)
93 smart00489 DEXDc3 DEAD-like he 97.4 0.0015 3.3E-08 73.8 13.8 65 392-456 10-83 (289)
94 PRK06526 transposase; Provisio 97.4 0.0008 1.7E-08 74.6 11.3 51 388-439 78-131 (254)
95 PF13401 AAA_22: AAA domain; P 97.4 0.00018 3.8E-09 70.4 5.0 51 405-455 4-59 (131)
96 PRK14974 cell division protein 97.4 0.0017 3.6E-08 74.8 13.4 56 406-462 141-199 (336)
97 PF05127 Helicase_RecD: Helica 97.4 2.6E-05 5.7E-10 81.4 -1.2 47 409-455 1-47 (177)
98 TIGR00348 hsdR type I site-spe 97.4 0.00078 1.7E-08 84.5 11.4 68 391-458 239-317 (667)
99 PRK14701 reverse gyrase; Provi 97.3 0.0013 2.9E-08 88.8 13.7 67 390-457 79-145 (1638)
100 TIGR00595 priA primosomal prot 97.3 0.0009 2E-08 81.2 11.1 48 409-457 1-48 (505)
101 TIGR01389 recQ ATP-dependent D 97.3 0.0021 4.5E-08 79.7 14.4 73 388-464 11-83 (591)
102 PRK13767 ATP-dependent helicas 97.3 0.0011 2.5E-08 85.4 12.3 67 389-455 31-105 (876)
103 PRK04296 thymidine kinase; Pro 97.3 0.0005 1.1E-08 72.8 7.3 36 406-442 3-38 (190)
104 PRK11664 ATP-dependent RNA hel 97.3 0.0009 2E-08 85.3 10.7 61 395-456 9-70 (812)
105 TIGR01970 DEAH_box_HrpB ATP-de 97.3 0.0011 2.3E-08 84.6 11.2 61 395-456 6-67 (819)
106 PRK11057 ATP-dependent DNA hel 97.2 0.0026 5.7E-08 79.1 13.8 71 389-463 24-94 (607)
107 PF00448 SRP54: SRP54-type pro 97.2 0.0022 4.8E-08 68.4 11.4 57 407-463 3-61 (196)
108 COG4098 comFA Superfamily II D 97.2 0.0015 3.2E-08 73.5 9.5 76 390-466 97-178 (441)
109 TIGR01587 cas3_core CRISPR-ass 97.2 0.0017 3.6E-08 75.1 10.6 50 408-457 2-52 (358)
110 KOG0952 DNA/RNA helicase MER3/ 97.2 0.0023 4.9E-08 80.4 11.8 69 388-456 108-186 (1230)
111 TIGR00604 rad3 DNA repair heli 97.2 0.002 4.4E-08 81.4 11.8 65 392-456 12-82 (705)
112 COG1110 Reverse gyrase [DNA re 97.1 0.0015 3.3E-08 81.8 10.0 68 390-458 82-149 (1187)
113 COG1200 RecG RecG-like helicas 97.1 0.011 2.4E-07 72.3 16.9 66 390-456 262-333 (677)
114 COG4096 HsdR Type I site-speci 97.1 0.0013 2.8E-08 81.2 9.1 68 390-457 165-238 (875)
115 COG1198 PriA Primosomal protei 97.1 0.002 4.2E-08 80.5 10.3 68 388-456 196-267 (730)
116 PF00176 SNF2_N: SNF2 family N 97.0 0.00098 2.1E-08 74.3 6.7 62 395-457 2-80 (299)
117 TIGR01967 DEAH_box_HrpA ATP-de 97.0 0.0016 3.4E-08 85.6 9.5 63 395-457 71-134 (1283)
118 KOG2108 3'-5' DNA helicase [Re 97.0 0.00012 2.6E-09 90.2 -1.0 53 743-795 675-740 (853)
119 PRK07246 bifunctional ATP-depe 97.0 0.0042 9E-08 79.6 12.5 62 390-453 245-310 (820)
120 PRK08084 DNA replication initi 97.0 0.0047 1E-07 67.7 11.2 52 390-442 27-81 (235)
121 KOG0354 DEAD-box like helicase 97.0 0.0023 5E-08 79.0 9.3 72 386-458 58-130 (746)
122 PF02399 Herpes_ori_bp: Origin 97.0 0.00082 1.8E-08 83.4 5.4 55 405-459 49-103 (824)
123 PF13173 AAA_14: AAA domain 96.9 0.0036 7.8E-08 61.8 8.5 41 405-447 2-42 (128)
124 PRK08074 bifunctional ATP-depe 96.8 0.006 1.3E-07 79.4 12.3 63 391-453 258-324 (928)
125 PRK14722 flhF flagellar biosyn 96.8 0.0059 1.3E-07 71.2 10.5 55 405-459 137-195 (374)
126 TIGR01407 dinG_rel DnaQ family 96.8 0.0044 9.5E-08 80.0 10.5 62 391-453 246-311 (850)
127 PRK13709 conjugal transfer nic 96.8 0.011 2.5E-07 80.0 14.5 62 391-453 414-478 (1747)
128 TIGR03158 cas3_cyano CRISPR-as 96.7 0.0096 2.1E-07 69.3 11.8 59 395-457 2-62 (357)
129 TIGR02621 cas3_GSU0051 CRISPR- 96.7 0.0046 1E-07 78.2 9.5 67 391-457 16-85 (844)
130 cd00009 AAA The AAA+ (ATPases 96.7 0.005 1.1E-07 59.8 7.8 55 393-448 4-61 (151)
131 PRK12723 flagellar biosynthesi 96.7 0.0084 1.8E-07 70.4 10.6 56 406-461 175-236 (388)
132 TIGR03499 FlhF flagellar biosy 96.7 0.0088 1.9E-07 67.4 10.5 36 407-442 196-232 (282)
133 COG1111 MPH1 ERCC4-like helica 96.7 0.0074 1.6E-07 71.2 9.9 122 391-565 16-145 (542)
134 PRK00771 signal recognition pa 96.7 0.01 2.2E-07 70.8 11.4 53 407-460 97-152 (437)
135 PRK12377 putative replication 96.6 0.0082 1.8E-07 66.4 9.7 49 392-441 80-136 (248)
136 PHA03311 helicase-primase subu 96.6 0.0076 1.6E-07 74.0 9.7 45 406-456 72-116 (828)
137 PRK11747 dinG ATP-dependent DN 96.6 0.032 7E-07 70.6 15.7 60 392-453 27-97 (697)
138 cd01124 KaiC KaiC is a circadi 96.6 0.0038 8.3E-08 64.9 6.1 52 407-460 1-52 (187)
139 PRK11889 flhF flagellar biosyn 96.5 0.016 3.4E-07 67.8 11.1 55 406-461 242-299 (436)
140 PRK07952 DNA replication prote 96.5 0.01 2.2E-07 65.5 9.2 59 391-455 77-143 (244)
141 COG4889 Predicted helicase [Ge 96.5 0.015 3.3E-07 71.8 11.1 75 389-467 160-242 (1518)
142 TIGR03015 pepcterm_ATPase puta 96.5 0.026 5.7E-07 62.4 12.3 38 392-429 25-67 (269)
143 TIGR01425 SRP54_euk signal rec 96.4 0.027 5.9E-07 66.8 12.9 56 406-461 101-158 (429)
144 PRK12899 secA preprotein trans 96.4 0.018 3.9E-07 73.2 11.9 65 390-456 92-157 (970)
145 PRK11131 ATP-dependent RNA hel 96.4 0.0042 9.1E-08 81.6 6.7 61 396-456 79-140 (1294)
146 COG0513 SrmB Superfamily II DN 96.4 0.044 9.5E-07 67.0 15.0 69 389-457 50-122 (513)
147 PRK12898 secA preprotein trans 96.4 0.021 4.5E-07 70.9 12.0 71 391-464 104-178 (656)
148 PRK07003 DNA polymerase III su 96.3 0.0084 1.8E-07 74.7 7.8 25 407-431 40-64 (830)
149 COG1199 DinG Rad3-related DNA 96.3 0.029 6.2E-07 70.5 12.6 67 390-456 15-85 (654)
150 PRK05703 flhF flagellar biosyn 96.3 0.02 4.2E-07 68.3 10.4 48 406-453 222-273 (424)
151 PRK04914 ATP-dependent helicas 96.2 0.048 1E-06 70.7 14.3 70 390-460 152-225 (956)
152 COG1643 HrpA HrpA-like helicas 96.1 0.023 4.9E-07 72.3 10.6 63 395-457 54-117 (845)
153 PRK12323 DNA polymerase III su 96.1 0.012 2.7E-07 72.3 7.8 25 407-431 40-64 (700)
154 PRK14956 DNA polymerase III su 96.1 0.011 2.4E-07 70.8 7.1 25 407-431 42-66 (484)
155 PRK07994 DNA polymerase III su 96.1 0.011 2.3E-07 73.4 7.3 24 408-431 41-64 (647)
156 PRK14958 DNA polymerase III su 96.0 0.015 3.2E-07 70.9 8.1 25 407-431 40-64 (509)
157 TIGR03714 secA2 accessory Sec 96.0 0.03 6.5E-07 70.5 10.5 64 390-455 68-132 (762)
158 smart00382 AAA ATPases associa 96.0 0.0058 1.3E-07 58.6 3.4 43 405-448 2-44 (148)
159 PLN03137 ATP-dependent DNA hel 95.9 0.06 1.3E-06 69.9 13.1 72 389-464 459-530 (1195)
160 TIGR00064 ftsY signal recognit 95.9 0.021 4.6E-07 64.1 8.0 56 406-462 73-131 (272)
161 PRK14087 dnaA chromosomal repl 95.9 0.08 1.7E-06 63.7 13.3 36 406-441 142-178 (450)
162 COG2256 MGS1 ATPase related to 95.8 0.027 5.9E-07 65.2 8.5 40 553-593 106-147 (436)
163 PHA03333 putative ATPase subun 95.8 0.13 2.8E-06 63.6 14.7 65 393-457 175-239 (752)
164 COG1205 Distinct helicase fami 95.8 0.049 1.1E-06 70.1 11.8 68 390-457 70-138 (851)
165 PRK14088 dnaA chromosomal repl 95.8 0.053 1.2E-06 65.0 11.2 35 407-441 132-167 (440)
166 COG1484 DnaC DNA replication p 95.8 0.026 5.6E-07 62.7 8.0 51 390-441 83-140 (254)
167 KOG0989 Replication factor C, 95.7 0.011 2.3E-07 66.2 4.6 27 405-431 57-83 (346)
168 PF06745 KaiC: KaiC; InterPro 95.7 0.018 3.8E-07 62.4 6.4 54 405-460 19-73 (226)
169 PRK14952 DNA polymerase III su 95.7 0.018 3.9E-07 71.0 6.8 24 407-430 37-60 (584)
170 PRK14949 DNA polymerase III su 95.6 0.016 3.5E-07 73.6 6.2 25 407-431 40-64 (944)
171 KOG0330 ATP-dependent RNA heli 95.6 0.035 7.6E-07 63.7 8.1 68 390-457 83-152 (476)
172 PF01695 IstB_IS21: IstB-like 95.6 0.034 7.3E-07 58.5 7.6 45 405-455 47-91 (178)
173 TIGR02774 rexB_recomb ATP-depe 95.6 0.18 3.9E-06 66.8 15.9 154 551-732 185-348 (1076)
174 KOG2028 ATPase related to the 95.6 0.021 4.5E-07 65.0 6.2 39 552-591 223-263 (554)
175 PRK12727 flagellar biosynthesi 95.6 0.052 1.1E-06 65.7 9.9 37 405-441 350-387 (559)
176 PRK14963 DNA polymerase III su 95.6 0.04 8.8E-07 67.0 9.1 26 407-432 38-63 (504)
177 KOG0987 DNA helicase PIF1/RRM3 95.6 0.0093 2E-07 73.1 3.7 58 389-448 116-179 (540)
178 PRK12422 chromosomal replicati 95.5 0.085 1.8E-06 63.3 11.7 35 406-441 142-176 (445)
179 PRK10416 signal recognition pa 95.5 0.035 7.5E-07 63.7 7.9 55 407-462 116-173 (318)
180 TIGR00708 cobA cob(I)alamin ad 95.5 0.08 1.7E-06 55.4 9.7 38 405-443 5-42 (173)
181 PRK14960 DNA polymerase III su 95.4 0.023 5E-07 70.2 6.3 25 406-430 38-62 (702)
182 cd01129 PulE-GspE PulE/GspE Th 95.4 0.026 5.6E-07 63.1 6.2 50 390-440 63-114 (264)
183 COG1197 Mfd Transcription-repa 95.3 0.24 5.2E-06 64.3 15.1 71 390-461 594-674 (1139)
184 KOG1924 RhoA GTPase effector D 95.3 0.07 1.5E-06 65.3 9.8 25 976-1000 611-635 (1102)
185 TIGR03877 thermo_KaiC_1 KaiC d 95.3 0.024 5.2E-07 62.1 5.7 54 405-460 21-74 (237)
186 cd01131 PilT Pilus retraction 95.3 0.022 4.7E-07 60.8 5.1 37 405-441 1-37 (198)
187 PRK08116 hypothetical protein; 95.3 0.06 1.3E-06 60.3 8.7 34 407-441 116-149 (268)
188 PLN03142 Probable chromatin-re 95.3 0.15 3.2E-06 66.7 13.2 149 390-587 169-331 (1033)
189 PRK09200 preprotein translocas 95.3 0.12 2.6E-06 65.7 12.1 61 393-456 81-141 (790)
190 cd03115 SRP The signal recogni 95.3 0.042 9.2E-07 56.8 7.0 34 407-441 2-35 (173)
191 PRK08691 DNA polymerase III su 95.2 0.029 6.2E-07 69.8 6.5 26 407-432 40-65 (709)
192 PRK14948 DNA polymerase III su 95.2 0.039 8.4E-07 68.7 7.7 26 406-431 39-64 (620)
193 PRK05973 replicative DNA helic 95.2 0.032 6.9E-07 61.3 6.2 53 405-459 64-116 (237)
194 cd00561 CobA_CobO_BtuR ATP:cor 95.2 0.12 2.6E-06 53.5 9.9 59 405-466 2-64 (159)
195 PRK05563 DNA polymerase III su 95.2 0.041 8.9E-07 67.8 7.6 26 406-431 39-64 (559)
196 PRK14951 DNA polymerase III su 95.2 0.034 7.4E-07 68.9 6.9 25 407-431 40-64 (618)
197 PRK14969 DNA polymerase III su 95.1 0.057 1.2E-06 66.1 8.7 24 407-430 40-63 (527)
198 PF00004 AAA: ATPase family as 95.1 0.015 3.4E-07 56.4 3.1 22 408-429 1-22 (132)
199 COG0552 FtsY Signal recognitio 95.1 0.049 1.1E-06 62.0 7.4 58 407-464 141-200 (340)
200 cd01120 RecA-like_NTPases RecA 95.1 0.036 7.8E-07 55.4 5.7 41 407-448 1-41 (165)
201 PRK08533 flagellar accessory p 95.1 0.035 7.6E-07 60.7 5.9 53 405-459 24-76 (230)
202 PRK09183 transposase/IS protei 95.0 0.051 1.1E-06 60.5 7.2 53 388-441 82-137 (259)
203 TIGR03880 KaiC_arch_3 KaiC dom 95.0 0.042 9E-07 59.5 6.2 54 405-460 16-69 (224)
204 PF13191 AAA_16: AAA ATPase do 94.9 0.051 1.1E-06 56.1 6.5 41 393-433 6-52 (185)
205 KOG0951 RNA helicase BRR2, DEA 94.9 0.039 8.4E-07 70.8 6.4 78 389-466 308-400 (1674)
206 TIGR03878 thermo_KaiC_2 KaiC d 94.9 0.037 8.1E-07 61.6 5.7 48 405-454 36-83 (259)
207 PRK10867 signal recognition pa 94.8 0.056 1.2E-06 64.4 7.3 56 407-462 102-160 (433)
208 PRK13833 conjugal transfer pro 94.8 0.055 1.2E-06 62.1 6.9 50 390-439 128-179 (323)
209 PRK13894 conjugal transfer ATP 94.8 0.057 1.2E-06 62.0 7.0 53 390-442 132-186 (319)
210 KOG0744 AAA+-type ATPase [Post 94.8 0.019 4E-07 64.6 2.9 28 405-432 177-204 (423)
211 PRK13104 secA preprotein trans 94.8 0.081 1.8E-06 67.4 8.8 47 409-456 99-145 (896)
212 COG2805 PilT Tfp pilus assembl 94.8 0.047 1E-06 61.2 5.9 35 405-439 125-159 (353)
213 TIGR00963 secA preprotein tran 94.8 0.15 3.2E-06 64.1 10.9 61 393-456 59-119 (745)
214 PRK07764 DNA polymerase III su 94.8 0.062 1.3E-06 68.9 7.8 25 407-431 39-63 (824)
215 PRK09694 helicase Cas3; Provis 94.8 0.09 2E-06 67.7 9.2 67 390-456 286-353 (878)
216 PRK14964 DNA polymerase III su 94.7 0.1 2.2E-06 63.2 9.1 24 407-430 37-60 (491)
217 smart00763 AAA_PrkA PrkA AAA d 94.7 0.067 1.4E-06 62.0 7.2 27 405-431 78-104 (361)
218 COG1419 FlhF Flagellar GTP-bin 94.7 0.13 2.8E-06 60.2 9.6 49 405-453 203-255 (407)
219 PRK06067 flagellar accessory p 94.7 0.057 1.2E-06 58.9 6.4 55 405-461 25-79 (234)
220 KOG0333 U5 snRNP-like RNA heli 94.6 0.49 1.1E-05 56.4 13.9 79 387-465 264-357 (673)
221 PRK06835 DNA replication prote 94.6 0.11 2.4E-06 59.9 8.8 36 405-441 183-218 (329)
222 PRK04328 hypothetical protein; 94.6 0.053 1.2E-06 60.0 6.0 54 405-460 23-76 (249)
223 PRK06893 DNA replication initi 94.6 0.099 2.1E-06 57.1 8.0 36 405-441 39-74 (229)
224 PF13481 AAA_25: AAA domain; P 94.6 0.052 1.1E-06 56.9 5.6 52 405-457 32-92 (193)
225 TIGR02782 TrbB_P P-type conjug 94.6 0.068 1.5E-06 60.9 6.8 52 390-441 116-169 (299)
226 KOG0780 Signal recognition par 94.6 0.19 4.2E-06 58.0 10.2 56 406-461 102-159 (483)
227 PF02689 Herpes_Helicase: Heli 94.6 0.1 2.2E-06 64.7 8.5 48 403-456 57-104 (818)
228 PRK09112 DNA polymerase III su 94.5 0.082 1.8E-06 61.5 7.5 26 407-432 47-72 (351)
229 COG0556 UvrB Helicase subunit 94.5 0.11 2.4E-06 61.9 8.5 61 393-457 15-80 (663)
230 PRK14086 dnaA chromosomal repl 94.5 0.17 3.8E-06 62.4 10.5 36 406-441 315-351 (617)
231 KOG0335 ATP-dependent RNA heli 94.5 0.077 1.7E-06 63.1 7.2 68 390-457 96-175 (482)
232 PRK10436 hypothetical protein; 94.5 0.054 1.2E-06 65.2 6.0 41 390-430 201-243 (462)
233 cd01122 GP4d_helicase GP4d_hel 94.5 0.064 1.4E-06 59.6 6.3 51 405-456 30-80 (271)
234 PRK08903 DnaA regulatory inact 94.5 0.11 2.4E-06 56.3 8.0 51 390-441 23-77 (227)
235 COG0541 Ffh Signal recognition 94.5 0.29 6.2E-06 57.7 11.6 56 407-462 102-159 (451)
236 TIGR03420 DnaA_homol_Hda DnaA 94.5 0.12 2.5E-06 55.7 8.1 50 391-441 21-73 (226)
237 TIGR02533 type_II_gspE general 94.4 0.048 1E-06 66.1 5.4 41 390-430 225-267 (486)
238 TIGR00959 ffh signal recogniti 94.4 0.093 2E-06 62.5 7.7 57 407-463 101-160 (428)
239 TIGR02928 orc1/cdc6 family rep 94.4 0.07 1.5E-06 61.8 6.6 41 392-432 20-67 (365)
240 PRK06851 hypothetical protein; 94.4 0.033 7.1E-07 64.9 3.7 48 405-452 30-78 (367)
241 PF05729 NACHT: NACHT domain 94.4 0.038 8.2E-07 55.7 3.8 28 406-433 1-28 (166)
242 PHA03368 DNA packaging termina 94.4 0.38 8.3E-06 59.4 12.8 59 399-457 248-307 (738)
243 KOG0922 DEAH-box RNA helicase 94.3 0.15 3.2E-06 62.4 9.1 59 398-456 59-117 (674)
244 PRK08727 hypothetical protein; 94.3 0.21 4.5E-06 54.7 9.7 35 406-441 42-76 (233)
245 PRK13341 recombination factor 94.3 0.12 2.6E-06 65.5 8.7 36 551-587 109-146 (725)
246 COG2804 PulE Type II secretory 94.2 0.066 1.4E-06 64.0 5.9 43 390-432 241-285 (500)
247 KOG0991 Replication factor C, 94.2 0.062 1.4E-06 58.1 5.1 27 405-431 48-74 (333)
248 TIGR02655 circ_KaiC circadian 94.2 0.062 1.3E-06 65.2 5.9 54 405-460 263-316 (484)
249 PRK07133 DNA polymerase III su 94.2 0.094 2E-06 65.9 7.5 26 406-431 41-66 (725)
250 TIGR02655 circ_KaiC circadian 94.2 0.063 1.4E-06 65.1 5.9 55 405-460 21-75 (484)
251 PRK06921 hypothetical protein; 94.2 0.13 2.9E-06 57.5 7.9 38 405-442 117-154 (266)
252 PRK09751 putative ATP-dependen 94.2 0.1 2.3E-06 70.1 8.2 47 410-456 1-59 (1490)
253 PF13207 AAA_17: AAA domain; P 94.2 0.04 8.7E-07 53.2 3.3 23 407-429 1-23 (121)
254 PRK14873 primosome assembly pr 94.1 0.2 4.4E-06 62.8 10.2 48 409-457 164-211 (665)
255 COG0467 RAD55 RecA-superfamily 94.1 0.07 1.5E-06 59.2 5.5 51 405-457 23-73 (260)
256 PRK07940 DNA polymerase III su 94.0 0.13 2.8E-06 60.8 7.6 26 407-432 38-63 (394)
257 TIGR02237 recomb_radB DNA repa 93.9 0.086 1.9E-06 56.2 5.7 39 405-444 12-50 (209)
258 PRK05986 cob(I)alamin adenolsy 93.9 0.52 1.1E-05 50.2 11.2 40 404-444 21-60 (191)
259 TIGR02525 plasmid_TraJ plasmid 93.9 0.12 2.5E-06 60.6 7.0 47 391-439 137-184 (372)
260 TIGR03881 KaiC_arch_4 KaiC dom 93.9 0.1 2.2E-06 56.6 6.1 53 405-459 20-72 (229)
261 PRK12726 flagellar biosynthesi 93.9 0.11 2.3E-06 60.8 6.6 56 405-461 206-264 (407)
262 PRK12326 preprotein translocas 93.9 0.21 4.5E-06 62.4 9.3 47 408-455 89-140 (764)
263 PRK14965 DNA polymerase III su 93.9 0.18 3.9E-06 62.5 9.0 37 395-431 24-64 (576)
264 cd00984 DnaB_C DnaB helicase C 93.8 0.1 2.2E-06 56.8 6.1 50 405-455 13-62 (242)
265 TIGR02538 type_IV_pilB type IV 93.8 0.089 1.9E-06 65.0 6.1 40 390-429 299-340 (564)
266 PLN03025 replication factor C 93.8 0.081 1.8E-06 60.6 5.4 40 392-431 18-60 (319)
267 PF07728 AAA_5: AAA domain (dy 93.7 0.08 1.7E-06 52.6 4.7 22 408-429 2-23 (139)
268 PRK00411 cdc6 cell division co 93.7 0.14 3E-06 60.1 7.2 41 393-433 36-83 (394)
269 cd01394 radB RadB. The archaea 93.6 0.088 1.9E-06 56.6 5.0 36 405-441 19-54 (218)
270 PRK08451 DNA polymerase III su 93.6 0.18 4E-06 61.6 8.2 26 407-432 38-63 (535)
271 PRK12724 flagellar biosynthesi 93.6 0.17 3.7E-06 59.9 7.7 36 406-441 224-259 (432)
272 TIGR02881 spore_V_K stage V sp 93.6 0.06 1.3E-06 59.8 3.8 26 406-431 43-68 (261)
273 KOG4284 DEAD box protein [Tran 93.6 0.076 1.6E-06 64.2 4.7 68 392-459 49-118 (980)
274 COG1444 Predicted P-loop ATPas 93.5 0.64 1.4E-05 58.6 12.8 67 390-456 211-283 (758)
275 TIGR02640 gas_vesic_GvpN gas v 93.5 0.086 1.9E-06 58.8 4.8 25 404-428 20-44 (262)
276 TIGR01650 PD_CobS cobaltochela 93.4 0.1 2.2E-06 59.9 5.4 40 390-429 48-88 (327)
277 PRK05642 DNA replication initi 93.4 0.24 5.2E-06 54.4 8.0 35 406-441 46-80 (234)
278 PF13671 AAA_33: AAA domain; P 93.3 0.054 1.2E-06 53.8 2.6 22 407-428 1-22 (143)
279 KOG1924 RhoA GTPase effector D 93.3 0.36 7.9E-06 59.4 9.8 11 776-786 447-457 (1102)
280 TIGR01420 pilT_fam pilus retra 93.3 0.083 1.8E-06 61.3 4.5 37 405-441 122-158 (343)
281 cd01130 VirB11-like_ATPase Typ 93.3 0.11 2.4E-06 54.7 5.0 40 390-429 9-49 (186)
282 cd01983 Fer4_NifH The Fer4_Nif 93.3 0.14 3.1E-06 46.3 5.2 33 408-441 2-34 (99)
283 TIGR02688 conserved hypothetic 93.2 0.35 7.6E-06 57.2 9.3 29 405-433 209-238 (449)
284 PRK09361 radB DNA repair and r 93.2 0.12 2.6E-06 56.0 5.2 38 405-443 23-60 (225)
285 KOG0781 Signal recognition par 93.2 0.39 8.4E-06 56.8 9.5 44 408-452 381-427 (587)
286 PRK05707 DNA polymerase III su 93.1 0.21 4.6E-06 57.6 7.4 27 406-432 23-49 (328)
287 PF05496 RuvB_N: Holliday junc 93.1 0.064 1.4E-06 58.3 2.9 33 552-585 102-137 (233)
288 PRK07471 DNA polymerase III su 93.0 0.29 6.2E-06 57.4 8.4 26 407-432 43-68 (365)
289 PF02492 cobW: CobW/HypB/UreG, 92.9 0.19 4.1E-06 52.7 6.0 57 406-466 1-59 (178)
290 PRK06731 flhF flagellar biosyn 92.8 0.88 1.9E-05 51.2 11.5 54 406-460 76-132 (270)
291 PRK08769 DNA polymerase III su 92.8 0.34 7.4E-06 55.7 8.3 44 551-594 113-162 (319)
292 PF06309 Torsin: Torsin; Inte 92.7 0.16 3.5E-06 50.4 4.9 29 405-433 52-81 (127)
293 PRK12402 replication factor C 92.7 0.15 3.2E-06 58.3 5.4 41 392-432 20-63 (337)
294 PHA00350 putative assembly pro 92.7 0.18 3.9E-06 59.4 6.1 32 407-440 3-35 (399)
295 PRK11823 DNA repair protein Ra 92.7 0.18 4E-06 60.5 6.4 53 405-459 80-132 (446)
296 COG0507 RecD ATP-dependent exo 92.7 0.018 4E-07 72.8 -2.3 64 389-452 200-272 (696)
297 KOG0743 AAA+-type ATPase [Post 92.7 0.064 1.4E-06 63.1 2.3 23 407-429 237-259 (457)
298 cd00544 CobU Adenosylcobinamid 92.7 0.14 3E-06 53.5 4.7 46 407-456 1-46 (169)
299 PF00308 Bac_DnaA: Bacterial d 92.7 0.5 1.1E-05 51.3 9.1 50 392-441 16-71 (219)
300 PF00437 T2SE: Type II/IV secr 92.6 0.12 2.5E-06 57.6 4.3 47 394-441 115-162 (270)
301 PRK08058 DNA polymerase III su 92.6 0.42 9E-06 55.2 8.9 27 406-432 29-55 (329)
302 cd01121 Sms Sms (bacterial rad 92.6 0.2 4.4E-06 58.7 6.4 52 405-458 82-133 (372)
303 PF13238 AAA_18: AAA domain; P 92.6 0.1 2.2E-06 50.4 3.3 22 408-429 1-22 (129)
304 PRK09302 circadian clock prote 92.6 0.17 3.7E-06 61.8 6.0 54 405-460 273-326 (509)
305 PRK14959 DNA polymerase III su 92.6 0.35 7.6E-06 60.0 8.6 26 406-431 39-64 (624)
306 TIGR02880 cbbX_cfxQ probable R 92.5 0.11 2.3E-06 58.8 3.8 26 407-432 60-85 (284)
307 TIGR00635 ruvB Holliday juncti 92.5 0.15 3.4E-06 57.6 5.2 24 406-429 31-54 (305)
308 KOG0923 mRNA splicing factor A 92.5 0.18 3.9E-06 61.4 5.7 53 404-456 279-332 (902)
309 PRK08939 primosomal protein Dn 92.5 0.14 2.9E-06 58.6 4.6 34 407-441 158-191 (306)
310 TIGR02012 tigrfam_recA protein 92.5 0.22 4.7E-06 57.3 6.2 41 405-446 55-95 (321)
311 PRK00149 dnaA chromosomal repl 92.4 0.4 8.6E-06 57.7 8.7 37 406-442 149-186 (450)
312 COG1201 Lhr Lhr-like helicases 92.3 0.47 1E-05 60.4 9.3 68 389-456 21-95 (814)
313 TIGR02524 dot_icm_DotB Dot/Icm 92.2 0.25 5.5E-06 57.7 6.5 29 404-432 133-161 (358)
314 PRK09302 circadian clock prote 92.1 0.2 4.4E-06 61.1 5.8 55 405-460 31-85 (509)
315 cd00983 recA RecA is a bacter 92.1 0.33 7.2E-06 55.8 7.1 40 405-445 55-94 (325)
316 PRK11331 5-methylcytosine-spec 92.1 0.23 4.9E-06 59.3 5.9 40 391-430 179-219 (459)
317 KOG0921 Dosage compensation co 92.1 1.7 3.7E-05 54.9 13.3 55 402-456 390-448 (1282)
318 cd02019 NK Nucleoside/nucleoti 92.1 0.24 5.2E-06 43.7 4.7 22 408-429 2-23 (69)
319 KOG0345 ATP-dependent RNA heli 92.0 1 2.2E-05 53.3 10.9 68 388-455 26-100 (567)
320 PRK04195 replication factor C 92.0 0.17 3.8E-06 61.3 5.1 39 391-429 18-63 (482)
321 PRK07399 DNA polymerase III su 92.0 0.57 1.2E-05 53.8 8.9 27 406-432 27-53 (314)
322 PRK06851 hypothetical protein; 91.9 0.19 4.2E-06 58.6 5.0 44 405-448 214-258 (367)
323 COG1474 CDC6 Cdc6-related prot 91.8 0.35 7.5E-06 56.7 7.0 64 393-456 23-95 (366)
324 PRK13768 GTPase; Provisional 91.8 0.2 4.3E-06 55.6 4.8 34 407-441 4-37 (253)
325 PRK14723 flhF flagellar biosyn 91.8 0.28 6.1E-06 62.0 6.6 55 406-460 186-244 (767)
326 PTZ00112 origin recognition co 91.8 0.23 4.9E-06 63.0 5.6 39 393-431 761-807 (1164)
327 KOG0331 ATP-dependent RNA heli 91.7 0.51 1.1E-05 57.1 8.4 69 389-457 112-188 (519)
328 PF12846 AAA_10: AAA-like doma 91.7 0.22 4.9E-06 55.3 5.2 57 405-466 1-57 (304)
329 TIGR00416 sms DNA repair prote 91.7 0.29 6.2E-06 59.0 6.3 52 405-458 94-145 (454)
330 COG2019 AdkA Archaeal adenylat 91.7 1.2 2.7E-05 46.3 9.9 24 406-429 5-28 (189)
331 PF03266 NTPase_1: NTPase; In 91.7 0.18 3.9E-06 52.6 4.0 25 408-432 2-26 (168)
332 PHA02544 44 clamp loader, smal 91.6 0.38 8.3E-06 54.7 7.0 39 391-429 25-67 (316)
333 PHA00729 NTP-binding motif con 91.6 0.15 3.3E-06 55.6 3.5 24 407-430 19-42 (226)
334 CHL00181 cbbX CbbX; Provisiona 91.6 0.16 3.6E-06 57.4 3.9 26 407-432 61-86 (287)
335 KOG0342 ATP-dependent RNA heli 91.5 0.66 1.4E-05 55.1 8.7 70 386-455 100-175 (543)
336 PRK06995 flhF flagellar biosyn 91.5 0.23 4.9E-06 60.0 5.2 36 406-441 257-293 (484)
337 PF03205 MobB: Molybdopterin g 91.5 0.26 5.6E-06 49.9 4.8 35 406-441 1-35 (140)
338 TIGR01359 UMP_CMP_kin_fam UMP- 91.4 0.15 3.3E-06 53.0 3.2 23 407-429 1-23 (183)
339 KOG0339 ATP-dependent RNA heli 91.4 4.3 9.4E-05 48.6 15.0 76 390-465 245-331 (731)
340 PRK13531 regulatory ATPase Rav 91.3 0.27 5.8E-06 59.2 5.4 32 399-430 33-64 (498)
341 PRK00080 ruvB Holliday junctio 91.3 0.25 5.4E-06 56.8 5.1 24 406-429 52-75 (328)
342 PF05673 DUF815: Protein of un 91.3 0.8 1.7E-05 50.6 8.6 69 393-462 33-109 (249)
343 TIGR01360 aden_kin_iso1 adenyl 91.3 0.17 3.7E-06 52.6 3.4 25 405-429 3-27 (188)
344 PF00910 RNA_helicase: RNA hel 91.2 0.19 4E-06 48.3 3.3 24 409-432 2-25 (107)
345 TIGR00362 DnaA chromosomal rep 91.2 0.38 8.2E-06 57.0 6.6 36 406-441 137-173 (405)
346 TIGR00750 lao LAO/AO transport 91.1 0.27 5.9E-06 55.9 5.1 36 405-441 34-69 (300)
347 PF03308 ArgK: ArgK protein; 91.0 0.23 5E-06 55.0 4.2 33 408-441 32-64 (266)
348 cd03114 ArgK-like The function 91.0 0.33 7.3E-06 49.5 5.1 33 408-441 2-34 (148)
349 TIGR00176 mobB molybdopterin-g 90.9 0.34 7.5E-06 49.8 5.1 35 408-443 2-36 (155)
350 PF01078 Mg_chelatase: Magnesi 90.9 0.28 6.1E-06 52.8 4.6 35 393-427 9-44 (206)
351 cd01125 repA Hexameric Replica 90.8 0.32 6.9E-06 53.3 5.2 50 407-457 3-63 (239)
352 PF13555 AAA_29: P-loop contai 90.8 0.25 5.5E-06 43.1 3.4 26 406-431 24-49 (62)
353 PF03215 Rad17: Rad17 cell cyc 90.7 0.29 6.3E-06 59.8 5.1 25 405-429 45-69 (519)
354 cd01393 recA_like RecA is a b 90.7 0.34 7.5E-06 52.1 5.2 40 405-444 19-63 (226)
355 TIGR01242 26Sp45 26S proteasom 90.7 0.28 6E-06 57.3 4.7 22 408-429 159-180 (364)
356 COG1102 Cmk Cytidylate kinase 90.6 0.19 4.2E-06 51.8 2.9 22 408-429 3-24 (179)
357 KOG1131 RNA polymerase II tran 90.6 2.1 4.5E-05 51.3 11.5 64 391-454 17-87 (755)
358 KOG0389 SNF2 family DNA-depend 90.6 0.81 1.7E-05 57.0 8.6 151 390-587 399-564 (941)
359 PRK06871 DNA polymerase III su 90.5 0.91 2E-05 52.4 8.6 44 551-594 107-156 (325)
360 COG4581 Superfamily II RNA hel 90.4 0.66 1.4E-05 60.2 8.0 66 390-456 119-184 (1041)
361 PRK09354 recA recombinase A; P 90.4 0.59 1.3E-05 54.3 7.0 40 405-445 60-99 (349)
362 PRK03992 proteasome-activating 90.4 0.34 7.4E-06 57.2 5.2 23 407-429 167-189 (389)
363 PRK13342 recombination factor 90.4 0.4 8.6E-06 57.1 5.8 23 406-428 37-59 (413)
364 PRK08233 hypothetical protein; 90.3 0.2 4.2E-06 51.9 2.8 24 406-429 4-27 (182)
365 PRK05800 cobU adenosylcobinami 90.3 0.26 5.7E-06 51.4 3.8 47 407-457 3-49 (170)
366 PF04665 Pox_A32: Poxvirus A32 90.3 0.31 6.8E-06 53.7 4.4 40 402-442 9-49 (241)
367 PRK09435 membrane ATPase/prote 90.3 0.36 7.8E-06 55.8 5.2 34 407-441 58-91 (332)
368 PRK00440 rfc replication facto 90.3 0.39 8.4E-06 54.4 5.4 38 393-430 23-63 (319)
369 KOG0385 Chromatin remodeling c 90.2 1.1 2.3E-05 55.9 9.1 147 390-587 167-329 (971)
370 TIGR03689 pup_AAA proteasome A 90.1 0.35 7.5E-06 58.9 5.1 24 407-430 218-241 (512)
371 PRK12904 preprotein translocas 90.1 1 2.2E-05 57.5 9.3 47 409-456 98-144 (830)
372 COG3854 SpoIIIAA ncharacterize 90.1 0.38 8.1E-06 52.3 4.7 37 408-444 140-180 (308)
373 PRK12608 transcription termina 90.1 0.4 8.6E-06 56.1 5.3 50 407-456 135-187 (380)
374 PRK05541 adenylylsulfate kinas 90.1 0.4 8.8E-06 49.7 4.9 29 406-434 8-36 (176)
375 PRK13103 secA preprotein trans 90.0 1.2 2.6E-05 57.2 9.7 43 413-456 103-145 (913)
376 PRK13900 type IV secretion sys 90.0 0.5 1.1E-05 54.7 6.0 41 397-439 151-192 (332)
377 TIGR00767 rho transcription te 89.9 1.3 2.9E-05 52.3 9.4 51 405-455 168-221 (415)
378 cd02021 GntK Gluconate kinase 89.8 0.25 5.3E-06 49.8 3.0 22 407-428 1-22 (150)
379 PTZ00361 26 proteosome regulat 89.8 0.4 8.8E-06 57.4 5.2 23 407-429 219-241 (438)
380 PRK14962 DNA polymerase III su 89.8 0.32 6.9E-06 58.9 4.4 24 408-431 39-62 (472)
381 KOG0348 ATP-dependent RNA heli 89.8 0.9 1.9E-05 54.4 7.8 69 389-457 158-234 (708)
382 KOG0328 Predicted ATP-dependen 89.8 0.16 3.5E-06 56.2 1.7 68 391-458 50-119 (400)
383 PRK08118 topology modulation p 89.8 0.27 5.9E-06 51.1 3.3 22 408-429 4-25 (167)
384 PRK13764 ATPase; Provisional 89.7 0.37 8.1E-06 59.7 4.9 27 405-431 257-283 (602)
385 PHA02244 ATPase-like protein 89.7 0.46 1E-05 55.4 5.4 32 397-428 110-142 (383)
386 COG1222 RPT1 ATP-dependent 26S 89.7 0.38 8.3E-06 55.3 4.6 19 408-426 188-206 (406)
387 PRK14961 DNA polymerase III su 89.6 0.36 7.7E-06 56.5 4.5 24 407-430 40-63 (363)
388 cd02034 CooC The accessory pro 89.6 0.54 1.2E-05 46.0 5.0 45 408-456 2-46 (116)
389 PRK13107 preprotein translocas 89.5 1.3 2.8E-05 56.8 9.5 47 409-456 99-145 (908)
390 PF13521 AAA_28: AAA domain; P 89.5 0.27 5.8E-06 50.4 3.0 21 408-428 2-22 (163)
391 cd02117 NifH_like This family 89.4 0.5 1.1E-05 50.8 5.1 32 408-440 3-34 (212)
392 PF03029 ATP_bind_1: Conserved 89.4 0.26 5.7E-06 54.3 3.0 29 410-439 1-29 (238)
393 cd01123 Rad51_DMC1_radA Rad51_ 89.3 0.45 9.8E-06 51.6 4.7 40 405-444 19-63 (235)
394 PRK14530 adenylate kinase; Pro 89.3 0.33 7.2E-06 52.3 3.6 25 405-429 3-27 (215)
395 PF07726 AAA_3: ATPase family 89.2 0.21 4.6E-06 49.8 1.9 37 553-590 64-102 (131)
396 PTZ00301 uridine kinase; Provi 89.2 0.52 1.1E-05 51.0 5.1 27 406-432 4-30 (210)
397 COG1618 Predicted nucleotide k 89.2 0.51 1.1E-05 48.8 4.7 26 408-433 8-33 (179)
398 PRK12906 secA preprotein trans 89.2 1.4 3E-05 56.2 9.4 45 409-454 97-141 (796)
399 KOG1970 Checkpoint RAD17-RFC c 89.2 0.28 6.1E-06 59.0 3.2 27 403-429 108-134 (634)
400 COG3857 AddB ATP-dependent nuc 89.1 4.6 9.9E-05 52.3 13.7 56 408-464 4-65 (1108)
401 PRK03839 putative kinase; Prov 89.1 0.33 7.2E-06 50.6 3.4 22 408-429 3-24 (180)
402 PRK10463 hydrogenase nickel in 89.1 1 2.3E-05 51.0 7.5 72 392-466 88-162 (290)
403 cd02023 UMPK Uridine monophosp 89.1 0.48 1E-05 50.1 4.7 32 407-441 1-32 (198)
404 PRK00889 adenylylsulfate kinas 89.1 0.57 1.2E-05 48.6 5.1 34 406-440 5-38 (175)
405 COG0714 MoxR-like ATPases [Gen 89.0 0.53 1.1E-05 54.2 5.3 46 401-448 39-84 (329)
406 COG4088 Predicted nucleotide k 89.0 0.36 7.8E-06 51.7 3.5 28 406-433 2-29 (261)
407 PRK06762 hypothetical protein; 89.0 0.35 7.5E-06 49.6 3.4 40 406-454 3-42 (166)
408 PRK05298 excinuclease ABC subu 89.0 1.5 3.2E-05 55.4 9.6 64 390-457 12-80 (652)
409 TIGR00631 uvrb excinuclease AB 89.0 1.1 2.3E-05 56.6 8.3 62 392-457 11-77 (655)
410 TIGR03574 selen_PSTK L-seryl-t 88.9 0.52 1.1E-05 52.0 4.9 33 407-440 1-33 (249)
411 PRK00131 aroK shikimate kinase 88.9 0.37 8.1E-06 49.2 3.6 25 405-429 4-28 (175)
412 TIGR00665 DnaB replicative DNA 88.9 0.63 1.4E-05 55.7 6.0 51 405-456 195-245 (434)
413 KOG0390 DNA repair protein, SN 88.8 2 4.2E-05 54.5 10.3 56 390-445 238-309 (776)
414 cd02028 UMPK_like Uridine mono 88.8 0.62 1.3E-05 49.0 5.2 33 407-440 1-33 (179)
415 PRK14531 adenylate kinase; Pro 88.8 0.36 7.8E-06 50.7 3.4 23 407-429 4-26 (183)
416 PRK06620 hypothetical protein; 88.7 0.34 7.3E-06 52.5 3.2 19 406-424 45-63 (214)
417 COG5192 BMS1 GTP-binding prote 88.7 0.49 1.1E-05 56.5 4.6 25 408-432 72-96 (1077)
418 KOG1533 Predicted GTPase [Gene 88.7 0.37 8.1E-06 52.4 3.4 32 408-440 5-36 (290)
419 TIGR02322 phosphon_PhnN phosph 88.7 0.36 7.7E-06 50.2 3.3 24 406-429 2-25 (179)
420 cd01428 ADK Adenylate kinase ( 88.7 0.34 7.4E-06 50.7 3.2 21 408-428 2-22 (194)
421 TIGR00150 HI0065_YjeE ATPase, 88.6 0.66 1.4E-05 46.7 5.0 25 405-429 22-46 (133)
422 KOG0951 RNA helicase BRR2, DEA 88.6 0.41 8.9E-06 62.0 4.2 75 390-466 1143-1223(1674)
423 COG1703 ArgK Putative periplas 88.5 0.48 1E-05 53.4 4.3 34 407-441 53-86 (323)
424 COG0378 HypB Ni2+-binding GTPa 88.4 0.48 1E-05 50.4 4.0 52 408-465 16-71 (202)
425 PRK04040 adenylate kinase; Pro 88.4 0.38 8.2E-06 51.1 3.3 23 407-429 4-26 (188)
426 PRK14532 adenylate kinase; Pro 88.4 0.35 7.7E-06 50.7 3.0 21 408-428 3-23 (188)
427 PRK06964 DNA polymerase III su 88.3 1.1 2.5E-05 52.0 7.3 44 551-594 132-181 (342)
428 TIGR01313 therm_gnt_kin carboh 88.2 0.32 7E-06 49.7 2.6 21 409-429 2-22 (163)
429 PRK13851 type IV secretion sys 88.2 0.49 1.1E-05 55.0 4.3 45 394-440 150-195 (344)
430 PRK08154 anaerobic benzoate ca 88.1 0.61 1.3E-05 53.4 5.0 42 388-429 105-157 (309)
431 COG4178 ABC-type uncharacteriz 88.1 1.6 3.6E-05 53.8 8.8 23 405-427 419-441 (604)
432 cd02027 APSK Adenosine 5'-phos 88.1 0.72 1.6E-05 46.9 5.0 27 407-433 1-27 (149)
433 cd02025 PanK Pantothenate kina 88.0 0.66 1.4E-05 50.5 4.9 34 408-441 2-36 (220)
434 COG1202 Superfamily II helicas 88.0 1.2 2.5E-05 53.9 7.1 78 388-466 214-298 (830)
435 cd00227 CPT Chloramphenicol (C 88.0 0.47 1E-05 49.3 3.7 25 405-429 2-26 (175)
436 PRK06645 DNA polymerase III su 88.0 0.52 1.1E-05 57.5 4.5 26 406-431 44-69 (507)
437 PRK04301 radA DNA repair and r 87.9 0.72 1.6E-05 52.9 5.4 52 405-456 102-159 (317)
438 PRK06696 uridine kinase; Valid 87.9 0.7 1.5E-05 50.1 5.1 33 407-440 24-56 (223)
439 TIGR00041 DTMP_kinase thymidyl 87.9 0.94 2E-05 47.6 5.9 34 406-440 4-37 (195)
440 TIGR03600 phage_DnaB phage rep 87.9 0.83 1.8E-05 54.5 6.1 51 405-456 194-244 (421)
441 PLN02200 adenylate kinase fami 87.8 0.42 9.2E-06 52.5 3.3 24 406-429 44-67 (234)
442 PRK02496 adk adenylate kinase; 87.8 0.45 9.7E-06 49.8 3.4 22 408-429 4-25 (184)
443 cd02020 CMPK Cytidine monophos 87.8 0.48 1E-05 47.0 3.4 23 407-429 1-23 (147)
444 PRK14494 putative molybdopteri 87.8 0.88 1.9E-05 49.9 5.7 59 407-466 3-64 (229)
445 cd03116 MobB Molybdenum is an 87.7 1 2.3E-05 46.5 5.9 59 407-466 3-66 (159)
446 PRK07667 uridine kinase; Provi 87.7 0.82 1.8E-05 48.6 5.3 35 407-442 19-53 (193)
447 PRK10751 molybdopterin-guanine 87.7 0.74 1.6E-05 48.3 4.9 39 405-444 6-44 (173)
448 PRK14493 putative bifunctional 87.7 0.68 1.5E-05 52.1 4.9 35 407-443 3-37 (274)
449 PRK14527 adenylate kinase; Pro 87.6 0.46 1E-05 50.1 3.4 25 405-429 6-30 (191)
450 TIGR02858 spore_III_AA stage I 87.6 1.2 2.6E-05 50.1 6.8 25 406-430 112-136 (270)
451 PRK05480 uridine/cytidine kina 87.6 0.67 1.4E-05 49.6 4.6 24 406-429 7-30 (209)
452 PTZ00454 26S protease regulato 87.6 0.38 8.3E-06 57.0 3.0 22 407-428 181-202 (398)
453 PF00406 ADK: Adenylate kinase 87.5 0.42 9.2E-06 48.3 2.9 20 410-429 1-20 (151)
454 cd00550 ArsA_ATPase Oxyanion-t 87.5 0.67 1.5E-05 51.5 4.7 34 407-441 2-35 (254)
455 PRK14489 putative bifunctional 87.3 1.4 3.1E-05 51.6 7.5 61 406-467 206-271 (366)
456 PRK14528 adenylate kinase; Pro 87.3 0.5 1.1E-05 49.9 3.4 23 407-429 3-25 (186)
457 COG3911 Predicted ATPase [Gene 87.3 0.48 1E-05 48.3 3.0 21 406-426 10-30 (183)
458 PRK07261 topology modulation p 87.3 0.49 1.1E-05 49.3 3.2 20 408-427 3-22 (171)
459 PF00485 PRK: Phosphoribulokin 87.1 0.51 1.1E-05 50.0 3.3 27 407-433 1-27 (194)
460 cd02037 MRP-like MRP (Multiple 87.1 0.78 1.7E-05 47.3 4.6 33 407-440 2-34 (169)
461 cd02040 NifH NifH gene encodes 87.0 0.73 1.6E-05 51.0 4.7 32 407-440 4-35 (270)
462 COG1936 Predicted nucleotide k 87.0 0.46 9.9E-06 49.6 2.8 19 407-425 2-20 (180)
463 TIGR02236 recomb_radA DNA repa 87.0 0.8 1.7E-05 52.2 5.1 51 405-455 95-151 (310)
464 PLN00020 ribulose bisphosphate 87.0 0.46 1E-05 55.3 3.1 24 406-429 149-172 (413)
465 PF02374 ArsA_ATPase: Anion-tr 87.0 0.8 1.7E-05 52.4 5.0 45 406-451 2-48 (305)
466 PRK00279 adk adenylate kinase; 86.9 0.53 1.1E-05 50.7 3.3 22 408-429 3-24 (215)
467 KOG0926 DEAH-box RNA helicase 86.9 1.6 3.5E-05 54.5 7.7 67 389-456 256-327 (1172)
468 PF01656 CbiA: CobQ/CobB/MinD/ 86.9 0.96 2.1E-05 47.1 5.2 34 407-441 1-34 (195)
469 KOG0733 Nuclear AAA ATPase (VC 86.8 0.41 8.8E-06 58.2 2.5 22 408-429 226-247 (802)
470 PRK06547 hypothetical protein; 86.7 0.79 1.7E-05 48.0 4.4 23 406-428 16-38 (172)
471 KOG0953 Mitochondrial RNA heli 86.7 1.1 2.4E-05 54.0 6.0 125 402-588 188-317 (700)
472 TIGR02397 dnaX_nterm DNA polym 86.7 0.84 1.8E-05 52.6 5.1 40 392-431 19-62 (355)
473 PRK14957 DNA polymerase III su 86.6 0.67 1.5E-05 57.0 4.4 25 407-431 40-64 (546)
474 TIGR00764 lon_rel lon-related 86.5 0.94 2E-05 56.6 5.6 43 405-447 37-79 (608)
475 PF06068 TIP49: TIP49 C-termin 86.5 0.7 1.5E-05 53.7 4.2 26 405-430 50-75 (398)
476 TIGR01241 FtsH_fam ATP-depende 86.4 0.49 1.1E-05 57.6 3.1 21 408-428 91-111 (495)
477 PF03796 DnaB_C: DnaB-like hel 86.4 1.4 3.1E-05 48.7 6.6 51 405-456 19-69 (259)
478 PRK05748 replicative DNA helic 86.4 1.1 2.3E-05 54.0 5.9 51 405-456 203-253 (448)
479 TIGR01351 adk adenylate kinase 86.4 0.55 1.2E-05 50.4 3.1 21 408-428 2-22 (210)
480 PF08433 KTI12: Chromatin asso 86.3 0.86 1.9E-05 51.2 4.7 35 406-441 2-36 (270)
481 COG4962 CpaF Flp pilus assembl 86.3 0.83 1.8E-05 52.5 4.6 53 389-443 156-209 (355)
482 PHA02624 large T antigen; Prov 86.3 0.73 1.6E-05 56.7 4.4 36 394-429 416-455 (647)
483 COG0610 Type I site-specific r 86.3 4.2 9.1E-05 53.6 11.6 51 407-457 275-326 (962)
484 cd01672 TMPK Thymidine monopho 86.3 1.2 2.7E-05 46.3 5.7 33 407-440 2-34 (200)
485 COG2255 RuvB Holliday junction 86.2 1 2.2E-05 50.6 5.1 24 406-429 53-76 (332)
486 PF00931 NB-ARC: NB-ARC domain 86.2 0.6 1.3E-05 52.0 3.5 37 394-430 3-44 (287)
487 PF13476 AAA_23: AAA domain; P 86.2 0.57 1.2E-05 48.7 3.1 26 405-430 19-44 (202)
488 COG0470 HolB ATPase involved i 86.1 1.1 2.4E-05 50.6 5.6 26 407-432 26-51 (325)
489 KOG0731 AAA+-type ATPase conta 86.1 0.5 1.1E-05 59.4 3.0 19 408-426 347-365 (774)
490 KOG0338 ATP-dependent RNA heli 85.9 1.5 3.2E-05 52.4 6.4 63 392-454 205-272 (691)
491 TIGR02016 BchX chlorophyllide 85.9 0.96 2.1E-05 51.5 4.9 32 408-441 4-35 (296)
492 PF01580 FtsK_SpoIIIE: FtsK/Sp 85.8 0.93 2E-05 48.3 4.5 39 405-443 38-79 (205)
493 PRK05439 pantothenate kinase; 85.8 0.98 2.1E-05 51.8 4.9 35 407-441 88-123 (311)
494 PRK13765 ATP-dependent proteas 85.8 0.85 1.8E-05 57.1 4.8 25 405-429 50-74 (637)
495 CHL00195 ycf46 Ycf46; Provisio 85.7 0.61 1.3E-05 56.7 3.4 23 407-429 261-283 (489)
496 PRK13407 bchI magnesium chelat 85.7 0.97 2.1E-05 52.4 4.9 24 406-429 30-53 (334)
497 PRK13947 shikimate kinase; Pro 85.6 0.69 1.5E-05 47.5 3.3 22 408-429 4-25 (171)
498 KOG0651 26S proteasome regulat 85.6 0.57 1.2E-05 52.9 2.8 24 406-429 167-190 (388)
499 PRK13235 nifH nitrogenase redu 85.6 0.96 2.1E-05 50.6 4.7 32 407-440 4-35 (274)
500 PHA00547 hypothetical protein 85.6 1.2 2.6E-05 49.2 5.2 38 394-431 64-101 (337)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=3.5e-180 Score=1522.98 Aligned_cols=788 Identities=69% Similarity=1.101 Sum_probs=734.6
Q ss_pred cccccccccCCCccCcccCCccCCcccccccCCCCCCceEEcCCCccCceeeCCCCCCCcchhhhhhhhcccceeeecCC
Q 001501 118 MAGLSFEETGDDVEGFEYGKADFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKD 197 (1066)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~ycg~~~~~~~~~c~~~~c~kwfcn~~~~~~~shi~~hlv~~~~~~~~lh~~ 197 (1066)
+.++.|||-..+. ...+ +.++|+|+|+||||++|.||++|++ |+|||||+|++|++||||+||||++||+|+||+|
T Consensus 38 ~~e~~fee~~~~~-~~~~-~~~~~~~~c~Ycgi~~p~~v~kc~~--c~Kwfcn~r~gtsgshIv~hlvra~hk~v~lh~d 113 (935)
T KOG1802|consen 38 VGEVLFEECLVEK-NRAR-EQKLPEHACAYCGISEPACVIKCNT--CGKWFCNSRGGTSGSHIVNHLVRAKHKEVSLHKD 113 (935)
T ss_pred cchhhhhhhcccc-cccc-ccccchhhhhhccCCCchheeeccc--cCceeecCCCCCchhHHHHHHHHhhhheeEeccC
Confidence 8899999855543 2334 5689999999999999999999999 9999999999999999999999999999999999
Q ss_pred CCCcccceeeecccccccccccceeccCCceEEEeechhhhH--------------------------------------
Q 001501 198 SPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLN-------------------------------------- 239 (1066)
Q Consensus 198 ~~~~~~~lecy~~~~~nvf~lgf~~~~~~~~~~~~~r~~~~~-------------------------------------- 239 (1066)
+++|||+||||+||++|||+|||||+|+|+|||++||+||++
T Consensus 114 s~lget~lecyncg~~nvf~lGFi~~ksd~VVvllcr~pcas~s~~kd~Nwd~~qw~~li~dr~~l~wivk~pseqe~~~ 193 (935)
T KOG1802|consen 114 SPLGETVLECYNCGSRNVFLLGFIPAKSDSVVVLLCRQPCASRSNLKDMNWDLSQWQPLIEDRCLLSWIVKVPSEQEQLR 193 (935)
T ss_pred CCCCcceEEeeccCcchhhhhcccccccCceEEEEecCcccccccCCCcCCChhhccchhhhhcccchhccCCcchhhhh
Confidence 999999999999999999999999999999999999999986
Q ss_pred -----------------------------------------------------------------HhhhccccccEEEEE
Q 001501 240 -----------------------------------------------------------------MMKESQSKDNVTIRW 254 (1066)
Q Consensus 240 -----------------------------------------------------------------~~~e~~~~~~~~~~~ 254 (1066)
.+||||+++++++||
T Consensus 194 aR~iT~qqi~~~eelwr~np~at~~dl~kP~~d~~~~hv~~ry~da~~y~~vf~pliklea~ydk~~Kes~~q~~~tvRW 273 (935)
T KOG1802|consen 194 ARKITAQQIVKLEELWRKNPSATLEDLDKPGEDEEPPHVQLRYEDAYEYQNVFSPLIKLEADYDKRLKESQTQENGTVRW 273 (935)
T ss_pred hccccHHHHHHHHhhhccCCccchhhcCCcccccCCCcccccccchHHHhhhcchhhhhhhhhhhhhhhhcccccceEEe
Confidence 699999999999999
Q ss_pred EecCCCeEEEEEEccCCCCCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEecc--ccEEEEEeccCCCCCcccCCCceEE
Q 001501 255 DIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTA--QEEVALELRASQGVPVDINHGFSVD 332 (1066)
Q Consensus 255 ~~~l~~k~~~~~~~~~~~~~~~l~~GD~v~l~~~~~~~~~~~~~~g~V~~i~~--~~~v~l~l~~~~~~p~~~~~~~~v~ 332 (1066)
+++||+|+++||.+++.+.++++..||+++|+|++. ....|.++|+|+++++ ++|+.||++.....|.+.+++|.|+
T Consensus 274 ~~gLnkk~~a~f~~~k~~~e~kl~~GdE~~L~y~~~-~~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~p~e~~~~Ftvd 352 (935)
T KOG1802|consen 274 DIGLNKKRLAYFTLPKLDSELKLAIGDEIRLTYSGG-LVLPWNGIGSVLKIPDNNGDEVKLELEFSQDPPIEVTHGFTVD 352 (935)
T ss_pred eeccccceEEEEecCCCcchhccccCCeeEEEecCC-cCCcccccceEEecCCCCcceeEEEeecCCCCCcccccceEEE
Confidence 999999999999999998999999999999999998 5566999999999998 6999999999999999999999999
Q ss_pred EeeccchHHHHHHHHHHHHHhhcchhhhhhhhhcCCchhhhhhccCCCCCCCCCCCCCCCHHHHHHHHHHhcCCcEEEEC
Q 001501 333 FVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQRPISLIQG 412 (1066)
Q Consensus 333 ~~~~~~s~~R~~~AL~~~~~~e~~~~~~i~~~llg~~~~~~~~~~~lp~~~~~~~~~~LN~sQ~~AV~~aL~~~l~LIqG 412 (1066)
|+|+.++|+||+.||+.|+.|+.+++.|+|+.+||+++++..++..+|+.|+.|++++||.+|..||+++|+++++||||
T Consensus 353 ~vwk~ts~drm~~alk~la~D~~~vs~y~y~klLgh~~~~~~~k~~LP~~~s~~~lpkLN~SQ~~AV~~VL~rplsLIQG 432 (935)
T KOG1802|consen 353 FVWKSTSFDRMQLALKLLAVDEKKVSGYLYHKLLGHPVEDSSLKKLLPRRFSVPNLPKLNASQSNAVKHVLQRPLSLIQG 432 (935)
T ss_pred EEEcCccHHHHHHHHHHhhhccccchhhhhhHHhcCcchhhhhcccCchhhcCCCchhhchHHHHHHHHHHcCCceeeec
Confidence 99999999999999999999999999999999999999999899999999999999999999999999999999999999
Q ss_pred CCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHHHHhhccchh
Q 001501 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (1066)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l~~~i~~~~~~~ 492 (1066)
|||||||.|+++||++|+++...+||||||||.|||+|+|+|++.|++|||+++++||.++++++++++|.+++.+..
T Consensus 433 PPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tgLKVvRl~aksRE~~~S~vs~L~lh~~~~~~~~-- 510 (935)
T KOG1802|consen 433 PPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTGLKVVRLCAKSREDIESDVSFLSLHEQLRNMDK-- 510 (935)
T ss_pred CCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcCceEeeeehhhhhhccCCccHHHHHHHHhccCc--
Confidence 999999999999999999998889999999999999999999999999999999999999999999999999999886
Q ss_pred HHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCCChhhhhhhc
Q 001501 493 KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPL 572 (1066)
Q Consensus 493 ~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE~e~LIpL 572 (1066)
.+|+++.+++++.++++..++++|..+++..+++++..|+||||||++|++.+|.+++|+.||||||.|++||+|||||
T Consensus 511 -pELq~l~klkde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~rl~~~kfr~VLiDEaTQatEpe~LiPl 589 (935)
T KOG1802|consen 511 -PELQKLLKLKDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAGDRRLSKFKFRTVLIDEATQATEPECLIPL 589 (935)
T ss_pred -HHHHHHHhhhhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEecccccchhhccccccEEEEecccccCCcchhhhh
Confidence 8899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCcceEeeeeeccCCCCCCccccccccCccccccccccc
Q 001501 573 VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINER 652 (1066)
Q Consensus 573 ~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r 652 (1066)
.++++++||||||+||+|++++++++.++|.+||||||+..|..+++|.+||||||.|++|++++||+|.|+++++..+|
T Consensus 590 vlG~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~~P~~L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R 669 (935)
T KOG1802|consen 590 VLGAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGIKPIRLQVQYRMHPALSEFPSNMFYEGELQNGVTEIER 669 (935)
T ss_pred hhcceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhccCCceEEEEeeeeChhhhhcchhhhccchhhcCcchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHHHhc
Q 001501 653 QSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1066)
Q Consensus 653 ~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L~~~ 732 (1066)
...+++++||.++.|++|+...|.||+..+|+||.|+.||..++++|+.|++.|+.+++|||||||.+|+.+|.++|...
T Consensus 670 ~~~g~~~pwp~p~~pl~fy~~~g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~qIGVITpYegQr~~i~~ym~~~ 749 (935)
T KOG1802|consen 670 SPLGVDFPWPQPDKPLFFYVCYGQEEISASGTSFLNRTEAANCEKIITKLLKSGVKPSQIGVITPYEGQRSYIVNYMQTN 749 (935)
T ss_pred ccCCCCCCCCCCCCccceEEeccceeeeccccceecHHHHHHHHHHHHHHHHcCCCHHHeeeecccchhHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhccCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCCCCceeeechhhccceEEEeccccccCChhHHHHHH
Q 001501 733 GALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLT 812 (1066)
Q Consensus 733 ~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~ 812 (1066)
+.+...++..|+|+|||+|||+|+|+||+||||+|...+|||+.|+|||||||||||++|+||||+.+|+++++|.++|.
T Consensus 750 gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k~~LW~~li~ 829 (935)
T KOG1802|consen 750 GSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRKHPLWGHLIT 829 (935)
T ss_pred CccccchhheeEEEeeccccCcccceEEEEEeecccccccccccCchhhhhhhhhcccceEEecCHHHhhhchHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCeeecCCCcchhhhhhhcccCccccccccccccCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001501 813 HYKEHECLVEGPLNNLKQSMVQFQKPKKIYNDRRLFFGAGPGIV-PNDISTSNPNADRRGSRARGYMPPGPPNGTHKPGL 891 (1066)
Q Consensus 813 ~~~~~~~lv~g~l~~l~~s~~~~~~p~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 891 (1066)
|+++++++++|++++++++++++.+|.+..+.++...+...... .......++....+.++.+.|.+.....+...
T Consensus 830 h~~eke~l~eg~ln~l~~~~~~l~kp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~y~~~~n~~~~~~--- 906 (935)
T KOG1802|consen 830 HYKEKEVLVEGPLNNLKPSLLQLLKPQKLKNFKEKQKGFMNKSKIKDKSHSFNPSASNRPSRLSSYLNSGNLFGMSK--- 906 (935)
T ss_pred HhhcccceeecchhhhhhhhhhhcCCchhhhhhhhhhhhhhhcccccccccCCcchhccccccchhccccCcccccC---
Confidence 99999999999999999999999999999998877654432222 22222444555555555556655544443321
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001501 892 HPAGFPMPRVPLPPFQGGPPSQPYAI 917 (1066)
Q Consensus 892 ~~~~~~~~~~~~p~~~~~p~~~~~~~ 917 (1066)
++.......+-|....+||.++++-
T Consensus 907 -~~~~~~~~~~~~~~~~~~~~~~~~~ 931 (935)
T KOG1802|consen 907 -LAQYFNKNVPIPANMVGPPSQKAAR 931 (935)
T ss_pred -hhhccccCCCCchhhcCCCcccccc
Confidence 2334444555555666666665543
No 2
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=2.1e-79 Score=744.61 Aligned_cols=552 Identities=32% Similarity=0.462 Sum_probs=426.6
Q ss_pred hccccccEEEEEEecCCCeEEEEEEccCCCCCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEeccccEEEEEeccCCCCC
Q 001501 243 ESQSKDNVTIRWDIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVP 322 (1066)
Q Consensus 243 e~~~~~~~~~~~~~~l~~k~~~~~~~~~~~~~~~l~~GD~v~l~~~~~~~~~~~~~~g~V~~i~~~~~v~l~l~~~~~~p 322 (1066)
+.....++++.|..++.+++++.|.-. ...+.+|.+||.|.|...+. ..|...|+|+++.+ ..|.|.+... .|
T Consensus 25 ~g~~~~~l~~~~~~~~~g~~~~~f~~~-~~~~~~~~~GD~v~i~~~~~---~~~~~~g~V~~v~~-~~i~v~~~~~--~~ 97 (637)
T TIGR00376 25 RGRAILNLQGKIRGGLLGFLLVRFGRR-KAIATEISVGDIVLVSRGNP---LQSDLTGVVTRVGK-RFITVALEES--VP 97 (637)
T ss_pred cCceEeceEEEEEeCCCCeEEEEEecC-CCCCCcCCCCCEEEEecCCC---CCCCcEEEEEEEcC-cEEEEEECCC--CC
Confidence 366677999999999999999988843 34467999999999964332 34667899999986 3455554432 44
Q ss_pred cccCCCceEEEeeccchHHHHHHHHHHHHHhhcchhhhhhhhhcCCchhhhhhccCCCCCCCCCCCCCCCHHHHHHHHHH
Q 001501 323 VDINHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSV 402 (1066)
Q Consensus 323 ~~~~~~~~v~~~~~~~s~~R~~~AL~~~~~~e~~~~~~i~~~llg~~~~~~~~~~~lp~~~~~~~~~~LN~sQ~~AV~~a 402 (1066)
.+....|+++++||++||+||..||.+|..... .+++.++|...+...... .+..+ ..+.||++|++||..+
T Consensus 98 ~~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~----~l~~~llg~~~p~~~~~~-~~~~~---~~~~ln~~Q~~Av~~~ 169 (637)
T TIGR00376 98 QWSLKRVRIDLYANDVTFKRMKEALRALTENHS----RLLEFILGREAPSKASEI-HDFQF---FDPNLNESQKEAVSFA 169 (637)
T ss_pred cccCceEEEEEecCccHHHHHHHHHHHHHhchh----hHHHHHhCCCCCCccccc-ccccc---cCCCCCHHHHHHHHHH
Confidence 444556999999999999999999999976543 456677776543221111 11111 2368999999999999
Q ss_pred hcC-CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhH
Q 001501 403 LQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTL 481 (1066)
Q Consensus 403 L~~-~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l 481 (1066)
+.. ++++|+||||||||+|+++++.++++.+. +||+|||||.|||+|+++|...+++++|+|+..+.. ..+...++
T Consensus 170 l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~-~VLv~a~sn~Avd~l~e~l~~~~~~vvRlg~~~r~~--~~~~~~sl 246 (637)
T TIGR00376 170 LSSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL-RVLVTAPSNIAVDNLLERLALCDQKIVRLGHPARLL--KSNKQHSL 246 (637)
T ss_pred hcCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC-CEEEEcCcHHHHHHHHHHHHhCCCcEEEeCCchhcc--hhHHhccH
Confidence 975 89999999999999999999999998776 999999999999999999999999999999987732 22223333
Q ss_pred HHHHhhccch-----hHHHHHHHHH---------------------hhhh-----hccCCh--------------h---H
Q 001501 482 HYQVRHLDTS-----EKSELHKLQQ---------------------LKDE-----QGELSS--------------S---D 513 (1066)
Q Consensus 482 ~~~i~~~~~~-----~~~~L~kl~~---------------------lk~~-----~~~ls~--------------~---~ 513 (1066)
...+...... ...++..+.. ++.+ ...+.. . .
T Consensus 247 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~ 326 (637)
T TIGR00376 247 DYLIENHPKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRL 326 (637)
T ss_pred HHHHhcChhHHHHHHHHHHHHHHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHH
Confidence 3333321110 0001111100 0000 000000 0 0
Q ss_pred HHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCCChhhhhhhccccCceEEEeCCccCCCceee
Q 001501 514 EKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIM 593 (1066)
Q Consensus 514 ~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~ 593 (1066)
.+.++........+++..|+|+++| ++...+....||+||||||+|++||++|+|+.. ++++||||||+||||++.
T Consensus 327 ~~~~~~~~~~~~~~il~~a~v~~st---~~~~~l~~~~Fd~vIIDEAsQ~~ep~~lipl~~-~~~~vLvGD~~QLpP~v~ 402 (637)
T TIGR00376 327 LKLLPEIEERIENEILAESDVVQST---NSSAGLKGWEFDVAVIDEASQAMEPSCLIPLLK-ARKLILAGDHKQLPPTIL 402 (637)
T ss_pred HHHHHHHHHHHHHHHHhhCCEEEec---cCcHhhccCCCCEEEEECccccchHHHHHHHhh-CCeEEEecChhhcCCccc
Confidence 0111112233456789999987666 445678888999999999999999999999975 579999999999999998
Q ss_pred cHHHHhhcchHHHHHHHHHcC-CcceEeeeeeccCCCCCCccccccccCcccccccccccccCCCCCC--C-----CCCC
Q 001501 594 CKKAARAGLAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFP--W-----PVPN 665 (1066)
Q Consensus 594 s~~a~~~gl~~SLFeRL~~~g-~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~--~-----p~~~ 665 (1066)
+.. ..++..|+|+||+... ....+|++||||||+|++|+|+.||+|+|.++..+..+.+...... + ....
T Consensus 403 s~~--~~~l~~SlferL~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 480 (637)
T TIGR00376 403 SHD--AEELELTLFERLIKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETE 480 (637)
T ss_pred ccc--ccccchhHHHHHHHhCCCceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCC
Confidence 765 3578999999999863 3468999999999999999999999999998876665543222111 1 1234
Q ss_pred CCeEEEEecCcee---ecccCCCcCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHHHhccchhhhccCC
Q 001501 666 RPMFFYVQMGQEE---ISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKE 742 (1066)
Q Consensus 666 ~P~~f~~~~g~ee---~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~ 742 (1066)
.|++|+++.|.+. ....+.|++|..||..|.++++.|++.|+++.+|||||||++|+.+|++.|... ...
T Consensus 481 ~p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~-------~~~ 553 (637)
T TIGR00376 481 IPLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHR-------HID 553 (637)
T ss_pred CCEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhh-------CCC
Confidence 6999999998764 344578999999999999999999999999999999999999999999998643 246
Q ss_pred eEEeecccCCCccccEEEEEccccCCCCCcCCCCCCCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCeeec
Q 001501 743 IEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVE 822 (1066)
Q Consensus 743 V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~~~~~~lv~ 822 (1066)
|+|.|||+|||+|+|+||+|+||+|....+||+.|.|||||||||||++||||||..+|+++++|++|++|+++++++++
T Consensus 554 i~v~TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~~~~~~li~~~~~~~~~~~ 633 (637)
T TIGR00376 554 IEVSSVDGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHGEVRE 633 (637)
T ss_pred eEEccccccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhccChHHHHHHHHHHHCCCEEc
Confidence 99999999999999999999999999888999999999999999999999999999999999999999999999999988
Q ss_pred CCC
Q 001501 823 GPL 825 (1066)
Q Consensus 823 g~l 825 (1066)
..+
T Consensus 634 ~~~ 636 (637)
T TIGR00376 634 AFK 636 (637)
T ss_pred CCC
Confidence 654
No 3
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.7e-79 Score=703.02 Aligned_cols=554 Identities=30% Similarity=0.440 Sum_probs=416.1
Q ss_pred ecCCCeEEEEEEccCCC-CCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEeccccEEEEEeccCCCCCcccCCCceEEEe
Q 001501 256 IGLNKKRVAYFVFPKED-NELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPVDINHGFSVDFV 334 (1066)
Q Consensus 256 ~~l~~k~~~~~~~~~~~-~~~~l~~GD~v~l~~~~~~~~~~~~~~g~V~~i~~~~~v~l~l~~~~~~p~~~~~~~~v~~~ 334 (1066)
.||.+|.+..|....+. ....|.+||.|.|+...-.....-...|.|+++... .+.+.+......|.... ..++..+
T Consensus 53 tGl~g~~li~f~~~~~~lp~~~~~~gd~v~lr~~~~~~~~~~~~~GvV~~~~~~-~i~~a~ee~~d~~~~~~-~l~l~kl 130 (649)
T KOG1803|consen 53 TGLGGKSLIVFSKNREVLPSNSFGPGDVVWLRTDKLNNKSKPCTEGVVYRVAED-SIDVAFEEEVDKPLTLS-SLRLLKL 130 (649)
T ss_pred ecccceEEEEeccCccccCcCCCCCCcEEEEEcccccccCcccccceeEeeccc-hhhHhHHhhhcccchhh-HHHHHHh
Confidence 68999998888766532 356899999999984322111111345888888752 34444433333443222 4556777
Q ss_pred eccchHHHHHHHHHHHHHhh-cchhhhhhhhhcCCchhhhhhccCCCCCCCCCCCCCCCHHHHHHHHHHhcC-CcEEEEC
Q 001501 335 WKSTSFDRMQGAMKTFAVDE-TSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQR-PISLIQG 412 (1066)
Q Consensus 335 ~~~~s~~R~~~AL~~~~~~e-~~~~~~i~~~llg~~~~~~~~~~~lp~~~~~~~~~~LN~sQ~~AV~~aL~~-~l~LIqG 412 (1066)
.|..+|+||..+|..+...- ...+.-+.+.+.+............ .-..+....||.+|++||..++.+ .+.+|+|
T Consensus 131 ~n~vty~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~~~--~~~~~~~~~ln~SQk~Av~~~~~~k~l~~I~G 208 (649)
T KOG1803|consen 131 ENKVTYRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEI--KKITFFNKNLNSSQKAAVSFAINNKDLLIIHG 208 (649)
T ss_pred hhhhhheecHHHHhhHhhhcCccchhhhHHHHhccccCCCCchhhh--cccccCCccccHHHHHHHHHHhccCCceEeeC
Confidence 88999999999988876521 1122223333443321111111000 001123458999999999999885 8999999
Q ss_pred CCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHHHHhhccchh
Q 001501 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (1066)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l~~~i~~~~~~~ 492 (1066)
|||||||+|++++|.+|++++. +||||||||.|||||.+||...+++++|+|++.|....... ..+...+..-+...
T Consensus 209 PPGTGKT~TlvEiI~qlvk~~k-~VLVcaPSn~AVdNiverl~~~~~~l~R~g~paRl~~~~~~--~sld~~~~t~d~~~ 285 (649)
T KOG1803|consen 209 PPGTGKTRTLVEIISQLVKQKK-RVLVCAPSNVAVDNIVERLTHLKLNLVRVGHPARLLESVAD--HSLDLLSNTKDNSQ 285 (649)
T ss_pred CCCCCceeeHHHHHHHHHHcCC-eEEEEcCchHHHHHHHHHhcccccchhhcCchhhhhhhhhh--hHHHHHHhcCchhh
Confidence 9999999999999999999985 99999999999999999999999999999999885322111 11222221111100
Q ss_pred -HHHHHH-HHHhhhhhc-----cCChhHH-------HHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEE
Q 001501 493 -KSELHK-LQQLKDEQG-----ELSSSDE-------KKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLID 558 (1066)
Q Consensus 493 -~~~L~k-l~~lk~~~~-----~ls~~~~-------kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIID 558 (1066)
...+.+ +........ .+..... +.+++..+....+++.+++||++|..++....+.+..||+||||
T Consensus 286 ~~~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~~~fD~vIID 365 (649)
T KOG1803|consen 286 NAKDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALDRLLRKRTFDLVIID 365 (649)
T ss_pred hhhhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhhhhhcccCCCEEEEe
Confidence 001110 000000000 0111111 12222223344689999999999999999988888899999999
Q ss_pred CCCCCChhhhhhhccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC--CcceEeeeeeccCCCCCCcccc
Q 001501 559 ESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFPSN 636 (1066)
Q Consensus 559 EAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g--~~~i~L~~qYRm~p~I~~f~s~ 636 (1066)
||+|+.||+||+|+.. .+++||+|||+||||++.+.++...|+..|+|||+.... .-.++|++|||||..|+.|+|.
T Consensus 366 EaaQamE~~cWipvlk-~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~ 444 (649)
T KOG1803|consen 366 EAAQAMEPQCWIPVLK-GKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNE 444 (649)
T ss_pred hhhhhccchhhhHHhc-CCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHh
Confidence 9999999999999975 679999999999999999999999999999999999863 3457999999999999999999
Q ss_pred ccccCcccccccccccccCCCCCCC--CCCCCCeEEEEecCceeeccc-----CCCcCCHHHHHHHHHHHHHHHHCCCCC
Q 001501 637 SFYEGTLQNGVTINERQSSGIDFPW--PVPNRPMFFYVQMGQEEISAS-----GTSYLNRTEAANVEKIVTTFLRSGVVP 709 (1066)
Q Consensus 637 ~FY~g~L~~~~~~~~r~~~~~~~~~--p~~~~P~~f~~~~g~ee~~~~-----~~S~~N~~EA~~V~~iV~~Ll~~gv~~ 709 (1066)
.||+|++....++..+.+..+.... .....|++|+++.+.+..... ..|++|..||++|..++..|++.|+.+
T Consensus 445 ~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV~p 524 (649)
T KOG1803|consen 445 VFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGVQP 524 (649)
T ss_pred hhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcCCCh
Confidence 9999999999988887765443322 235689999999887543322 248899999999999999999999999
Q ss_pred CcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCCCCceeeechhhc
Q 001501 710 SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRAR 789 (1066)
Q Consensus 710 ~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK 789 (1066)
.||||||||++|+.+|++.. .....+++|+|||+|||+|+|+||||+||||+...+|||.|.|||||||||||
T Consensus 525 ~dIaVIsPY~aQv~llR~~~-------~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTRaR 597 (649)
T KOG1803|consen 525 SDIAVISPYNAQVSLLREED-------EEDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITRAR 597 (649)
T ss_pred hHeEEeccchHHHHHHhhcc-------cccCccceeecccccccceeeEEEEEEEeecCcccccccCCcceeeEEEEecc
Confidence 99999999999999998321 22346799999999999999999999999999999999999999999999999
Q ss_pred cceEEEecccccc-CChhHHHHHHHHHhcCeeecCC
Q 001501 790 YGIVILGNPKVLS-KQPLWNGLLTHYKEHECLVEGP 824 (1066)
Q Consensus 790 ~~LiIVGn~~~Ls-~~~~W~~ll~~~~~~~~lv~g~ 824 (1066)
++++||||..+++ .+.+.+++++|+.+++.+...+
T Consensus 598 Rh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p~ 633 (649)
T KOG1803|consen 598 RHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGPS 633 (649)
T ss_pred ceEEEEcCcHHHHhhHHHHHHHHHHhhhcceecccc
Confidence 9999999999999 8999999999999999887544
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=3.9e-62 Score=579.02 Aligned_cols=389 Identities=34% Similarity=0.550 Sum_probs=323.6
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001501 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~ 466 (1066)
+..||..|++|+..++. +++.||.|-||||||||++.+|..|+..++ +||++++||.|||||+-||...++.++|+|.
T Consensus 667 ~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~gk-kVLLtsyThsAVDNILiKL~~~~i~~lRLG~ 745 (1100)
T KOG1805|consen 667 LLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVALGK-KVLLTSYTHSAVDNILIKLKGFGIYILRLGS 745 (1100)
T ss_pred HhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHHcCC-eEEEEehhhHHHHHHHHHHhccCcceeecCC
Confidence 34899999999999987 789999999999999999999999998876 9999999999999999999999999999998
Q ss_pred ccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCcc
Q 001501 467 KSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1066)
Q Consensus 467 ~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~ 546 (1066)
..+ .|..++++- . ......+.|..+ +..++...||.|||.+..++.
T Consensus 746 ~~k-----------ih~~v~e~~-----------~-------~~~~s~ks~~~l-----~~~~~~~~IVa~TClgi~~pl 791 (1100)
T KOG1805|consen 746 EEK-----------IHPDVEEFT-----------L-------TNETSEKSYADL-----KKFLDQTSIVACTCLGINHPL 791 (1100)
T ss_pred ccc-----------cchHHHHHh-----------c-------ccccchhhHHHH-----HHHhCCCcEEEEEccCCCchh
Confidence 654 222222211 0 111112333333 345788999999999999998
Q ss_pred ccCCCCCEEEEECCCCCChhhhhhhccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCC-cceEeeeeec
Q 001501 547 LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYR 625 (1066)
Q Consensus 547 L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~-~~i~L~~qYR 625 (1066)
+.+.+||++|||||+|+..|-+|.|+.. ++++||||||.||||.+.+.+|+..|++.|||+||..... .+..|+.|||
T Consensus 792 f~~R~FD~cIiDEASQI~lP~~LgPL~~-s~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~hpeaV~~Lt~QYR 870 (1100)
T KOG1805|consen 792 FVNRQFDYCIIDEASQILLPLCLGPLSF-SNKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEKHPEAVSSLTLQYR 870 (1100)
T ss_pred hhccccCEEEEccccccccchhhhhhhh-cceEEEecccccCCccccchhhhhcCcchHHHHHHhhhCchHHHhHHHHHh
Confidence 8888999999999999999999999976 6899999999999999999999999999999999998543 4568999999
Q ss_pred cCCCCCCccccccccCccccccccccccc-------------CCCCCCCC----CCCCCeEEEEecCceee--cccCCCc
Q 001501 626 MHPSLSEFPSNSFYEGTLQNGVTINERQS-------------SGIDFPWP----VPNRPMFFYVQMGQEEI--SASGTSY 686 (1066)
Q Consensus 626 m~p~I~~f~s~~FY~g~L~~~~~~~~r~~-------------~~~~~~~p----~~~~P~~f~~~~g~ee~--~~~~~S~ 686 (1066)
|+.+|+.++|.+||+|+|+.+...-.+.. .....+|- .+..++.|+.+...... .......
T Consensus 871 Mn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~~ie~~~e~~~i 950 (1100)
T KOG1805|consen 871 MNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDTCSTIESQGEKGGI 950 (1100)
T ss_pred hcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCcccchhhhccccCc
Confidence 99999999999999999997744332210 01122342 35677777655443222 2234456
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEcccc
Q 001501 687 LNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRS 766 (1066)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRS 766 (1066)
.|..||..+.+++..+++.|+++++||||+||++|+.+|++.+... .++|.|||+|||||+|+||+|+||+
T Consensus 951 ~N~~EA~li~~~~~~fv~sGv~~~dIGIis~YraQv~Li~~~l~~~---------~lEinTVD~yQGRDKd~IivSfvrs 1021 (1100)
T KOG1805|consen 951 TNHGEAKLISELVEDFVKSGVKPSDIGIISPYRAQVELIRKILSSA---------VLEINTVDRYQGRDKDCIIVSFVRS 1021 (1100)
T ss_pred CchhHHHHHHHHHHHHHHcCCCHHHeeeeehHHHHHHHHHhhcccc---------ceeeeehhhhcCCCCCEEEEEEEec
Confidence 6999999999999999999999999999999999999999987542 3999999999999999999999999
Q ss_pred CCCCCcC-CCCCCCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCeee
Q 001501 767 NEHQGIG-FLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLV 821 (1066)
Q Consensus 767 n~~~~iG-FL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~~~~~~lv 821 (1066)
|.....| .|+|+||+||||||||.+||+||+..+|...+..++|++++.++..+.
T Consensus 1022 n~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~~~~~~l~~~l~~~~~l~ 1077 (1100)
T KOG1805|consen 1022 NKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESYPPFRQLLKLLENRIELL 1077 (1100)
T ss_pred CCcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccCchHHHHHhhhhhhhhHH
Confidence 9875554 788999999999999999999999999999999999999987665443
No 5
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=1.3e-51 Score=477.10 Aligned_cols=283 Identities=35% Similarity=0.527 Sum_probs=246.3
Q ss_pred HHHHhccccccccccccCCcc--ccCCCCCEEEEECCCCCChhhhhhhccccCceEEEeCCccCCCceeec-HHHHhhcc
Q 001501 526 REISQSADVICCTCVGAGDPR--LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC-KKAARAGL 602 (1066)
Q Consensus 526 ~~iL~~a~VI~~T~~~a~~~~--L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s-~~a~~~gl 602 (1066)
..+++.++||.+|+++++..+ |.+...++|||.||+.+.|+.++..+...+.+|||||||+||.|..-. +.+..+++
T Consensus 693 a~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~fnL 772 (1025)
T KOG1807|consen 693 AFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIFNL 772 (1025)
T ss_pred HHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcchhhHhHhcch
Confidence 358899999999999998755 677789999999999999998777777788999999999999998654 34566899
Q ss_pred hHHHHHHHHHcCCcceEeeeeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeeccc
Q 001501 603 AQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISAS 682 (1066)
Q Consensus 603 ~~SLFeRL~~~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~ 682 (1066)
..|+||||+..|.+-.+|+.||||+|+|+++....||++-+. .+++.... ..+.....++|+.+...++....
T Consensus 773 ~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYddl~d-~esvk~ye------dI~gms~nlfFv~hnspee~~de 845 (1025)
T KOG1807|consen 773 SISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDDLLD-SESVKEYE------DIRGMSKNLFFVQHNSPEECMDE 845 (1025)
T ss_pred hHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhhhhc-chhhcccc------ccccccceeeEEecCCcccCcch
Confidence 999999999999999999999999999999999999996543 33332211 11223467788887777765544
Q ss_pred CCCcCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEE
Q 001501 683 GTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILS 762 (1066)
Q Consensus 683 ~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS 762 (1066)
.|+.|..||.+++++++.|++.++.+.||.|+|+|++|...|++.+... ....|.|.|||+|||.|.|+|++|
T Consensus 846 -~S~~NlhEa~mlv~l~kyli~q~y~psdIviLttY~gQk~ci~rllp~~------~~stv~VatVDsfQGeEndIVLlS 918 (1025)
T KOG1807|consen 846 -MSIGNLHEAGMLVKLTKYLIQQQYKPSDIVILTTYNGQKECIKRLLPQN------YRSTVQVATVDSFQGEENDIVLLS 918 (1025)
T ss_pred -hhhhhHHHHHHHHHHHHHHHhcCCCccceEEEeechhHHHHHHHHhHHH------hcCcceEEEeccccCccccEEEEE
Confidence 8999999999999999999999999999999999999999999988653 345699999999999999999999
Q ss_pred ccccCCCCCcCCCCCCCceeeechhhccceEEEeccccccC-ChhHHHHHHHHHhcCeeec
Q 001501 763 CVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK-QPLWNGLLTHYKEHECLVE 822 (1066)
Q Consensus 763 ~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~-~~~W~~ll~~~~~~~~lv~ 822 (1066)
+||+|..+.+|||.-.+|++|||||||++||||||..++.. .++|+++++-+++++.|-+
T Consensus 919 LVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~ 979 (1025)
T KOG1807|consen 919 LVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGE 979 (1025)
T ss_pred EEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhcccccc
Confidence 99999999999999999999999999999999999999987 8999999999999988754
No 6
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.4e-45 Score=457.11 Aligned_cols=487 Identities=36% Similarity=0.506 Sum_probs=355.5
Q ss_pred CCCceEEEeec------cchHHHHHHHHHHHHHhhcchhhhhhhhhcCCchhhhhhccCCCCCCCCCCCCCCCHHHHHHH
Q 001501 326 NHGFSVDFVWK------STSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAV 399 (1066)
Q Consensus 326 ~~~~~v~~~~~------~~s~~R~~~AL~~~~~~e~~~~~~i~~~llg~~~~~~~~~~~lp~~~~~~~~~~LN~sQ~~AV 399 (1066)
.....+++..+ ...+.++...+..+.........++.+...+......... ...........++..|..++
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~ 283 (767)
T COG1112 207 KEEVRVDIVENLLELSESILLRRELELLSKFALILKRLLESLFEILRGKDLPIKLLD---VELELVEINKELDNEQKLAV 283 (767)
T ss_pred ccceEEEehhhccccchhHHHHhhhhhhHHHhhcccchhhhHHHHhhccccccccCC---cceeeeccchhccchhHHHH
Confidence 34456666655 6778888777777654332222222221111111000000 00000112346788888888
Q ss_pred HHHhc-CCcEEEE-CCCCCcHhH--HHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcC--CeEEEeccccccccC
Q 001501 400 KSVLQ-RPISLIQ-GPPGTGKTV--TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG--LKVVRLCAKSREAVS 473 (1066)
Q Consensus 400 ~~aL~-~~l~LIq-GPPGTGKTt--Tla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~g--l~ivRlg~~sre~i~ 473 (1066)
..... ....++. +++|||||. ++...+.........+++.++++|.+++++..++.+.. ...++++.+.+....
T Consensus 284 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 363 (767)
T COG1112 284 KRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTVIKVELLRIGHPSRVLKK 363 (767)
T ss_pred HHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhccccceEEcCCcchhhhh
Confidence 87765 5555555 999999999 77777777777766799999999999999999998754 446677665543211
Q ss_pred Ccch---------------hhhHHHHHhhccchh---------------HHHHHHHHHhhhhhccCChh-----------
Q 001501 474 SPVE---------------HLTLHYQVRHLDTSE---------------KSELHKLQQLKDEQGELSSS----------- 512 (1066)
Q Consensus 474 ~~~~---------------~l~l~~~i~~~~~~~---------------~~~L~kl~~lk~~~~~ls~~----------- 512 (1066)
.... .......+..+.... ...+.+..........+...
T Consensus 364 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ 443 (767)
T COG1112 364 LKLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGILPALNKSEALWISL 443 (767)
T ss_pred hhhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcchhHHHHHHHHHHHhh
Confidence 1000 000000000000000 00000000000000000000
Q ss_pred ------HHHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCCChhhhhhhccccCceEEEeCCcc
Q 001501 513 ------DEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHC 586 (1066)
Q Consensus 513 ------~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~ 586 (1066)
.....+.+.......+...+++|++|++.++...+....||+||||||+|++++.+++|+.. ++++|++|||+
T Consensus 444 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~~~~fd~viiDEAsQ~~~~~~~~~l~~-~~~~il~GD~k 522 (767)
T COG1112 444 EEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILKKYEFDYVIIDEASQATEPSALIALSR-AKKVILVGDHK 522 (767)
T ss_pred hhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhcccccCEEEEcchhcccchhHHHhHhh-cCeEEEecCCc
Confidence 00111222233445677778899999999998888888999999999999999999999987 89999999999
Q ss_pred CCCceeecHHHHhhcchHHHHHHHHHcCC-cceEeeeeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCC
Q 001501 587 QLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPN 665 (1066)
Q Consensus 587 QLpPvv~s~~a~~~gl~~SLFeRL~~~g~-~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~ 665 (1066)
||||++.+......++..++|++++..+. ...+|+.|||||+.|+.|+|..||++++..+.............++....
T Consensus 523 QL~p~~~~~~~~~~~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~ 602 (767)
T COG1112 523 QLPPTVFFKESSPEGLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVIS 602 (767)
T ss_pred cCCCeecchhhcccchhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhcccccccccc
Confidence 99999988766777899999999999875 77899999999999999999999999999876665544433333333346
Q ss_pred CCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHHHhccchhhhccCCeEE
Q 001501 666 RPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEV 745 (1066)
Q Consensus 666 ~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V 745 (1066)
.|..++++.+.++ .....++.|..||..+..++..+++.++.+.+||||+||++|+..|++.+...+ ..++|
T Consensus 603 ~~~~~~~~~~~~~-~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~~igvis~y~~q~~~i~~~~~~~~-------~~v~v 674 (767)
T COG1112 603 NPLEFYDTLGAEE-FFESKSKLNELEAEIVKVIVDELLKDGLEENDIGVISPYRAQVSLIRRLLNEAG-------KGVEV 674 (767)
T ss_pred CceEEEEecCccc-ccCccceecHHHHHHHHHHHHHHHHcCCcHHHcceecccHHHHHHHHHHHHhcC-------CceEE
Confidence 7999999999887 556789999999999999999999999999999999999999999999887543 57999
Q ss_pred eecccCCCccccEEEEEccccCCC-CCcCCCCCCCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCeeecCC
Q 001501 746 ASVDSFQGREKDYIILSCVRSNEH-QGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGP 824 (1066)
Q Consensus 746 ~TVdsfQG~E~DvVIlS~VRSn~~-~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~~~~~~lv~g~ 824 (1066)
.|||+|||+|+|+||+|+||++.. +.+||+.|.||||||+||||++|||||+..++..++.|..++.+++.++++.+..
T Consensus 675 ~tvd~fQG~EkdvIi~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 675 GTVDGFQGREKDVIILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESDPLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred eeccccCCccCcEEEEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhhchhHHHHHHHHHhcCcEeecc
Confidence 999999999999999999999988 6999999999999999999999999999999999999999999999999998765
No 7
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=100.00 E-value=2.6e-47 Score=375.56 Aligned_cols=95 Identities=78% Similarity=1.533 Sum_probs=73.0
Q ss_pred ccccccCCCCCCceEEcCCCccCceeeCCCCCCCcchhhhhhhhcccceeeecCCCCCcccceeeeccccccccccccee
Q 001501 143 HACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFIS 222 (1066)
Q Consensus 143 ~~c~ycg~~~~~~~~~c~~~~c~kwfcn~~~~~~~shi~~hlv~~~~~~~~lh~~~~~~~~~lecy~~~~~nvf~lgf~~ 222 (1066)
|||+|||||+|+|||+|++ |+||||||+++|++||||+||||+|||||+||||+|||||+||||+||+||||+|||||
T Consensus 1 haC~YCG~~~p~~vv~C~~--c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~NvF~LGFip 78 (152)
T PF09416_consen 1 HACAYCGIHDPSCVVKCNT--CNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSRNVFLLGFIP 78 (152)
T ss_dssp TS-TTT----CCCEEEETT--TTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT----TTTEEEEE
T ss_pred CCccccCCCCcccEeEcCC--CCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCCceeeEEEEE
Confidence 8999999999999999999 99999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCceEEEeechhhhH
Q 001501 223 AKTESVVVLLCREPCLN 239 (1066)
Q Consensus 223 ~~~~~~~~~~~r~~~~~ 239 (1066)
+|+|+|||||||+||++
T Consensus 79 ak~d~vvvllCR~pC~~ 95 (152)
T PF09416_consen 79 AKSDSVVVLLCRQPCAN 95 (152)
T ss_dssp ETTSCEEEEEETTTTTS
T ss_pred eccCCeEEEEeCCchhc
Confidence 99999999999999984
No 8
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=3.1e-35 Score=366.23 Aligned_cols=293 Identities=35% Similarity=0.505 Sum_probs=247.9
Q ss_pred ccccccccccccCCccc--cCCCCCEEEEECCCCCChhhhhhhccc-cCceEEEeCCccCCCceeecHHHHhhcchHHHH
Q 001501 531 SADVICCTCVGAGDPRL--ANFRFRQVLIDESTQATEPECLIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLF 607 (1066)
Q Consensus 531 ~a~VI~~T~~~a~~~~L--~~~~Fd~VIIDEAsQ~tE~e~LIpL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLF 607 (1066)
.+.+|++|+.+.+.... ....|+.|+||||.|+.|+..++||.+ +..+.+++||+.|||++|.+..+..+.+..|+|
T Consensus 514 ~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~slf 593 (827)
T KOG1801|consen 514 EAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFKYMTSLF 593 (827)
T ss_pred cceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccccchhhHH
Confidence 78899999987776433 334799999999999999999999998 889999999999999999999999999999999
Q ss_pred HHHHHcCCcceEeeeeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEec-CceeecccCCCc
Q 001501 608 ERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQM-GQEEISASGTSY 686 (1066)
Q Consensus 608 eRL~~~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~-g~ee~~~~~~S~ 686 (1066)
+|+...+.....|++||||||+|+.|++..||+++|.+...+........... .....|+.|++.. |.|+.. .+.|.
T Consensus 594 ~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~-~~~~~~y~f~~v~~g~e~~~-~~~s~ 671 (827)
T KOG1801|consen 594 ERLELAGHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHS-GETFGPYPFFNVHYGKERAG-GGKSP 671 (827)
T ss_pred HHHHHccCccceecceeecCCccccCccccccccccccCcccchhhccccCcC-CCccCceEEEEecccccccC-CCCCc
Confidence 99999999888999999999999999999999999987776665443332222 2234567777665 666544 44899
Q ss_pred CCHHHHHHHHHHHHHHHHC----CCCCCcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEE
Q 001501 687 LNRTEAANVEKIVTTFLRS----GVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILS 762 (1066)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~----gv~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS 762 (1066)
.|..|+..+..++..|.+. ...+..+|||+||+.|+..+++.+...-.........+.+.|||+|||.|.|++|+|
T Consensus 672 ~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e~diii~s 751 (827)
T KOG1801|consen 672 VNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGERDIIIIS 751 (827)
T ss_pred ccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCCCceeEEE
Confidence 9999999999999998763 233678999999999999999887654321111124799999999999999999999
Q ss_pred ccccCCCCCcCCCCCCCceeeechhhccceEEEeccccccCChh-HHHHHHHHHhcCeeecCCC
Q 001501 763 CVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPL-WNGLLTHYKEHECLVEGPL 825 (1066)
Q Consensus 763 ~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~-W~~ll~~~~~~~~lv~g~l 825 (1066)
+||++..+.+||+.+.||+|||+||||..++++||...|..+.. |..++.-.+..+|+.+...
T Consensus 752 ~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~ 815 (827)
T KOG1801|consen 752 TVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAA 815 (827)
T ss_pred EEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhccccccccccc
Confidence 99999998999999999999999999999999999999998766 9999999999999987643
No 9
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.5e-36 Score=365.52 Aligned_cols=373 Identities=32% Similarity=0.415 Sum_probs=285.8
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcCCeEEE-eccccccccCCcchhhhHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVR-LCAKSREAVSSPVEHLTLH 482 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~gl~ivR-lg~~sre~i~~~~~~l~l~ 482 (1066)
....+|.||||||||.++++.++++... ....|++|+++|.++|....|++.- ..+-+ .+.+.+.. ....++.
T Consensus 326 ~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~p-~~~~~~~~~~~~~~--~~~~~~~-- 400 (775)
T KOG1804|consen 326 PEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHYP-LTFSTARGEDVRAK--SSTAWYN-- 400 (775)
T ss_pred ccccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccccccccccc-cccccccccccccc--chhHHhh--
Confidence 4678999999999999988777666544 4558999999999999999998321 11110 00000000 0000000
Q ss_pred HHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCcc---ccCCCCCEEEEEC
Q 001501 483 YQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR---LANFRFRQVLIDE 559 (1066)
Q Consensus 483 ~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~---L~~~~Fd~VIIDE 559 (1066)
+.++ +....+..+...+....++.+||+.++.-. ..-.+|.+++|||
T Consensus 401 ----------~~~v--------------------~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~De 450 (775)
T KOG1804|consen 401 ----------NAEV--------------------SEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDE 450 (775)
T ss_pred ----------hHHH--------------------HHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecc
Confidence 0000 001111111124556788999998877533 4445899999999
Q ss_pred CCCCChhhhhhhccc--cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC------------CcceEeeeeec
Q 001501 560 STQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG------------LKPIRLQVQYR 625 (1066)
Q Consensus 560 AsQ~tE~e~LIpL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g------------~~~i~L~~qYR 625 (1066)
|++++|+++++++.. ...++||.|||+||+|++.+..+...|++.+||+|++... ...+.|-.|||
T Consensus 451 Ag~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyr 530 (775)
T KOG1804|consen 451 AGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYR 530 (775)
T ss_pred cccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHh
Confidence 999999999999974 2348999999999999999999999999999999998752 12367999999
Q ss_pred cCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHC
Q 001501 626 MHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS 705 (1066)
Q Consensus 626 m~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~ 705 (1066)
+|+.|....|++||++.|............ ..|. ..++|..+.|..+...+..|+.|..||..|..++..+...
T Consensus 531 shp~il~l~~~l~y~~eL~~~~~~~~v~~~---~~w~---~liif~g~~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~ 604 (775)
T KOG1804|consen 531 SHPIILCLENRLYYLGELTAEASEVDVRGL---ELWS---GLILFYGAPGFTERAGNSPSWLNLEEAAVVVRMTKALPLG 604 (775)
T ss_pred hhhHhhhcccccccccceeeeccHHHHHHH---Hhcc---cceeccccccccccccCChhhccHHHHHHHHHHHhccCCC
Confidence 999999999999999999854433322111 1232 3488899999999999999999999999998888777654
Q ss_pred C-CCCCcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEccccCCCC------CcCCCCCC
Q 001501 706 G-VVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQ------GIGFLNDP 778 (1066)
Q Consensus 706 g-v~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~------~iGFL~d~ 778 (1066)
. +...||||||||++|+..|+.++...+ +.++.|++|..|||+|+.+||+|+|||.... ..+|+.++
T Consensus 605 ~~~~~~DIgvitpy~aq~~~i~~~l~~~~------~~~~~vgsVe~fqGqE~~viiiStVrS~~~~~~~~~~~~~fls~p 678 (775)
T KOG1804|consen 605 EVAQPQDIGVITPYTAQVSEIRKALRRLG------VPGVKVGSVEEFQGQEPWVILGSTVRSFALPLLDDRYFGLFLSRP 678 (775)
T ss_pred CccccccceeeCcHHHHHHHHHHHhcccC------CCCCcccceeeeccccceeeEeecccccCCCcccccccceeecCc
Confidence 3 445699999999999999999987654 5789999999999999999999999998531 22389999
Q ss_pred CceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCeeecCC
Q 001501 779 RRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGP 824 (1066)
Q Consensus 779 RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~~~~~~lv~g~ 824 (1066)
++||||+|||+..++++|++..+..++.|+.++.++.+++.+....
T Consensus 679 k~l~v~V~rp~~l~i~~~~~h~~~~~~~~~~~l~~~~~n~~y~~c~ 724 (775)
T KOG1804|consen 679 KRLLVAVGRPRALLINLGNPHLLGGDPPWGLLLLLRVENGRYPGCD 724 (775)
T ss_pred ccceeeccCccccccccCCcccccCCCChhhheeeeecCCcccCCC
Confidence 9999999999999999999999999999999999998887766543
No 10
>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=3.8e-34 Score=301.20 Aligned_cols=195 Identities=44% Similarity=0.714 Sum_probs=141.5
Q ss_pred chHHHHHHHHHcC-CcceEeeeeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeec
Q 001501 602 LAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEIS 680 (1066)
Q Consensus 602 l~~SLFeRL~~~g-~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~ 680 (1066)
+..|||+|+...+ .+.++|++||||||+|++|+|++||+|+|.+.......... .....+....|+.|+++.+.+...
T Consensus 1 ~~~Slferl~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~i~v~~~~~~~ 79 (200)
T PF13087_consen 1 LDRSLFERLIKNGSVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAP-LLKLLPSPQNPIVFIDVSGSESSS 79 (200)
T ss_dssp TTS-HHHHHHHCT----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T------SSTTSSEEEEE----EEEE
T ss_pred CCccHHHHHHHcCCCCceecccccCCCHHHHHHHHHHHhchhcccCccccccccc-ccccccCCCCceEEEecccccccc
Confidence 4679999999998 88899999999999999999999999999987765554433 122334566889999999988776
Q ss_pred ccC-CCcCCHHHHHHHHHHHHHHHHCCCCC---CcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCccc
Q 001501 681 ASG-TSYLNRTEAANVEKIVTTFLRSGVVP---SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREK 756 (1066)
Q Consensus 681 ~~~-~S~~N~~EA~~V~~iV~~Ll~~gv~~---~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~ 756 (1066)
... +|+.|..||+.|+++++.|+..+... .+|+|||||++|+.+|++.|......... ..++|.|||+|||+|+
T Consensus 80 ~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~--~~~~v~Tvd~~QG~E~ 157 (200)
T PF13087_consen 80 ESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPI--KDIKVSTVDSFQGQEA 157 (200)
T ss_dssp TTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHH--HCSEEEEHHHHTT--E
T ss_pred cccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhcccccc--ceEEEecHHHhccccc
Confidence 554 89999999999999999999987765 89999999999999999999865422211 1299999999999999
Q ss_pred cEEEEEccccCCCCCcCCCCCCCceeeechhhccceEEEeccc
Q 001501 757 DYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPK 799 (1066)
Q Consensus 757 DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~ 799 (1066)
|+||+|+|+++....+||+.+.+|+|||+||||++||||||++
T Consensus 158 diVi~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~~ 200 (200)
T PF13087_consen 158 DIVIVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNPE 200 (200)
T ss_dssp EEEEEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H-
T ss_pred eEEEEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecCC
Confidence 9999999999877789999999999999999999999999963
No 11
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.97 E-value=8.2e-31 Score=279.50 Aligned_cols=204 Identities=38% Similarity=0.569 Sum_probs=128.6
Q ss_pred CCCHHHHHHHHHHhcCCc-EEEECCCCCcHhHHHHHHHHHHH-------HcCCCeEEEEcCcHHHHHHHHHHHHh-----
Q 001501 390 ELNASQVFAVKSVLQRPI-SLIQGPPGTGKTVTSAAIVYHMA-------KQGQGQVLVCAPSNVAVDQLAEKISA----- 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l-~LIqGPPGTGKTtTla~iI~~Ll-------k~~~~rILV~ApSN~AvD~L~eRL~~----- 456 (1066)
+||++|++||..++.+.. ++|+||||||||+|++.++..++ .....+||+|++||.|+|++.++|.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~~~ 80 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLDED 80 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC-----
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhcccc
Confidence 489999999999999876 99999999999999999999883 23566999999999999999999988
Q ss_pred ---cCCeEEEeccccccccCCcchhhhHHHHHhhccc----hhHHHHHHH------HHhhhhhccCChh---HHHHHHHH
Q 001501 457 ---TGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDT----SEKSELHKL------QQLKDEQGELSSS---DEKKYKAL 520 (1066)
Q Consensus 457 ---~gl~ivRlg~~sre~i~~~~~~l~l~~~i~~~~~----~~~~~L~kl------~~lk~~~~~ls~~---~~kr~~~l 520 (1066)
...+++|++... +.....+....+...+..... .....+.++ ..+......+... ..+.++..
T Consensus 81 ~~~~~~~~ir~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (236)
T PF13086_consen 81 GKVYKPKIIRLGSEE-EKIHEDLQKFSLESKLEQRFESKLKRLREQLEELQQKIRLSELKEEKKKLKKSIKRLRKELEKI 159 (236)
T ss_dssp ---TT--EEE---GG-TTS--TTGGGBHHHHHHTTT-----------THHHCHHHHHHHHHHHCCSSCHHHHHHHHHHHH
T ss_pred ccccccchhhhcccc-cccccccccccccccccccccccchhhhHHHHHHHHhhhhhhhhhhhhhcchhccccccccccc
Confidence 356799998876 222333333443333333221 000111111 1111122222221 22334444
Q ss_pred HHHHHHHHHhccccccccccccCCccccCC--CCCEEEEECCCCCChhhhhhhccccCceEEEeCCccCCCceeec
Q 001501 521 KRATEREISQSADVICCTCVGAGDPRLANF--RFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1066)
Q Consensus 521 ~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~--~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s 594 (1066)
.+.....+++.++||++|+.++....+... .||+||||||+|++|+++++|+...++++||||||+||||++.+
T Consensus 160 ~~~~~~~~l~~~~vi~~T~~~~~~~~~~~~~~~~d~vIvDEAsq~~e~~~l~~l~~~~~~~vlvGD~~QLpP~v~s 235 (236)
T PF13086_consen 160 REELRRFILKEADVIFTTLSSAASPFLSNFKEKFDVVIVDEASQITEPEALIPLSRAPKRIVLVGDPKQLPPVVKS 235 (236)
T ss_dssp HHHHHHHHHHT-SEEEEETCGGG-CCGTT-----SEEEETTGGGS-HHHHHHHHTTTBSEEEEEE-TTS-----S-
T ss_pred ccchhhhhcccccccccccccchhhHhhhhcccCCEEEEeCCCCcchHHHHHHHHHhCCEEEEECChhhcCCeeCC
Confidence 455567899999999999999977777766 89999999999999999999998877999999999999999875
No 12
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.97 E-value=6.4e-31 Score=327.05 Aligned_cols=304 Identities=19% Similarity=0.228 Sum_probs=168.5
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHHHhcCC---eEE
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL---KVV 462 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL~~~gl---~iv 462 (1066)
..||++|++||... .+..+|.|+||||||+|++++|++|+.. .+.+||++||||+||++|.+||.+..- .-+
T Consensus 3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~~~~~ 80 (715)
T TIGR01075 3 DGLNDKQREAVAAP--PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSARGM 80 (715)
T ss_pred cccCHHHHHHHcCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcccccCc
Confidence 47999999999865 6789999999999999999999999975 456899999999999999999976411 111
Q ss_pred Eeccccc-------c-----ccCCcchhhh-------HHHHHhhccchh----HHHH-HHHHHhhhhh------ccCChh
Q 001501 463 RLCAKSR-------E-----AVSSPVEHLT-------LHYQVRHLDTSE----KSEL-HKLQQLKDEQ------GELSSS 512 (1066)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~l~-------l~~~i~~~~~~~----~~~L-~kl~~lk~~~------~~ls~~ 512 (1066)
.++.-.. + ........+. +...+....... ...+ ..+...+... ......
T Consensus 81 ~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~~ 160 (715)
T TIGR01075 81 WIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAMWYINNQKDEGLRPSHIQAFDNP 160 (715)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHCCCCHHHHHhccCh
Confidence 1111000 0 0000000000 000001000000 0000 0011111100 000000
Q ss_pred HH----HHHHHHHHHHH-HHHHhccccccccccccC-Ccccc---CCCCCEEEEECCCCCChhhhhhh--ccccCceEEE
Q 001501 513 DE----KKYKALKRATE-REISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPECLIP--LVLGAKQVVL 581 (1066)
Q Consensus 513 ~~----kr~~~l~~~~~-~~iL~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQ~tE~e~LIp--L~~~~krlIL 581 (1066)
.. ..|+....... ...++..|++..+..... .+.+. ..+|++|+|||+|+++..+..+. |....+++++
T Consensus 161 ~~~~~~~iy~~Y~~~~~~~~~lDfdDll~~~~~lL~~~~~~~~~~~~~~~~ilVDEfQDtn~~Q~~ll~~L~~~~~~l~v 240 (715)
T TIGR01075 161 VERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVMI 240 (715)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCeEEE
Confidence 01 11111111111 112333344433322211 11121 23799999999999999774332 2234578999
Q ss_pred eCCccCCCceeecHHHHhhcchH---HHHHHHHHc--CCcceEeeeeeccCCCCCCccccccccCcccccccccccccCC
Q 001501 582 VGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSG 656 (1066)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~ 656 (1066)
|||++| ..+++.. ..|.++... +...+.|++|||+++.|++++|.++-.+......
T Consensus 241 VGD~~Q----------sIY~fRGA~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~--------- 301 (715)
T TIGR01075 241 VGDDDQ----------SIYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGK--------- 301 (715)
T ss_pred EeCCcc----------cccccCCCCHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhccccccc---------
Confidence 999999 3444433 333333322 2346899999999999999999988654321100
Q ss_pred CCCCCCC--CCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHH
Q 001501 657 IDFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVN 727 (1066)
Q Consensus 657 ~~~~~p~--~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~ 727 (1066)
..|.. ...++.++.. .....||..|++.|..+++.|++++||+||++.+.|...|+.
T Consensus 302 --~~~~~~~~g~~i~~~~~------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~ 360 (715)
T TIGR01075 302 --NLWTDGEVGEPISLYSA------------FNELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSRVLEE 360 (715)
T ss_pred --cccCCCCCCCceEEEeC------------CCHHHHHHHHHHHHHHHHHcCCCccCEEEEEecCchHHHHHH
Confidence 00110 1112222211 112568999999999999989999999999765555444444
No 13
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.97 E-value=6.1e-31 Score=327.15 Aligned_cols=304 Identities=19% Similarity=0.223 Sum_probs=170.4
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHHHhcC-C--eEE
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATG-L--KVV 462 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL~~~g-l--~iv 462 (1066)
..||++|++||... .+..+|.|+||||||+|++++|++|+.. .+.+||++||||+||++|.+|+.+.. . .-+
T Consensus 8 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~~~~ 85 (721)
T PRK11773 8 DSLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQGGM 85 (721)
T ss_pred HhcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccCCCCC
Confidence 36999999999865 6889999999999999999999999974 45689999999999999999997641 1 001
Q ss_pred Eeccc---cc----c-----ccCCcchhhh-------HHHHHhhccch----hHHH-HHHHHHhhhhhccCChhH-----
Q 001501 463 RLCAK---SR----E-----AVSSPVEHLT-------LHYQVRHLDTS----EKSE-LHKLQQLKDEQGELSSSD----- 513 (1066)
Q Consensus 463 Rlg~~---sr----e-----~i~~~~~~l~-------l~~~i~~~~~~----~~~~-L~kl~~lk~~~~~ls~~~----- 513 (1066)
.++.- .. + ........+. +...+..+... .... ...+...+.. .+...+
T Consensus 86 ~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~k~~--~~~~~~~~~~~ 163 (721)
T PRK11773 86 WVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDE--GLRPQHIQSYG 163 (721)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHc--CCCHHHHHhcc
Confidence 11110 00 0 0000000000 00000000000 0000 0000111100 000000
Q ss_pred ---H----HHHHHHHHHHH-HHHHhccccccccccccC-Cccc---cCCCCCEEEEECCCCCChhhhh-hh-ccccCceE
Q 001501 514 ---E----KKYKALKRATE-REISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPECL-IP-LVLGAKQV 579 (1066)
Q Consensus 514 ---~----kr~~~l~~~~~-~~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQ~tE~e~L-Ip-L~~~~krl 579 (1066)
. .-|+....... ...++..|++..+..... .+.+ ...+|++|+|||+|+++..+.. +. |.....++
T Consensus 164 ~~~~~~~~~iy~~Y~~~~~~~~~~DfdDll~~~~~lL~~~~~~~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l 243 (721)
T PRK11773 164 DPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDTGKV 243 (721)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEchhcCCHHHHHHHHHHhCCCCeE
Confidence 0 11111111111 113344444444433221 1122 1237999999999999987743 22 22245789
Q ss_pred EEeCCccCCCceeecHHHHhhcchH---HHHHHHHHc--CCcceEeeeeeccCCCCCCccccccccCccccccccccccc
Q 001501 580 VLVGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQS 654 (1066)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~ 654 (1066)
++|||++| ..|++.. ..|.++... +...+.|++|||+++.|++++|.+|-.+......
T Consensus 244 ~vVGD~dQ----------sIY~fRGA~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k------- 306 (721)
T PRK11773 244 MIVGDDDQ----------SIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGK------- 306 (721)
T ss_pred EEEecCcc----------cccccCCCChHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCc-------
Confidence 99999999 3444433 233333221 3456899999999999999999988654321100
Q ss_pred CCCCCCCCC--CCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHH
Q 001501 655 SGIDFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYM 729 (1066)
Q Consensus 655 ~~~~~~~p~--~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L 729 (1066)
..|.. .+.++.++.. .....||..|++.|..++..|++++||+||++.+.|...|++.|
T Consensus 307 ----~~~~~~~~g~~v~~~~~------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L 367 (721)
T PRK11773 307 ----ELWTDGGDGEPISLYCA------------FNELDEARFVVERIKTWQDNGGALSDCAILYRSNAQSRVLEEAL 367 (721)
T ss_pred ----ccccCCCCCCeeEEEeC------------CCHHHHHHHHHHHHHHHHHcCCCcccEEEEEecchhHHHHHHHH
Confidence 01110 1112222111 12357899999999999999999999999987665555554433
No 14
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.97 E-value=2.6e-30 Score=322.28 Aligned_cols=305 Identities=16% Similarity=0.172 Sum_probs=168.1
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHHHhcC---CeEE
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATG---LKVV 462 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL~~~g---l~iv 462 (1066)
..||++|++||... .+..+|.|+||||||+|++.+|.+|+.. .+.+||++||||+||++|.+|+.+.. ..-+
T Consensus 3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~~~~ 80 (726)
T TIGR01073 3 AHLNPEQREAVKTT--EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVAEDI 80 (726)
T ss_pred cccCHHHHHHHhCC--CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhccccCCc
Confidence 47999999999865 7889999999999999999999999975 35689999999999999999997541 1111
Q ss_pred Eeccccc-------c-----ccCCcchhh-------hHHHHHhhccch----hHH-HHHHHHHhhhhhccCChhH-----
Q 001501 463 RLCAKSR-------E-----AVSSPVEHL-------TLHYQVRHLDTS----EKS-ELHKLQQLKDEQGELSSSD----- 513 (1066)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~l-------~l~~~i~~~~~~----~~~-~L~kl~~lk~~~~~ls~~~----- 513 (1066)
.++.-.. + ........+ .+...+...... ... .+..+..++... +...+
T Consensus 81 ~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~--~~~~~~~~~~ 158 (726)
T TIGR01073 81 WISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNEL--LPPEDFAKEA 158 (726)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHcC--CCHHHHHHhh
Confidence 1111000 0 000000000 000001100000 000 000111111110 00000
Q ss_pred ----HHHHHHHHHHHH-----HHHHhccccccccccccC-Cccc---cCCCCCEEEEECCCCCChhhhh-h-hccccCce
Q 001501 514 ----EKKYKALKRATE-----REISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPECL-I-PLVLGAKQ 578 (1066)
Q Consensus 514 ----~kr~~~l~~~~~-----~~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQ~tE~e~L-I-pL~~~~kr 578 (1066)
.+.+..+....+ ...++..|++..+..... .+.+ ...+|++|+|||+|+++..+.. + .|....++
T Consensus 159 ~~~~~~~~~~iy~~Y~~~l~~~~~lDfdDll~~~~~lL~~~~~v~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~ 238 (726)
T TIGR01073 159 TNYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRN 238 (726)
T ss_pred cchHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCE
Confidence 000111111111 123333444433332211 1112 1238999999999999998743 2 23234578
Q ss_pred EEEeCCccCCCceeecHHHHhhcchH---HHHHHHHHc--CCcceEeeeeeccCCCCCCccccccccCcccccccccccc
Q 001501 579 VVLVGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ 653 (1066)
Q Consensus 579 lILVGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~ 653 (1066)
+++|||++| ..+++.. ..|.++... +...+.|++|||+++.|++++|.++..+.-...
T Consensus 239 l~vVGD~~Q----------sIY~fRgA~~~~~~~f~~~~~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~------- 301 (726)
T TIGR01073 239 LCVVGDADQ----------SIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKP------- 301 (726)
T ss_pred EEEEeCCCc----------cccccCCCChHHHHHHHHhCCCCeEEECccCCCCCHHHHHHHHHHHHhcccccc-------
Confidence 999999999 3344433 233333221 345689999999999999999998865422110
Q ss_pred cCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHCC-CCCCcEEEEecchhHHHHHHHH
Q 001501 654 SSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNY 728 (1066)
Q Consensus 654 ~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~g-v~~~dIgIITPY~aQv~~L~~~ 728 (1066)
..+....+ ...++.++.. .....|+..|+..|..++..+ ++++||+||++.+.|...|+..
T Consensus 302 -~~l~~~~~-~g~~v~~~~~------------~~~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~~l~~~ 363 (726)
T TIGR01073 302 -KNLWTENS-SGDKITYYEA------------DTERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEET 363 (726)
T ss_pred -cccccCCC-CCcceEEEeC------------CCHHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHHHHHHH
Confidence 00000000 1112222211 112468999999999998876 6899999998766555544443
No 15
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.97 E-value=4.7e-30 Score=316.20 Aligned_cols=238 Identities=18% Similarity=0.204 Sum_probs=132.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHHHhc-CCe---EE
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GLK---VV 462 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL~~~-gl~---iv 462 (1066)
.||++|++||... .+..+|.|+||||||+|++.+|.+|+.. .+.+||++||||+||++|.+||.+. +.. -+
T Consensus 2 ~Ln~~Q~~av~~~--~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~~~v 79 (672)
T PRK10919 2 RLNPGQQQAVEFV--TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARGL 79 (672)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccccCc
Confidence 5999999999875 7888999999999999999999999974 3568999999999999999999763 211 01
Q ss_pred Eeccccc---c---------ccCCcchhhh-------HHHHHhhccchhHHHHHHH----HHhhhhhccCChhH------
Q 001501 463 RLCAKSR---E---------AVSSPVEHLT-------LHYQVRHLDTSEKSELHKL----QQLKDEQGELSSSD------ 513 (1066)
Q Consensus 463 Rlg~~sr---e---------~i~~~~~~l~-------l~~~i~~~~~~~~~~L~kl----~~lk~~~~~ls~~~------ 513 (1066)
.++.-.. . .+......+. +...+..+.......+..+ ...+.. .+....
T Consensus 80 ~i~TfHS~~~~iLr~~~~~~g~~~~~~i~d~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~k~~--~~~~~~~~~~~~ 157 (672)
T PRK10919 80 MISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKND--LKTPAQAAAGAK 157 (672)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCeeCCHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHc--CCCHHHHHHHhc
Confidence 1111000 0 0000000000 0000000000000001111 111110 000000
Q ss_pred ---HHHHHHHHHHHH-----HHHHhcccccccccccc-CCccc---cCCCCCEEEEECCCCCChhhhhh-hcc-ccCceE
Q 001501 514 ---EKKYKALKRATE-----REISQSADVICCTCVGA-GDPRL---ANFRFRQVLIDESTQATEPECLI-PLV-LGAKQV 579 (1066)
Q Consensus 514 ---~kr~~~l~~~~~-----~~iL~~a~VI~~T~~~a-~~~~L---~~~~Fd~VIIDEAsQ~tE~e~LI-pL~-~~~krl 579 (1066)
.+.+..+....+ ...++..|++..+.... ..+.+ ...+|++|+|||+||++..+..+ ..+ ....++
T Consensus 158 ~~~~~~~~~~~~~Ye~~l~~~~~lDf~Dll~~~~~ll~~~~~~~~~~~~~~~~ilVDE~QDtn~~Q~~ll~~l~~~~~~l 237 (672)
T PRK10919 158 GERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARF 237 (672)
T ss_pred chhHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCHHHHHHHHhcCCEEEEEchhcCCHHHHHHHHHHHcCCCEE
Confidence 011111111111 12333344443322111 11111 12379999999999999977433 222 235689
Q ss_pred EEeCCccCCCceeecHHHHhhcch---HHHHHHHHHc--CCcceEeeeeeccCCCCCCccccccccC
Q 001501 580 VLVGDHCQLGPVIMCKKAARAGLA---QSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEG 641 (1066)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g 641 (1066)
++|||++| ..|+|. ...|.++... +...+.|++|||+++.|++++|.++-.+
T Consensus 238 ~~VGD~~Q----------sIY~frGA~~~~~~~f~~~~~~~~~~~L~~NyRs~~~I~~~an~li~~n 294 (672)
T PRK10919 238 TVVGDDDQ----------SIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANN 294 (672)
T ss_pred EEEcCCcc----------cccccCCCChHHHHHHHHhCCCCcEEECCCCCCCcHHHHHHHHHHHhhC
Confidence 99999999 444443 3344444332 3456899999999999999999988543
No 16
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.96 E-value=2.7e-29 Score=303.44 Aligned_cols=153 Identities=26% Similarity=0.334 Sum_probs=103.8
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcC---CCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001501 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~---~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~ 467 (1066)
+.+.|+.|+..++.+++++|+|+||||||||+..++..+.+.. ..+|+++|||++||.+|.+++.....++ .
T Consensus 153 ~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~---~-- 227 (615)
T PRK10875 153 EVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQL---P-- 227 (615)
T ss_pred CCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhcc---c--
Confidence 4589999999999999999999999999999999998887642 3479999999999999999886431110 0
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001501 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1066)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1066)
+...++........+++++.........+ ++ ..-
T Consensus 228 -------------~~~~~~~~~~~~a~TiHrlLg~~~~~~~~------~~---------------------------~~~ 261 (615)
T PRK10875 228 -------------LTDEQKKRIPEEASTLHRLLGAQPGSQRL------RY---------------------------HAG 261 (615)
T ss_pred -------------cchhhhhcCCCchHHHHHHhCcCCCccch------hh---------------------------ccc
Confidence 00000111111234555554332211000 00 011
Q ss_pred cCCCCCEEEEECCCCCChhhh--hhhccccCceEEEeCCccCCCceeec
Q 001501 548 ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1066)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s 594 (1066)
....+|+||||||||++.+.+ |+.......|||||||++|||||-..
T Consensus 262 ~~l~~dvlIvDEaSMvd~~lm~~ll~al~~~~rlIlvGD~~QL~sV~~G 310 (615)
T PRK10875 262 NPLHLDVLVVDEASMVDLPMMARLIDALPPHARVIFLGDRDQLASVEAG 310 (615)
T ss_pred cCCCCCeEEEChHhcccHHHHHHHHHhcccCCEEEEecchhhcCCCCCC
Confidence 123689999999999997543 33333456799999999999999654
No 17
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.96 E-value=7.7e-29 Score=303.72 Aligned_cols=367 Identities=19% Similarity=0.213 Sum_probs=200.1
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHHHhc-C---CeE
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-G---LKV 461 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL~~~-g---l~i 461 (1066)
..||++|++||... .+..+|.|+||||||+|+++++.+|+.. .+.+||++||||+||++|.+||... + +.+
T Consensus 195 ~~L~~~Q~~av~~~--~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg~~~v~v 272 (684)
T PRK11054 195 SPLNPSQARAVVNG--EDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGTEDITA 272 (684)
T ss_pred CCCCHHHHHHHhCC--CCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcCCCCcEE
Confidence 47999999999865 5668999999999999999999999975 3458999999999999999999752 2 211
Q ss_pred EEeccccc----------cccC----Ccchhhh-HH-HHHhhccc----------------------hh-----------
Q 001501 462 VRLCAKSR----------EAVS----SPVEHLT-LH-YQVRHLDT----------------------SE----------- 492 (1066)
Q Consensus 462 vRlg~~sr----------e~i~----~~~~~l~-l~-~~i~~~~~----------------------~~----------- 492 (1066)
-.+.+-.. ..+. ....... +. ........ ..
T Consensus 273 ~TFHSlal~Il~~~~~~~p~~s~~~~d~~~~~~~l~~~~~~~~~~~~~~~k~~~~wl~~~~~~~~~~~~~~~~~~~~~~l 352 (684)
T PRK11054 273 RTFHALALHIIQQGSKKVPVISKLENDSKARHALLIAEWRKQCSEKKAQAKGWRQWLTEELQWDVPEGNFWDDEKLQRRL 352 (684)
T ss_pred EeHHHHHHHHHHHhhhcCCCcCccccchHHHHHHHHHHHHHHhhhcccchhhhhhcchHHhhhcccchhhhhhhhHHHHH
Confidence 11111000 0000 0000000 00 00000000 00
Q ss_pred HHHHHHHHHhhhhhccCCh---------h----HHHHHH---HHHHHHHH-----HHHhccccccccccccCCccccCCC
Q 001501 493 KSELHKLQQLKDEQGELSS---------S----DEKKYK---ALKRATER-----EISQSADVICCTCVGAGDPRLANFR 551 (1066)
Q Consensus 493 ~~~L~kl~~lk~~~~~ls~---------~----~~kr~~---~l~~~~~~-----~iL~~a~VI~~T~~~a~~~~L~~~~ 551 (1066)
...+..+..+....+ .+. . ..++++ .+....+. ..++..+++........... ....
T Consensus 353 ~~~l~~~~~~~~~~g-~~~~~~~~~~~~~~~~~~~~~l~~l~~iy~~Ye~~L~~~~~iDf~Dml~~A~~lL~~~~-~~~~ 430 (684)
T PRK11054 353 ASRLERWVSLMRMHG-GSQAEMIAQAPEEVRDLFQKRLKLMAPLLKAWKKALKAENAVDFSGLIHQAVNYLEKGR-FISP 430 (684)
T ss_pred HHHHHHHHHHHHhcC-CCHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhhh-hhhc
Confidence 000111000000000 000 0 000011 11111111 11222233221111111011 1125
Q ss_pred CCEEEEECCCCCChhhhhh--hccc--cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc-C-CcceEeeeeec
Q 001501 552 FRQVLIDESTQATEPECLI--PLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-G-LKPIRLQVQYR 625 (1066)
Q Consensus 552 Fd~VIIDEAsQ~tE~e~LI--pL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g-~~~i~L~~qYR 625 (1066)
|++|+|||+|+++..+.-+ .+.. ...++++|||+.|...-. .|-...++..+... + ...+.|+++||
T Consensus 431 ~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY~f-------rGa~~~~~~~f~~~f~~~~~~~L~~nYR 503 (684)
T PRK11054 431 WKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAIYRF-------SGADLSLTTAFHERFGEGDRCHLDTTYR 503 (684)
T ss_pred ccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCcccccc-------CCCChHHHHHHHhhcCCCeEEEeCCCCC
Confidence 9999999999999876422 2221 245899999999932211 11123344443322 2 34578999999
Q ss_pred cCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHC
Q 001501 626 MHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS 705 (1066)
Q Consensus 626 m~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~ 705 (1066)
++++|.+++|.++-.+.-+- . ..+. .......|.+..... .+.+.+...+..+..
T Consensus 504 s~~~I~~~An~~i~~n~~~~----~----k~l~-s~~~g~~p~v~~~~~---------------~~~~~il~~l~~~~~- 558 (684)
T PRK11054 504 FNSRIGEVANRFIQQNPHQL----K----KPLN-SLTKGDKKAVTLLPE---------------DQLEALLDKLSGYAK- 558 (684)
T ss_pred CCHHHHHHHHHHHHhCcccc----C----Cccc-ccCCCCCceEEEeCC---------------HHHHHHHHHHHHhhc-
Confidence 99999999998764332110 0 0000 001112333322110 234444555544443
Q ss_pred CCCCCcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEccccCCC----------------
Q 001501 706 GVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEH---------------- 769 (1066)
Q Consensus 706 gv~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~---------------- 769 (1066)
+.++|+||++|+.+...+.+.+... + ...+|.+.|+|++||+|+|+|||..+.+...
T Consensus 559 --~~~~I~IL~R~~~~~~~~l~~~~~~--~---~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~~~ 631 (684)
T PRK11054 559 --PDERILLLARYHHLRPALLDKAATR--W---PKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEALL 631 (684)
T ss_pred --CCCcEEEEEechhhHHHHHHHHHhh--c---ccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhccc
Confidence 3579999999998876554444321 1 1237999999999999999999987754320
Q ss_pred ---CCcCCCCCCCceeeechhhccceEEEecc
Q 001501 770 ---QGIGFLNDPRRLNVALTRARYGIVILGNP 798 (1066)
Q Consensus 770 ---~~iGFL~d~RRLNVALTRAK~~LiIVGn~ 798 (1066)
...-..+++|+||||+||||+.|+|+.+.
T Consensus 632 ~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~ 663 (684)
T PRK11054 632 PPPEDFPDAEERRLLYVALTRAKHRVWLLFNK 663 (684)
T ss_pred ccccccccHHHHHHHHHHhhhhhcEEEEEEcC
Confidence 00012246899999999999999999763
No 18
>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=99.96 E-value=1e-29 Score=306.70 Aligned_cols=337 Identities=21% Similarity=0.236 Sum_probs=185.1
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCC----CeEEEEcCcHHHHHHHHHHHHhcCCeEEEecccc
Q 001501 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ----GQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (1066)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~----~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~s 468 (1066)
+.|+.||..++.+++++|+|+||||||||++.++..|.+..+ .+|+++|||++||++|.+.+.....++ ...
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l---~~~- 223 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNL---AAA- 223 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhccc---ccc-
Confidence 799999999999999999999999999999999988876532 479999999999999999986532111 000
Q ss_pred ccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCcccc
Q 001501 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (1066)
Q Consensus 469 re~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~ 548 (1066)
..+.........+++++......... +. ...-.
T Consensus 224 --------------~~~~~~~~~~a~TiHrlLg~~~~~~~--------~~-------------------------~~~~~ 256 (586)
T TIGR01447 224 --------------EALIAALPSEAVTIHRLLGIKPDTKR--------FR-------------------------HHERN 256 (586)
T ss_pred --------------hhhhhccccccchhhhhhcccCCcch--------hh-------------------------hcccC
Confidence 00000001113344444432211000 00 00011
Q ss_pred CCCCCEEEEECCCCCChhhh--hhhccccCceEEEeCCccCCCceeecHHHHh------hcchHHHHHHHH-----H---
Q 001501 549 NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAAR------AGLAQSLFERLV-----L--- 612 (1066)
Q Consensus 549 ~~~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s~~a~~------~gl~~SLFeRL~-----~--- 612 (1066)
...+|+||||||||++.+.+ ++.......|+|||||++|||||-....... .++.......+. .
T Consensus 257 ~l~~dvlIiDEaSMvd~~l~~~ll~al~~~~rlIlvGD~~QLpsV~~G~vl~dl~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (586)
T TIGR01447 257 PLPLDVLVVDEASMVDLPLMAKLLKALPPNTKLILLGDKNQLPSVEAGAVLGDLCELASIGYLFQSAQAYALCKKINSKT 336 (586)
T ss_pred CCcccEEEEcccccCCHHHHHHHHHhcCCCCEEEEECChhhCCCCCCChhHHHHHHhhccccchhhhhhhcccccccccc
Confidence 23689999999999998643 3333345679999999999999964321110 000000000000 0
Q ss_pred -cCCc--ceEeeeeeccCC--CCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeec-------
Q 001501 613 -LGLK--PIRLQVQYRMHP--SLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEIS------- 680 (1066)
Q Consensus 613 -~g~~--~i~L~~qYRm~p--~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~------- 680 (1066)
...+ .++|+++||... .|..++..+. .|.......... ..... ...|+. ..++..
T Consensus 337 ~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I~-~g~~~~~~~~~~-~~~~~---------~~~~~~--~~~~~~~~i~~~~ 403 (586)
T TIGR01447 337 RNPLSDNVCFLKTSHRFGKDSGIGQLAKAIN-SGDIEAVLNNLR-SGQLI---------EFEFLN--SKEDAIERLKNLF 403 (586)
T ss_pred cCCCCCcEEEeceeecCCCCccHHHHHHHHH-cCChhHHHHHhc-cCCCC---------ceEecC--CHHHHHHHHHHHH
Confidence 0022 679999999965 5777765442 332211000000 00000 000100 000000
Q ss_pred --------------------------ccCC-CcCCHHHHHHHHHHHHHHHH-------------------------CCCC
Q 001501 681 --------------------------ASGT-SYLNRTEAANVEKIVTTFLR-------------------------SGVV 708 (1066)
Q Consensus 681 --------------------------~~~~-S~~N~~EA~~V~~iV~~Ll~-------------------------~gv~ 708 (1066)
.... -+.-..-++.+-+.++.++. .|+.
T Consensus 404 ~~~~~~~~~~~~~~~~~~~l~~~~~~qvL~~~r~G~~Gv~~LN~~lq~~l~~~~~~~~~~~~~~Gd~Vm~t~Nd~~~gl~ 483 (586)
T TIGR01447 404 VKYRTFLQKLAALSDIKEILETFDRLRLLTALRDGPFGVLGLNRRIEQELQEKYFDPDEEGWYIGRPIMVTENDYTLGLF 483 (586)
T ss_pred HHHHHHHHhhhcccchhhhhcccccEEEECeeeCCcHhHHHHHHHHHHHhCcccCCCCCceeecCCeEEEeecCcccCcC
Confidence 0000 00000112222233322221 2456
Q ss_pred CCcEEEEecchhHHHHHHHHHHh-cc--chhhhc---cCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCCCCcee
Q 001501 709 PSQIGVITPYEGQRAYIVNYMSR-NG--ALRQQL---YKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLN 782 (1066)
Q Consensus 709 ~~dIgIITPY~aQv~~L~~~L~~-~~--~~~~~~---~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLN 782 (1066)
++|||+|.+.... +.-.+.. .+ .+.... .+-....|||++||+|||.||+.+..... -+.+++++|
T Consensus 484 NGdiG~i~~~~~~---~~v~f~~~~g~~~~~~~~l~~~~~ayA~TvHKSQGsef~~Vi~~l~~~~~-----~~l~r~llY 555 (586)
T TIGR01447 484 NGDIGVLLRDPDG---LTVWFHFADGSKAVLPSRLPNYETAFAMTVHKSQGSEFDHVILILPNGNS-----PVLTRELLY 555 (586)
T ss_pred CCCeEEEEEeCCc---EEEEEEcCCCeEEechHHcCccceEEEEEeeHhcCCcCCeEEEECCCCCC-----cccccceeE
Confidence 7788888753221 1100100 00 111111 22344789999999999999998875432 256789999
Q ss_pred eechhhccceEEEeccccc
Q 001501 783 VALTRARYGIVILGNPKVL 801 (1066)
Q Consensus 783 VALTRAK~~LiIVGn~~~L 801 (1066)
|||||||+.|+|+|+.+.+
T Consensus 556 TaiTRAk~~l~i~~~~~~l 574 (586)
T TIGR01447 556 TGITRAKDQLSVWSDKETL 574 (586)
T ss_pred EEeeehhCeEEEEECHHHH
Confidence 9999999999999987754
No 19
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.95 E-value=4.9e-28 Score=288.23 Aligned_cols=417 Identities=30% Similarity=0.401 Sum_probs=290.4
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcCCe---EEEec
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK---VVRLC 465 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~gl~---ivRlg 465 (1066)
..|+.|.+||.+-...+++.+.||||||||.+++.++..+..+ +..+.|+++.||.|...+-+++.+..++ +.|++
T Consensus 738 ~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~d~d~rhLlrlg 817 (1320)
T KOG1806|consen 738 KFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMALDVDERHLLRLG 817 (1320)
T ss_pred ccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhcccchhhHHHhc
Confidence 4689999999999999999999999999999999999888876 5568999999999999999999875432 33443
Q ss_pred ccccccc-CC-----------cchhhhHHHHHhhccchh------------------H-------HHHHHHHH-------
Q 001501 466 AKSREAV-SS-----------PVEHLTLHYQVRHLDTSE------------------K-------SELHKLQQ------- 501 (1066)
Q Consensus 466 ~~sre~i-~~-----------~~~~l~l~~~i~~~~~~~------------------~-------~~L~kl~~------- 501 (1066)
+...+.- +. ....+.+.+.++++..+. . .-+.++++
T Consensus 818 ~ge~eletd~dfsrygrvn~~l~~r~~ll~ev~rla~sl~~pgdv~ytcetagyf~~~~V~~~wee~l~~v~~~~~~~~~ 897 (1320)
T KOG1806|consen 818 HGEEELETDKDFSRYGRVNYVLSRRLELLREVERLAKSLQAPGDVDYTCETAGYFFLAYVKRRWEEYLAKVDKGCDKDSV 897 (1320)
T ss_pred ccHHhhhcccchhheeeEeeeeccchHHHHHHHHhhhhhcCccccccccchhhhhhhhHHHhhhHHHHHHhccCCCchhh
Confidence 2111100 00 001111112222111000 0 00111110
Q ss_pred ------------hhhhhccC----Ch-----hHHHHHHHHHHH---HH----------------HHHHhccccccccccc
Q 001501 502 ------------LKDEQGEL----SS-----SDEKKYKALKRA---TE----------------REISQSADVICCTCVG 541 (1066)
Q Consensus 502 ------------lk~~~~~l----s~-----~~~kr~~~l~~~---~~----------------~~iL~~a~VI~~T~~~ 541 (1066)
+.+..... +. ..+..|+.+... ++ ..+.+.+.+|.+||..
T Consensus 898 ~~~~~~fpf~~~f~d~p~~vfeg~n~~~d~~~a~~cf~hl~~ifqqLee~rafellr~~~dr~~Yll~kqakiiamtcth 977 (1320)
T KOG1806|consen 898 DIVSNRFPFHSYFGDKPKPPFEGYNKENDMDYATGCFRHLEYIFQQLEEFRAFELLRSGEDRELYLLVKQAKIIAMTCTH 977 (1320)
T ss_pred hhHhhhCcchhhhhcCCCccccccchhhhhhhhhhhHHHHHHHHHHHHhcccccccccchhHhhccCcccceeeecccCC
Confidence 00000000 00 001122222111 10 1134678999999998
Q ss_pred cCCcc----ccCCCCCEEEEECCCCCChhhhhhhcccc--------CceEEEeCCccCCCceeecHH-HHhhcchHHHHH
Q 001501 542 AGDPR----LANFRFRQVLIDESTQATEPECLIPLVLG--------AKQVVLVGDHCQLGPVIMCKK-AARAGLAQSLFE 608 (1066)
Q Consensus 542 a~~~~----L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~--------~krlILVGD~~QLpPvv~s~~-a~~~gl~~SLFe 608 (1066)
++..+ -..++||-+++.|++|+.|.+..+|+++. -+++|++|||.|+||++.... .......+|+|.
T Consensus 978 aalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf~ 1057 (1320)
T KOG1806|consen 978 AALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLFT 1057 (1320)
T ss_pred hhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhhh
Confidence 87644 23468999999999999999999998753 368999999999999996543 334456789999
Q ss_pred HHHHcCCcceEeeeeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEe---cCceeecccCCC
Q 001501 609 RLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQ---MGQEEISASGTS 685 (1066)
Q Consensus 609 RL~~~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~---~g~ee~~~~~~S 685 (1066)
|+...+.+.+.|+.|+|..+.|+++.+..+-.-..-.++....+... .......+..|+++ .|..|...+..-
T Consensus 1058 r~vRl~ip~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f~~----aNagf~~~~qlinv~Df~g~gEt~p~p~f 1133 (1320)
T KOG1806|consen 1058 RLVRLGVPIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPRFQY----ANAGFAYEFQFINVPDFKGSGETEPSPGF 1133 (1320)
T ss_pred cceecccceecchhhhhHHHHHHHHHHhhhcccccCcCCccchhhhc----cccCceeeEEEecchhhccccccCCCccc
Confidence 99999999999999999999999997765432122122221111100 00011134455543 466666666778
Q ss_pred cCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEccc
Q 001501 686 YLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVR 765 (1066)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~VR 765 (1066)
+.|..||+.++....++...|++.+.|-|+|.|++|+..|++.+.+...-..-....-.|.|||.+||...|+||+|+|+
T Consensus 1134 yQnlgeaey~vAly~YMr~Lgypa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qgqqndfiIlslv~ 1213 (1320)
T KOG1806|consen 1134 YQNLGEAEYAVALFQYMRLLGYPANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQGQQNDFIILSLVR 1213 (1320)
T ss_pred ccCCchhhhHHHHHHHHHHhCCchhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccccccceEEeeehh
Confidence 89999999999999999999999999999999999999999999876543333334567999999999999999999999
Q ss_pred cCCCCCcCCCCCCCceeeechhhccceEEEeccccccC----ChhHHHHHHH
Q 001501 766 SNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK----QPLWNGLLTH 813 (1066)
Q Consensus 766 Sn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~----~~~W~~ll~~ 813 (1066)
+.. +|.+.|.||++||++||+.+|+|++....+.+ .+.|+.|.++
T Consensus 1214 tr~---~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~ 1262 (1320)
T KOG1806|consen 1214 TRE---VGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKR 1262 (1320)
T ss_pred hhh---hhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhC
Confidence 864 68899999999999999999999999887665 5677776544
No 20
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.94 E-value=1.2e-27 Score=296.12 Aligned_cols=296 Identities=17% Similarity=0.126 Sum_probs=154.4
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHHHhc-CC---eEE
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GL---KVV 462 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL~~~-gl---~iv 462 (1066)
.||+.|++||... .+..+|.|+||||||+|++.+|.+|++. .+.+||++||||+|+.+|.+||.+. +. .-+
T Consensus 1 ~Ln~~Q~~av~~~--~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~~~v 78 (664)
T TIGR01074 1 KLNPQQQEAVEYV--TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEARGL 78 (664)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCccccCCe
Confidence 4899999999865 6789999999999999999999999964 4568999999999999999999753 11 111
Q ss_pred Eeccccc-------c-----ccCCcchhh-------hHHHHHhhccchhHHHHHHHHHhhhhh--ccCChhH--------
Q 001501 463 RLCAKSR-------E-----AVSSPVEHL-------TLHYQVRHLDTSEKSELHKLQQLKDEQ--GELSSSD-------- 513 (1066)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~l-------~l~~~i~~~~~~~~~~L~kl~~lk~~~--~~ls~~~-------- 513 (1066)
.++.-.+ + .+......+ .+...+..........+..+..+.... ..++..+
T Consensus 79 ~v~TfHs~a~~il~~~~~~~g~~~~~~il~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~~~ 158 (664)
T TIGR01074 79 TISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEGLIKDDKDLLDKLISTISNWKNDLLTPEQALASARGE 158 (664)
T ss_pred EEEeHHHHHHHHHHHHHHHhCCCCCCEEeCHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHcCCCHHHHHHhccCh
Confidence 1111100 0 000000000 000000000000000011111100000 0011000
Q ss_pred -H----HHHHHHHHHHHH-HHHhccccccccccccC-Ccccc---CCCCCEEEEECCCCCChhhhh--hhccccCceEEE
Q 001501 514 -E----KKYKALKRATER-EISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPECL--IPLVLGAKQVVL 581 (1066)
Q Consensus 514 -~----kr~~~l~~~~~~-~iL~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQ~tE~e~L--IpL~~~~krlIL 581 (1066)
. ..|+........ ..++..|++........ .+.+. ..+|++|+|||+|+++..+.- -.+.....++++
T Consensus 159 ~~~~~~~i~~~Y~~~l~~~~~ldf~Dll~~~~~~L~~~~~i~~~~~~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~~l~~ 238 (664)
T TIGR01074 159 REQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKLLVGDRARFTV 238 (664)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhhChHHHHHHHHhCCEEEEeehccCCHHHHHHHHHHhcCCCeEEE
Confidence 0 011111111111 12333333333222111 11221 237999999999999997743 233233468999
Q ss_pred eCCccCCCceeecHHHHhhcch---HHHHHHHHH-c-CCcceEeeeeeccCCCCCCccccccccCcccccccccccccCC
Q 001501 582 VGDHCQLGPVIMCKKAARAGLA---QSLFERLVL-L-GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSG 656 (1066)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~-~-g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~ 656 (1066)
|||++| ..++|. ...|.++.. . +...+.|.+|||++++|+++++.+|-.+.-.. .. .
T Consensus 239 vGD~~Q----------sIY~frga~~~~~~~~~~~~~~~~~~~L~~NyRs~~~Il~~~n~l~~~~~~~~-----~~---~ 300 (664)
T TIGR01074 239 VGDDDQ----------SIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVF-----EK---K 300 (664)
T ss_pred EcCCcc----------cccCCCCCCHHHHHHHHHhCCCCeEEECCCCCCChHHHHHHHHHHHhcCcccc-----cc---c
Confidence 999999 333433 233333332 1 34567899999999999999998764422110 00 0
Q ss_pred CCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHH-HHHCCCCCCcEEEEecc
Q 001501 657 IDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTT-FLRSGVVPSQIGVITPY 718 (1066)
Q Consensus 657 ~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~-Ll~~gv~~~dIgIITPY 718 (1066)
.....+ .+.++.++... ....|++.|+..|.. .+..|++.+||+||++.
T Consensus 301 ~~~~~~-~g~~v~~~~~~------------~~~~Ea~~ia~~I~~~~~~~~~~~~diAVL~R~ 350 (664)
T TIGR01074 301 LFSELG-YGEKIKVIECN------------NEEHEAERIAGEIIAHKLVNKTQYKDYAILYRG 350 (664)
T ss_pred ccccCC-CCCceEEEeCC------------CHHHHHHHHHHHHHHHHHcCCCCcccEEEEEec
Confidence 000000 11122222211 124688888776653 23347888899998653
No 21
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=99.94 E-value=1.6e-26 Score=285.88 Aligned_cols=300 Identities=22% Similarity=0.265 Sum_probs=184.4
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~ 467 (1066)
..||+.|++||+.++.+++++|+|+||||||+++..++..+...+ ..+|++||||++||+.|.+.+. .+
T Consensus 322 ~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g---~~------- 391 (720)
T TIGR01448 322 KGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTG---LT------- 391 (720)
T ss_pred CCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcC---Cc-------
Confidence 479999999999999999999999999999999998887776654 2589999999999998877531 10
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001501 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1066)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1066)
-.++|..+..... . ... . . .-
T Consensus 392 ----------a~Tih~lL~~~~~---------------~--~~~----~--~--------------------------~~ 412 (720)
T TIGR01448 392 ----------ASTIHRLLGYGPD---------------T--FRH----N--H--------------------------LE 412 (720)
T ss_pred ----------cccHHHHhhccCC---------------c--cch----h--h--------------------------hh
Confidence 1122222211000 0 000 0 0 00
Q ss_pred cCCCCCEEEEECCCCCChhhh--hhhccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC-CcceEeeeee
Q 001501 548 ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIRLQVQY 624 (1066)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g-~~~i~L~~qY 624 (1066)
.....|+||||||+|++...+ |+.......++|||||+.||||+-. ...|..++..+ .+.++|+++|
T Consensus 413 ~~~~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~----------G~v~~dl~~~~~~~~~~L~~i~ 482 (720)
T TIGR01448 413 DPIDCDLLIVDESSMMDTWLALSLLAALPDHARLLLVGDTDQLPSVGP----------GQVLKDLILSQAIPVTRLTKVY 482 (720)
T ss_pred ccccCCEEEEeccccCCHHHHHHHHHhCCCCCEEEEECccccccCCCC----------CchHHHHHhcCCCCEEEeCeee
Confidence 013689999999999997542 3332334579999999999999952 24566666554 6778999999
Q ss_pred ccCC--CCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHH
Q 001501 625 RMHP--SLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF 702 (1066)
Q Consensus 625 Rm~p--~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~L 702 (1066)
|... .|..++..+- .|.+.. .. ++. +. ..+ .++.+ .....+.+++..+
T Consensus 483 RQ~~~s~i~~~a~~i~-~g~~~~---~~-------~~~---------~~---~~~------~~~~~-~~~~~i~~~v~~~ 532 (720)
T TIGR01448 483 RQAAGSPIITLAHGIL-HGEAPA---WG-------DFK---------FL---NLT------RSEPE-GAARHIPLMVEKI 532 (720)
T ss_pred ccCCCcHHHHHHHHHH-cCCCch---hh-------hhh---------cc---ccc------cccch-hhHHHHHHHHHHH
Confidence 9864 4666654432 232210 00 000 00 000 00111 1112233333333
Q ss_pred H----HCCCCCCcEEEEecchh---HHHHHHHHHHhccc-----------------------------------------
Q 001501 703 L----RSGVVPSQIGVITPYEG---QRAYIVNYMSRNGA----------------------------------------- 734 (1066)
Q Consensus 703 l----~~gv~~~dIgIITPY~a---Qv~~L~~~L~~~~~----------------------------------------- 734 (1066)
+ ..++...|+-||||.+. -+..|.+.++....
T Consensus 533 ~~~~~~~~~~~~d~qVL~p~~~g~~Gv~~lN~~lq~~lnp~~~~~~~~~~~~~~~~~GDkVm~~~N~~~~~v~NGdiG~I 612 (720)
T TIGR01448 533 VGMARVGGIPGADIQVLAPMYKGPLGIDALNQHLQALLNPYQKGQGGIEIAEGEYRKGDRVMQTKNDYNNEIFNGDLGMI 612 (720)
T ss_pred HHHHHhcCCChhHeeEeCccccCccCHHHHHHHHHHHhCccCCCCceeecCCceecCCCEEEEeeecchhccccCCeeEE
Confidence 2 23455667777777532 22333333321100
Q ss_pred ------------------------hhhhccCCeE---EeecccCCCccccEEEEEccccCCCCCcCCCCCCCceeeechh
Q 001501 735 ------------------------LRQQLYKEIE---VASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTR 787 (1066)
Q Consensus 735 ------------------------~~~~~~~~V~---V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTR 787 (1066)
+.......++ ..|||++||+|+|.||+.+..+. ..+.+++++||||||
T Consensus 613 ~~i~~~~~~~~~~i~v~f~g~~v~~~~~~~~~l~lAYAiTvHKsQGSe~~~Vii~l~~~~-----~~~l~r~llYTAiTR 687 (720)
T TIGR01448 613 VKIEGAKQGKKDQVVVDFDGNEVELTRAELFNLTLAYATSIHKSQGSEFPTVILPIHTAH-----MRMLYRNLLYTALTR 687 (720)
T ss_pred EeccccccCCCceEEEEECCeEEEEcHHHhhhhhhhheeeehhccCccCCEEEEECCccc-----chhhhhchheeeeee
Confidence 0000000011 34999999999999999887654 236789999999999
Q ss_pred hccceEEEecccccc
Q 001501 788 ARYGIVILGNPKVLS 802 (1066)
Q Consensus 788 AK~~LiIVGn~~~Ls 802 (1066)
||+.|+|+|+.+.+.
T Consensus 688 Ak~~l~lvg~~~a~~ 702 (720)
T TIGR01448 688 AKKRVILVGSAEAFD 702 (720)
T ss_pred eceEEEEEECHHHHH
Confidence 999999999988653
No 22
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.93 E-value=2.9e-25 Score=274.42 Aligned_cols=310 Identities=20% Similarity=0.186 Sum_probs=178.7
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHHHhcCCe-E---E
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGLK-V---V 462 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL~~~gl~-i---v 462 (1066)
.||+.|++||... .+..+|.++||||||+|++.+|++|+.. .+.+||++|+||+||.+|.+|+.+.... . +
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~~~~ 79 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAAEGL 79 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccccCc
Confidence 6999999999987 8899999999999999999999999987 3457999999999999999999875321 0 1
Q ss_pred Eeccc---c-------cccc--CCcc------hhhhHHHHHh----hccch--hHHHHH-HHHHhhhhhc---cCC----
Q 001501 463 RLCAK---S-------REAV--SSPV------EHLTLHYQVR----HLDTS--EKSELH-KLQQLKDEQG---ELS---- 510 (1066)
Q Consensus 463 Rlg~~---s-------re~i--~~~~------~~l~l~~~i~----~~~~~--~~~~L~-kl~~lk~~~~---~ls---- 510 (1066)
.++.- . ...+ .... ....+...+. .++.. ....+. .+...+.... ...
T Consensus 80 ~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (655)
T COG0210 80 TVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASALLL 159 (655)
T ss_pred EEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhhhhh
Confidence 11110 0 0000 0000 0000000000 00000 000000 0111110000 000
Q ss_pred ----hhHHHHHHHHHHHHHH-----HHHhccccccccccccCC-cc-cc--CCCCCEEEEECCCCCChhhhhhh--cccc
Q 001501 511 ----SSDEKKYKALKRATER-----EISQSADVICCTCVGAGD-PR-LA--NFRFRQVLIDESTQATEPECLIP--LVLG 575 (1066)
Q Consensus 511 ----~~~~kr~~~l~~~~~~-----~iL~~a~VI~~T~~~a~~-~~-L~--~~~Fd~VIIDEAsQ~tE~e~LIp--L~~~ 575 (1066)
....+....+.....+ ..++..+.+.-++..... +. +. ..+|++|+|||+|+++..+..+. +...
T Consensus 160 ~~~~~~~~~~~~~~y~~Y~~~~~~~~~~df~dll~~~~~l~~~~~~v~~~~~~rf~~iLvDE~QDtn~~Q~~ll~~la~~ 239 (655)
T COG0210 160 AAIKSEAEKKLAELYEEYQELLRLNNALDFDDLLLLALRLLEENPEVLEALQARFRYILVDEFQDTNPLQYELLKLLAGN 239 (655)
T ss_pred hccccHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHhhCCEEEEeCcCCCCHHHHHHHHHHhCC
Confidence 0001111111111111 123333444333332221 11 11 34899999999999999774332 2223
Q ss_pred CceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc---C--CcceEeeeeeccCCCCCCccccccccCccccccccc
Q 001501 576 AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL---G--LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTIN 650 (1066)
Q Consensus 576 ~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~---g--~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~ 650 (1066)
..++++|||++| ..+++..+-.+.+... - .+.+.|..|||+.+.|+.++|.++-.++-...
T Consensus 240 ~~~l~~VGD~dQ----------sIY~frGA~~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r~~---- 305 (655)
T COG0210 240 AANLFVVGDDDQ----------SIYGFRGADPENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKRQA---- 305 (655)
T ss_pred CCCEEEEcCCcc----------ccceeCCCChHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCccCC----
Confidence 468999999999 4455554443333222 1 46789999999999999999998763222110
Q ss_pred ccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHCC-CCCCcEEEEecchhHHHHHHHHH
Q 001501 651 ERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYM 729 (1066)
Q Consensus 651 ~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~g-v~~~dIgIITPY~aQv~~L~~~L 729 (1066)
+.+ ..+ ..+..+............||..|...+..+...+ ...+||+|+...+.|...+++.+
T Consensus 306 ----k~l-~~~-----------~~~~~~~~~~~~~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s~~~e~~l 369 (655)
T COG0210 306 ----KTL-RTE-----------VEGSGEKVVLLLANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQSRLIEEAL 369 (655)
T ss_pred ----Ccc-eec-----------cCCCCCCceEEeCCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcchHHHHHHH
Confidence 000 000 0111111111223445789999999999999988 89999999999999998888877
Q ss_pred Hh
Q 001501 730 SR 731 (1066)
Q Consensus 730 ~~ 731 (1066)
.+
T Consensus 370 ~~ 371 (655)
T COG0210 370 RA 371 (655)
T ss_pred HH
Confidence 64
No 23
>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=99.90 E-value=6.4e-23 Score=254.89 Aligned_cols=300 Identities=20% Similarity=0.170 Sum_probs=179.1
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001501 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~ 467 (1066)
..||+.|++||..++. .++++|+|+||||||+++..++..+...+ .+|++||||++|+..|.+.. ++..
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~g-~~V~~~ApTg~Aa~~L~~~~---g~~a------ 420 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAG-YRVIGAALSGKAAEGLQAES---GIES------ 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhCC-CeEEEEeCcHHHHHHHHhcc---CCce------
Confidence 3699999999999987 58999999999999999998876665554 48999999999999997642 1111
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001501 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1066)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1066)
.+++..+..+ .. ...
T Consensus 421 -----------~Ti~~~~~~~--------------~~----------------------------------------~~~ 435 (744)
T TIGR02768 421 -----------RTLASLEYAW--------------AN----------------------------------------GRD 435 (744)
T ss_pred -----------eeHHHHHhhh--------------cc----------------------------------------Ccc
Confidence 1111110000 00 000
Q ss_pred cCCCCCEEEEECCCCCChhhh--hhhcc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCcceEeeeee
Q 001501 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1066)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qY 624 (1066)
.....++||||||+|++...+ |+... ....+||||||++|||||... ..|..|.. ..+.+.|+..|
T Consensus 436 ~~~~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG----------~~f~~l~~-~~~~~~Lt~I~ 504 (744)
T TIGR02768 436 LLSDKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAG----------AAFRAIAE-RIGYAELETIR 504 (744)
T ss_pred cCCCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccC----------cHHHHHHH-hhCeEEeeeEE
Confidence 112689999999999987543 33322 245689999999999999643 34555543 35678999999
Q ss_pred ccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHH-HHHHHHHHHHHH
Q 001501 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTE-AANVEKIVTTFL 703 (1066)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~E-A~~V~~iV~~Ll 703 (1066)
|....-..-+...+..|........ +.. ...+.+. .+..+ ...++..+...+
T Consensus 505 RQ~~~~~~~aa~~i~~G~~~~~l~~----~~~--------~~~i~~~---------------~~~~~~~~~i~~~~~~~~ 557 (744)
T TIGR02768 505 RQREAWARQASLELARGDVEKALAA----YRD--------HGHITIH---------------DTREEAIEQVVADWKQDL 557 (744)
T ss_pred ecCCHHHHHHHHHHHcCCHHHHHHH----Hhh--------CCCEeec---------------CCHHHHHHHHHHHHHHhh
Confidence 9865422222333333332210000 000 0000000 01111 111222111111
Q ss_pred HCCCCCCcE-EEEecchhHHHHHHHHHHhc----cchh------------------------------------------
Q 001501 704 RSGVVPSQI-GVITPYEGQRAYIVNYMSRN----GALR------------------------------------------ 736 (1066)
Q Consensus 704 ~~gv~~~dI-gIITPY~aQv~~L~~~L~~~----~~~~------------------------------------------ 736 (1066)
.. ..+.++ .||+|.+..+..|...++.. +.+.
T Consensus 558 ~~-~~~~~~~lIla~tn~~v~~LN~~ir~~L~~~g~l~~~~~~~~~~g~~~~~~GDrV~~~~N~~~~gv~NGd~g~V~~i 636 (744)
T TIGR02768 558 RE-ANPAGSQIMLAHTRKDVRALNEAAREALIERGELGESILFQTARGERKFAAGDRIVFLENNRDLGVKNGMLGTVEEI 636 (744)
T ss_pred hh-cCcccceEEEcCchHhHHHHHHHHHHHHHhcCccCcCceeeccCCCceecCCCEEEEEecccccCCcCCCEEEEEEe
Confidence 11 123344 57777777766665544321 1100
Q ss_pred ------------------hhccCCe---EEeecccCCCccccEEEEEccccCCCCCcCCCCCCCceeeechhhccceEEE
Q 001501 737 ------------------QQLYKEI---EVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVIL 795 (1066)
Q Consensus 737 ------------------~~~~~~V---~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIV 795 (1066)
...+..+ ...|||++||+|+|.||+.. ..+.+++++||||||||+.++|+
T Consensus 637 ~~~~i~v~~~~G~~v~~~~~~~~~l~laYA~TvHKsQGst~~~viv~~---------~~~l~r~llYvAiTRar~~~~l~ 707 (744)
T TIGR02768 637 EDGRLVVQLDSGELVIIPQAEYDALDHGYATTIHKSQGVTVDRAFVLA---------SKSMDRHLAYVAMTRHRESVQLY 707 (744)
T ss_pred cCCeEEEEECCCCEEEECHHHhCccCceEEeccccccCCccCcEEEec---------CCccccchhhhhhhcccceeEEE
Confidence 0000011 14499999999999999972 12468899999999999999999
Q ss_pred eccccccCChhHHHHH
Q 001501 796 GNPKVLSKQPLWNGLL 811 (1066)
Q Consensus 796 Gn~~~Ls~~~~W~~ll 811 (1066)
|+...+....-|..-+
T Consensus 708 ~~~~~~~~~~~l~~~~ 723 (744)
T TIGR02768 708 AGKEDFTDRGALVKTL 723 (744)
T ss_pred EchhhccChHHHHHHh
Confidence 9988886655444433
No 24
>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=3e-23 Score=267.57 Aligned_cols=170 Identities=18% Similarity=0.175 Sum_probs=101.0
Q ss_pred CCCCEEEEECCCCCChhhhhh--hccccCc--eEEEeCCccCCCceeecHHHHhhcchH---HHHHHHHHcCCcceEeee
Q 001501 550 FRFRQVLIDESTQATEPECLI--PLVLGAK--QVVLVGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLLGLKPIRLQV 622 (1066)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~LI--pL~~~~k--rlILVGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~g~~~i~L~~ 622 (1066)
.+|++|+|||+||++..+.-| .+..... .+++|||++| .+|+|.. ..|.++...-...+.|.+
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ----------SIY~FRGAD~~~~~~~~~~~~~~~~L~~ 364 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ----------AIYSFRGADIFTYLQAKSKADARYTLGT 364 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCcc----------ccccCCCCCHHHHHHHHHhcCcEEECCC
Confidence 389999999999999977433 2322222 7999999999 5555543 333333322225689999
Q ss_pred eeccCCCCCCccccccccCccccc--c---cccc-cccCCCCCCCC-CCCCCeEEEEecCceeecccCCCcCCHHHHHHH
Q 001501 623 QYRMHPSLSEFPSNSFYEGTLQNG--V---TINE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANV 695 (1066)
Q Consensus 623 qYRm~p~I~~f~s~~FY~g~L~~~--~---~~~~-r~~~~~~~~~p-~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V 695 (1066)
|||+++.|++++|.+|-...-... . .+.. +.......... ....++.++....... ........+|+.+
T Consensus 365 NyRS~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~~a~~~ 440 (1087)
T TIGR00609 365 NWRSTPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE----GVDDYRQTIAQKC 440 (1087)
T ss_pred CCCCcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc----ccchHHHHHHHHH
Confidence 999999999999999864321100 0 0000 00000000000 1123444443322111 0011123456667
Q ss_pred HHHHHHHHHC---------------CCCCCcEEEEecchhHHHHHHHHHHhcc
Q 001501 696 EKIVTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1066)
Q Consensus 696 ~~iV~~Ll~~---------------gv~~~dIgIITPY~aQv~~L~~~L~~~~ 733 (1066)
...|.+++.. +++++||+||++.+.|...|++.|.+.+
T Consensus 441 a~~I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~~G 493 (1087)
T TIGR00609 441 AREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKKAQ 493 (1087)
T ss_pred HHHHHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHHCC
Confidence 7767666532 4678999999999999999999887654
No 25
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.89 E-value=2e-23 Score=269.67 Aligned_cols=170 Identities=19% Similarity=0.247 Sum_probs=107.9
Q ss_pred CCCCEEEEECCCCCChhhh--hhhcccc----CceEEEeCCccCCCceeecHHHHhhcch---HHHHHHHHH--cCCcce
Q 001501 550 FRFRQVLIDESTQATEPEC--LIPLVLG----AKQVVLVGDHCQLGPVIMCKKAARAGLA---QSLFERLVL--LGLKPI 618 (1066)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~--LIpL~~~----~krlILVGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~--~g~~~i 618 (1066)
.+|++|+|||+||++..+. +-.+... ...+++|||+|| ++|.|. ..+|..... .....+
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ----------SIY~FRgAD~~~f~~a~~~~~~~~~~ 446 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ----------SIYRFRGADIFTFLEAASSEKAFARI 446 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchH----------HhhhhcCCChHHHHHHhhccccCcee
Confidence 4899999999999998774 2233333 248999999999 566664 466666666 456678
Q ss_pred EeeeeeccCCCCCCccccccccCc------ccccccccc--c-ccCCCCCCCCCCCCCeE-EEEecCc--eeecccCCCc
Q 001501 619 RLQVQYRMHPSLSEFPSNSFYEGT------LQNGVTINE--R-QSSGIDFPWPVPNRPMF-FYVQMGQ--EEISASGTSY 686 (1066)
Q Consensus 619 ~L~~qYRm~p~I~~f~s~~FY~g~------L~~~~~~~~--r-~~~~~~~~~p~~~~P~~-f~~~~g~--ee~~~~~~S~ 686 (1066)
.|.+|||+.+.|+++.|.+|-.-. ......... + ........|+ .|.. ++..... .+........
T Consensus 447 ~L~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~e~~~~~~~~~~~~~~ 523 (1139)
T COG1074 447 TLETNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGEP---LPALKFWEEEDDWTAPENEEDERE 523 (1139)
T ss_pred ecccccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCccc---chhhhhhcCcccccCCCCchhHHH
Confidence 999999999999999999996421 111100000 0 0111111111 1221 1211100 0000001133
Q ss_pred CCHHHHHHHHHHHHHHHH--------CCCCCCcEEEEecchhHHHHHHHHHHhc
Q 001501 687 LNRTEAANVEKIVTTFLR--------SGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1066)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~--------~gv~~~dIgIITPY~aQv~~L~~~L~~~ 732 (1066)
....||..|...++.+.. ..+.++||+||++.+.+...|+++|++.
T Consensus 524 ~~~~~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~~ 577 (1139)
T COG1074 524 IADLEARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKKA 577 (1139)
T ss_pred HHHHHHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHhc
Confidence 456677778888888774 4588999999999999999999999876
No 26
>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=99.89 E-value=1.9e-22 Score=262.83 Aligned_cols=65 Identities=22% Similarity=0.285 Sum_probs=55.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcC--CCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~--~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+++++|++||..- +...+|.|+||||||+|+++++..++..+ ..+|||+||||+|+.+|.+||.+
T Consensus 1 ~~t~~Q~~ai~~~--~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~ 67 (1232)
T TIGR02785 1 QWTDEQWQAIYTR--GQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEE 67 (1232)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHH
Confidence 3689999999843 66789999999999999999988877653 34799999999999999999865
No 27
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.88 E-value=1.3e-21 Score=246.53 Aligned_cols=308 Identities=20% Similarity=0.237 Sum_probs=186.8
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001501 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~ 467 (1066)
..||+.|++||..++. +++++|+|+|||||||++..++..+...+ .+|+.+|||++|+..|.+.. |+..
T Consensus 380 ~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G-~~V~g~ApTgkAA~~L~e~~---Gi~a------ 449 (1102)
T PRK13826 380 ARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREAWEAAG-YRVVGGALAGKAAEGLEKEA---GIQS------ 449 (1102)
T ss_pred CCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEEcCcHHHHHHHHHhh---CCCe------
Confidence 3799999999998754 78999999999999999998876655555 49999999999999987642 2211
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001501 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1066)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1066)
.+++..+..+.. +...+
T Consensus 450 -----------~TIas~ll~~~~----------------------------------------------------~~~~l 466 (1102)
T PRK13826 450 -----------RTLSSWELRWNQ----------------------------------------------------GRDQL 466 (1102)
T ss_pred -----------eeHHHHHhhhcc----------------------------------------------------CccCC
Confidence 111111000000 00001
Q ss_pred cCCCCCEEEEECCCCCChhhh--hhhcc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCcceEeeeee
Q 001501 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1066)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qY 624 (1066)
..-++||||||+|+...++ |+-.. ....+||||||+.||+||-. ...|..|.. ......|++.|
T Consensus 467 --~~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~a----------G~~f~~l~~-~i~~a~LteI~ 533 (1102)
T PRK13826 467 --DNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEA----------GAAFRAIAD-RIGYAELETIY 533 (1102)
T ss_pred --CCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCC----------CcHHHHHHh-hcCEEEeeeee
Confidence 1357999999999988654 33322 24579999999999999963 245555554 45678999999
Q ss_pred ccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHH
Q 001501 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (1066)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~ 704 (1066)
|...+-..-++..+..|........-.. ...+.+. ....+.+..++.....
T Consensus 534 RQ~~~~~r~Aa~~i~~G~~~~aL~~~~~------------~g~v~~~-----------------~~~~e~~~~lv~~~~~ 584 (1102)
T PRK13826 534 RQREQWMRDASLDLARGNVGKALDAYRA------------NGRVIGS-----------------RLKAEAVESLIADWNR 584 (1102)
T ss_pred ecCChHHHHHHHHHHcCCchhhhhHhhc------------CCeEecc-----------------ccHHHHHHHHHHHHhh
Confidence 9866522223344444443211000000 0000000 0011223333333333
Q ss_pred CCCCCCcEEEEecchhHHHHHHHHHHhc----cch---------------------------------------------
Q 001501 705 SGVVPSQIGVITPYEGQRAYIVNYMSRN----GAL--------------------------------------------- 735 (1066)
Q Consensus 705 ~gv~~~dIgIITPY~aQv~~L~~~L~~~----~~~--------------------------------------------- 735 (1066)
..-+..++-||+|.+.-+..|...++.. +.+
T Consensus 585 ~~~~~~~~lILa~tn~~v~~LN~~iR~~L~~~G~L~~~~~~~~~~G~r~f~vGDrV~f~rNd~~lgV~NGd~GtV~~i~~ 664 (1102)
T PRK13826 585 DYDPTKTTLILAHLRRDVRMLNEMARAKLVERGIVGEGHAFRTADGERRFAAGDQIVFLKNEGSLGVKNGMIGKVVEAAP 664 (1102)
T ss_pred ccCcccceEEECCchHHHHHHHHHHHHHhhhccCCCcCceeeeccCCccccCCCEEEEeeecCccCccCCCeEEEEEecC
Confidence 2122335666666666665555443321 100
Q ss_pred ------------------hhhccCCeE---EeecccCCCccccEEEEEccccCCCCCcCCCCCCCceeeechhhccceEE
Q 001501 736 ------------------RQQLYKEIE---VASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVI 794 (1066)
Q Consensus 736 ------------------~~~~~~~V~---V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiI 794 (1066)
....+..+. ..|||++||.|+|.|++... .+.+++.+||||||||+.+.|
T Consensus 665 ~~i~v~~d~g~~~r~V~~~~~~~~~ldhaYA~TVHKSQGsT~d~V~vl~s---------~~ldR~llYVA~TRaR~~~~l 735 (1102)
T PRK13826 665 NRIVAEIGEGEHRRQVTVEQRFYNNLDHGYATTIHKSQGATVDRVKVLAS---------LSLDRHLTYVAMTRHREDLQL 735 (1102)
T ss_pred CeEEEEEcCCCCceEEEechhhccchhheeeeeeecccccccceEEEecc---------cccccchhHHhhccccceEEE
Confidence 000001111 23999999999999988632 246788999999999999999
Q ss_pred Eeccc----------cccC------------ChhHHHHHHHHHhcCee
Q 001501 795 LGNPK----------VLSK------------QPLWNGLLTHYKEHECL 820 (1066)
Q Consensus 795 VGn~~----------~Ls~------------~~~W~~ll~~~~~~~~l 820 (1066)
+.+.. .|++ ...|+..++|.+.+|.-
T Consensus 736 y~~~~~~~~~~~L~~~lsr~~~K~ttld~~~~~~~~~~~~~a~~rg~~ 783 (1102)
T PRK13826 736 YYGRRSFAFNGGLIPVLSRRNAKETTLDYERGKLYRQALRFAENRGLH 783 (1102)
T ss_pred EEchhhhhhhHHHHHHHhcccccchhhhhhhhhhhhHHHHHHHHcCCh
Confidence 99876 3333 23566778888888764
No 28
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.87 E-value=1.3e-21 Score=248.88 Aligned_cols=153 Identities=17% Similarity=0.216 Sum_probs=103.8
Q ss_pred CCCCEEEEECCCCCChhhh--hhhccc----c-----CceEEEeCCccCCCceeecHHHHhhcch---HHHHHHHHHc-C
Q 001501 550 FRFRQVLIDESTQATEPEC--LIPLVL----G-----AKQVVLVGDHCQLGPVIMCKKAARAGLA---QSLFERLVLL-G 614 (1066)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~--LIpL~~----~-----~krlILVGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~~-g 614 (1066)
.+|++|+|||+||++..+. +.+|.. + .+.+++|||++| .+|+|. ..+|.++... +
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ----------SIY~FRGA~~~~f~~~~~~~~ 396 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ----------SIYRFRGGKKELFDKVSKDFK 396 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh----------hhhhhcCCChHHHHHHHHHhh
Confidence 4799999999999999774 334421 1 357999999999 555554 3577776543 2
Q ss_pred CcceEeeeeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHH
Q 001501 615 LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAAN 694 (1066)
Q Consensus 615 ~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~ 694 (1066)
...+.|.+||||++.|+++.|.+|-...-. . .... . ........+.++.. . .....+++.
T Consensus 397 ~~~~~L~~NyRS~~~Iv~~~N~~f~~~~~~-~-~~~~------~-~~~~~~g~v~i~~~-~----------~~~~~~a~~ 456 (910)
T PRK13909 397 QKVDNLDTNYRSAPLIVDFVNEVFKKKYKN-Y-KTQY------A-EQHKSGGYVEVVEV-A----------DESEELLEQ 456 (910)
T ss_pred hhhcccccCCCCChHHHHHHHHHHHHHHHh-h-hhhh------c-ccccCCCcEEEEEC-C----------CccHHHHHH
Confidence 245789999999999999999998542100 0 0000 0 00001112222211 0 112346788
Q ss_pred HHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHHHhc
Q 001501 695 VEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1066)
Q Consensus 695 V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L~~~ 732 (1066)
|++.|..+++.|+.++||+||++.+.|...+.+.|.+.
T Consensus 457 ia~~I~~l~~~g~~~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 457 LLQEIQFLLEKGIDPDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHHHHHHcCCCcCCEEEEEecCccHHHHHHHHHhc
Confidence 99999999999999999999999999999998888776
No 29
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.87 E-value=2e-21 Score=244.01 Aligned_cols=169 Identities=21% Similarity=0.215 Sum_probs=111.9
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001501 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~ 467 (1066)
..||+.|++||..++. .++++|+|+|||||||++..++..+...+ .+|++||||++||..|.+. .++.
T Consensus 345 ~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e~~G-~~V~~~ApTGkAA~~L~e~---tGi~------- 413 (988)
T PRK13889 345 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAAG-YEVRGAALSGIAAENLEGG---SGIA------- 413 (988)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEecCcHHHHHHHhhc---cCcc-------
Confidence 3699999999999987 67999999999999999876655444444 5899999999999988752 1110
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001501 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1066)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1066)
..+++++..- +. . + ..
T Consensus 414 -------------------------a~TI~sll~~--------------~~-----------~------------~--~~ 429 (988)
T PRK13889 414 -------------------------SRTIASLEHG--------------WG-----------Q------------G--RD 429 (988)
T ss_pred -------------------------hhhHHHHHhh--------------hc-----------c------------c--cc
Confidence 0112221100 00 0 0 00
Q ss_pred cCCCCCEEEEECCCCCChhhh--hhhcc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCcceEeeeee
Q 001501 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1066)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qY 624 (1066)
.....++||||||+|+....+ |+... ....+||||||++||+||-. ...|..|.. ....+.|++.+
T Consensus 430 ~l~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~a----------G~~f~~L~~-~~~~a~LteI~ 498 (988)
T PRK13889 430 LLTSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEA----------GAAFRSIHE-RHGGAEIGEVR 498 (988)
T ss_pred ccccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCC----------CchHHHHHH-hcCeEEeceee
Confidence 012578999999999997553 22222 34579999999999999952 245555543 24568999999
Q ss_pred ccCCCCCCccccccccCcc
Q 001501 625 RMHPSLSEFPSNSFYEGTL 643 (1066)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L 643 (1066)
|.......-....+..|+.
T Consensus 499 RQ~~~~~r~aa~~i~~G~~ 517 (988)
T PRK13889 499 RQREDWQRDATRDLATGRT 517 (988)
T ss_pred cCCCHHHHHHHHHHHcCCc
Confidence 9875543334444445443
No 30
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.86 E-value=2.5e-21 Score=250.43 Aligned_cols=169 Identities=16% Similarity=0.197 Sum_probs=101.1
Q ss_pred CCCCEEEEECCCCCChhhhh--hhccc--cCceEEEeCCccCCCceeecHHHHhhcchHHH---HHHHHHcCCcceEeee
Q 001501 550 FRFRQVLIDESTQATEPECL--IPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSL---FERLVLLGLKPIRLQV 622 (1066)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~L--IpL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SL---FeRL~~~g~~~i~L~~ 622 (1066)
.+|++|+|||+||++..+.- ..+.. ....+++|||++| .+|+|...- |-.........+.|.+
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ----------sIY~FRGAd~~~~l~~~~~~~~~~~L~~ 445 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQ----------AIYAFRGADIFTYMKARSEVSAHYTLDT 445 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc----------ccccCCCCCchHHHHHHhccCCeeECCC
Confidence 38999999999999997743 33322 1347999999999 444554322 1111111234578999
Q ss_pred eeccCCCCCCccccccccCccc---cccc---ccc-cccCCCCCCC-CCCCCCeEEEEecCceeecccCCCcCCHHHHHH
Q 001501 623 QYRMHPSLSEFPSNSFYEGTLQ---NGVT---INE-RQSSGIDFPW-PVPNRPMFFYVQMGQEEISASGTSYLNRTEAAN 694 (1066)
Q Consensus 623 qYRm~p~I~~f~s~~FY~g~L~---~~~~---~~~-r~~~~~~~~~-p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~ 694 (1066)
|||+++.|++++|.+|....-. .... +.. .......+.. .....++.++...+... ........||+.
T Consensus 446 NyRS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~eA~~ 521 (1181)
T PRK10876 446 NWRSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLMEGEGV----GVGDYQQTMAQQ 521 (1181)
T ss_pred CcCcCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeecCCCcc----CcchHHHHHHHH
Confidence 9999999999999998653210 0000 000 0000000000 01112334443332211 112234568888
Q ss_pred HHHHHHHHHHC---------------CCCCCcEEEEecchhHHHHHHHHHHhc
Q 001501 695 VEKIVTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1066)
Q Consensus 695 V~~iV~~Ll~~---------------gv~~~dIgIITPY~aQv~~L~~~L~~~ 732 (1066)
|+..|.+++.. ++.++||+||++.+.|...|++.|.+.
T Consensus 522 iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~~ 574 (1181)
T PRK10876 522 CAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTLL 574 (1181)
T ss_pred HHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHhC
Confidence 98888888753 367889999999999999888877654
No 31
>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=99.84 E-value=5.7e-20 Score=239.51 Aligned_cols=168 Identities=14% Similarity=0.184 Sum_probs=97.6
Q ss_pred CCCCEEEEECCCCCChhhh--hhhcccc-----------CceEEEeCCccCCCceeecHHHHhhcch---HHHHHHHHHc
Q 001501 550 FRFRQVLIDESTQATEPEC--LIPLVLG-----------AKQVVLVGDHCQLGPVIMCKKAARAGLA---QSLFERLVLL 613 (1066)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~--LIpL~~~-----------~krlILVGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~~ 613 (1066)
.+|++|+|||+||++..+. +.+|... .+.+++|||++| .+|+|. ..+|.++...
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ----------SIY~FRGAd~~~f~~~~~~ 459 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ----------SIYSFQGADPDRFAEERRE 459 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc----------cCccccCCCHHHHHHHHHH
Confidence 4899999999999999774 3344321 368999999999 445553 3455543221
Q ss_pred ----------CCcceEeeeeeccCCCCCCccccccccCccccccccc--ccccCCCCCCCCCCCCCeEEEEecCce--ee
Q 001501 614 ----------GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTIN--ERQSSGIDFPWPVPNRPMFFYVQMGQE--EI 679 (1066)
Q Consensus 614 ----------g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~--~r~~~~~~~~~p~~~~P~~f~~~~g~e--e~ 679 (1066)
....+.|++|||+++.|+++.|.+|.......+.... ........ ......+.++.....+ +.
T Consensus 460 ~~~~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~~~~~~~~~~~~---~~~~g~v~l~~~~~~~~~~~ 536 (1141)
T TIGR02784 460 FNRKVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDLVVHEAIR---SDLPGEVELWDLISPEEGED 536 (1141)
T ss_pred HHHhhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCCcchhhcccccc---cCCCCceEEEeccCcccccc
Confidence 1245789999999999999999999653221111000 00000000 0000122222111100 00
Q ss_pred cc--------cCCCcCCHHHHHHHHHHHHHHHHCC----------CCCCcEEEEecchhH-HHHHHHHHH
Q 001501 680 SA--------SGTSYLNRTEAANVEKIVTTFLRSG----------VVPSQIGVITPYEGQ-RAYIVNYMS 730 (1066)
Q Consensus 680 ~~--------~~~S~~N~~EA~~V~~iV~~Ll~~g----------v~~~dIgIITPY~aQ-v~~L~~~L~ 730 (1066)
.. .........||+.|.+.|..++..| +.++||+||++.+.+ ...|.+.|.
T Consensus 537 ~~~~~~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~~~~~i~~aL~ 606 (1141)
T TIGR02784 537 PEDWTAPVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDAFVSALIRALK 606 (1141)
T ss_pred ccccccccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCchhHHHHHHHHH
Confidence 00 0001112258999999999998776 578999999988776 455655554
No 32
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.78 E-value=3.7e-19 Score=188.32 Aligned_cols=173 Identities=28% Similarity=0.342 Sum_probs=109.7
Q ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001501 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~ 467 (1066)
.||++|++||..++.+ ++++|+||||||||+++..++..+...+ .+|+++||||+|+++|.+++. ++.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT~~Aa~~L~~~~~---~~a------ 70 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPTNKAAKELREKTG---IEA------ 70 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHHT---S-E------
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCcHHHHHHHHHhhC---cch------
Confidence 4899999999999864 5999999999999999998887777765 599999999999999999742 211
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001501 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1066)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1066)
.+++..+..... .. . ....
T Consensus 71 -----------~Ti~~~l~~~~~---------------~~-~----------------------------------~~~~ 89 (196)
T PF13604_consen 71 -----------QTIHSFLYRIPN---------------GD-D----------------------------------EGRP 89 (196)
T ss_dssp -----------EEHHHHTTEECC---------------EE-C----------------------------------CSSC
T ss_pred -----------hhHHHHHhcCCc---------------cc-c----------------------------------cccc
Confidence 122222111111 00 0 0000
Q ss_pred cCCCCCEEEEECCCCCChhhhh--hhccc-cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCcceEeeeee
Q 001501 548 ANFRFRQVLIDESTQATEPECL--IPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1066)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~L--IpL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qY 624 (1066)
.....++||||||+|++...+. +.+.. ...++|+|||++||+|+. ..+.|..+.......+.|++.+
T Consensus 90 ~~~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~----------~g~~~~~l~~~~~~~~~L~~i~ 159 (196)
T PF13604_consen 90 ELPKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVG----------AGSPFADLQESGGITVELTEIR 159 (196)
T ss_dssp C-TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCS----------TTCHHHHHCGCSTTEEEE---S
T ss_pred cCCcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCc----------CCcHHHHHHhcCCCeEEeChhh
Confidence 0235789999999999976643 22222 256899999999999995 3456776766665589999999
Q ss_pred ccCCCCCCccccccccCcc
Q 001501 625 RMHPSLSEFPSNSFYEGTL 643 (1066)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L 643 (1066)
|....-..-+...+.+|..
T Consensus 160 Rq~~~~~~~~~~~~~~g~~ 178 (196)
T PF13604_consen 160 RQKDPELREAAKAIREGDA 178 (196)
T ss_dssp CCCCTHHHHHHHHHCTT--
T ss_pred cCCChHHHHHHHHHHcCCC
Confidence 9974433344455555543
No 33
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.77 E-value=6.2e-18 Score=221.28 Aligned_cols=172 Identities=21% Similarity=0.282 Sum_probs=116.9
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHhHHHHHHHHHHHH---cCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001501 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAK---QGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKTtTla~iI~~Llk---~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivR 463 (1066)
..||+.|++||..++. .++++|+|+|||||||++..++..+.. ....+|+.||||++||.+|.+ .|++.
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e----~Gi~A-- 1039 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS----AGVDA-- 1039 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh----cCcch--
Confidence 3699999999999997 469999999999999999888766543 234579999999999998865 23211
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccC
Q 001501 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1066)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (1066)
.+++..+..... . ..
T Consensus 1040 ---------------~TI~s~L~~~~~------------~--------------------------------------~~ 1054 (1747)
T PRK13709 1040 ---------------QTLASFLHDTQL------------Q--------------------------------------QR 1054 (1747)
T ss_pred ---------------hhHHHHhccccc------------c--------------------------------------cc
Confidence 222222111000 0 00
Q ss_pred CccccCCCCCEEEEECCCCCChhhh--hhhccc-cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc-CCcceE
Q 001501 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (1066)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~tE~e~--LIpL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~~i~ 619 (1066)
.........++||||||+|+....+ |+-+.. ...++|||||.+||+||- ....|..|+.. +.+...
T Consensus 1055 ~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~----------aG~~f~~l~~~~~i~~~~ 1124 (1747)
T PRK13709 1055 SGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIA----------PGQPFRLMQTRSAADVAI 1124 (1747)
T ss_pred cccCCCCCCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCC----------CChHHHHHHHhCCCCeEE
Confidence 0001112468999999999987553 333322 346999999999999995 34778888874 577889
Q ss_pred eeeeeccCCCCCCccccccccCc
Q 001501 620 LQVQYRMHPSLSEFPSNSFYEGT 642 (1066)
Q Consensus 620 L~~qYRm~p~I~~f~s~~FY~g~ 642 (1066)
|++.+|-.+.+.+ +...+.+|.
T Consensus 1125 L~eI~RQ~~~lr~-Av~~~~~g~ 1146 (1747)
T PRK13709 1125 MKEIVRQTPELRE-AVYSLINRD 1146 (1747)
T ss_pred eCeEEcCcHHHHH-HHHHHHccC
Confidence 9999999873332 333444443
No 34
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.77 E-value=7.7e-18 Score=217.66 Aligned_cols=167 Identities=22% Similarity=0.296 Sum_probs=116.7
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHhHHHHHHHHHHH---HcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001501 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA---KQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKTtTla~iI~~Ll---k~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivR 463 (1066)
..||+.|++||..++. +++++|+|+|||||||++..++..+. +....+|+.+|||++||..|.+. |++
T Consensus 834 ~~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e~----Gi~--- 906 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSA----GVD--- 906 (1623)
T ss_pred cccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHHh----Cch---
Confidence 3799999999999996 48999999999999999877765443 33445899999999999999652 221
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccC
Q 001501 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1066)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (1066)
-.+++..+..... +. ...
T Consensus 907 --------------A~TIasfL~~~~~--------------------------~~----------------------~~~ 924 (1623)
T PRK14712 907 --------------AQTLASFLHDTQL--------------------------QQ----------------------RSG 924 (1623)
T ss_pred --------------HhhHHHHhccccc--------------------------hh----------------------hcc
Confidence 1222222111000 00 000
Q ss_pred CccccCCCCCEEEEECCCCCChhhh--hhhccc-cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc-CCcceE
Q 001501 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (1066)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~tE~e~--LIpL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~~i~ 619 (1066)
.......++||||||+|+...++ ++.+.. ...++|||||++||+||- ..+.|+.++.. +.+...
T Consensus 925 --~~~~~~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~----------aG~~F~~lq~~~~~~ta~ 992 (1623)
T PRK14712 925 --ETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIA----------PGQPFRLQQTRSAADVVI 992 (1623)
T ss_pred --cCCCCCCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCC----------CCHHHHHHHHcCCCCeEE
Confidence 00112468999999999988553 333332 347999999999999995 55788888876 578899
Q ss_pred eeeeeccCCCCCCcccc
Q 001501 620 LQVQYRMHPSLSEFPSN 636 (1066)
Q Consensus 620 L~~qYRm~p~I~~f~s~ 636 (1066)
|++.+|-.+++...+..
T Consensus 993 L~eI~RQ~~elr~AV~~ 1009 (1623)
T PRK14712 993 MKEIVRQTPELREAVYS 1009 (1623)
T ss_pred eCeeecCCHHHHHHHHH
Confidence 99999998776555433
No 35
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.71 E-value=4.3e-17 Score=188.86 Aligned_cols=209 Identities=22% Similarity=0.256 Sum_probs=138.8
Q ss_pred CCCCCEEEEECCCCCChhhhhhhc-cccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc----CCcceEeeee
Q 001501 549 NFRFRQVLIDESTQATEPECLIPL-VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL----GLKPIRLQVQ 623 (1066)
Q Consensus 549 ~~~Fd~VIIDEAsQ~tE~e~LIpL-~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~----g~~~i~L~~q 623 (1066)
+.++.++||||||+.+..+...-- ...+..+.+|||-.|- +.... . ..+..+|+... ...-+.|..+
T Consensus 526 ~~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~---i~~~~-~----e~~~~e~~~~~fed~~~e~v~l~~s 597 (747)
T COG3973 526 ERRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQV---IYDEA-Q----ELSPMERMDVFFEDPSFEYVGLIAS 597 (747)
T ss_pred cccccceeechhhhcchhhhHHHhhhhhhccceEeccCCce---ehhhh-c----ccCHHHHHHHHHhCCCchhhhhhhh
Confidence 346889999999999986632211 2356789999999992 21110 0 11223332221 2344789999
Q ss_pred eccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHH
Q 001501 624 YRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFL 703 (1066)
Q Consensus 624 YRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll 703 (1066)
||++.+|.+|++.+.-++ ..... -..+...|.. ..+-.|..-.+.+..++.+|.
T Consensus 598 yrSt~eI~efan~~l~d~-----~~~~p--------~~rsge~p~~-------------i~~~~ne~l~qr~~~ii~~mk 651 (747)
T COG3973 598 YRSTAEIDEFANSLLPDR-----FRIHP--------LTRSGEKPAV-------------IMSVANEELVQRNPDIIPRMK 651 (747)
T ss_pred hcChHHHHHHHHHhccCC-----Cccch--------hhcCCCCcee-------------eeccchHHHHHhhHHHHHHHH
Confidence 999999999998876421 00000 0011123332 223445556667778888887
Q ss_pred HCCCCCCcEEEEecchhHHHHHHHHHHhccchh------hhccCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCC
Q 001501 704 RSGVVPSQIGVITPYEGQRAYIVNYMSRNGALR------QQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLND 777 (1066)
Q Consensus 704 ~~gv~~~dIgIITPY~aQv~~L~~~L~~~~~~~------~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d 777 (1066)
+.|. +.|+||++...|..++...|+....+. ........|.-|+-.||.|||.||+.-..... .--.+
T Consensus 652 k~~~--etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s~~e----~te~~ 725 (747)
T COG3973 652 KRGS--ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPSIVE----ETEQD 725 (747)
T ss_pred hcCC--CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecchhhc----ccccc
Confidence 7654 679999999999999999988654332 22334678999999999999999986543111 11367
Q ss_pred CCceeeechhhccceEEEec
Q 001501 778 PRRLNVALTRARYGIVILGN 797 (1066)
Q Consensus 778 ~RRLNVALTRAK~~LiIVGn 797 (1066)
.|.||||+|||-+.|+|+|-
T Consensus 726 ~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 726 LRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred hhhHHHHHHHHHHHHHHhhc
Confidence 89999999999999999874
No 36
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=99.68 E-value=3.6e-16 Score=210.07 Aligned_cols=171 Identities=23% Similarity=0.276 Sum_probs=112.6
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHhHHHHHHHH---HHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001501 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVY---HMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKTtTla~iI~---~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivR 463 (1066)
..||+.|++||..++. ..+++|+|+||||||+++..++. .+.+....+|+.+|||++||.+|.+ .|++.
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~----~g~~a-- 1091 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKS----AGVQA-- 1091 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHh----cCCch--
Confidence 4699999999999886 47999999999999999965443 3344445589999999999999965 23211
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccC
Q 001501 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1066)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (1066)
.+++..+..... +
T Consensus 1092 ---------------~Ti~s~l~~~~~--------------------------~-------------------------- 1104 (1960)
T TIGR02760 1092 ---------------QTLDSFLTDISL--------------------------Y-------------------------- 1104 (1960)
T ss_pred ---------------HhHHHHhcCccc--------------------------c--------------------------
Confidence 122211110000 0
Q ss_pred CccccCCCCCEEEEECCCCCChhhh--hhhcc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC-CcceE
Q 001501 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIR 619 (1066)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~tE~e~--LIpL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g-~~~i~ 619 (1066)
...-...+.++||||||+|+...++ |+-+. ....++|||||++||+||- ....|+-++..+ .+.+.
T Consensus 1105 ~~~~~~~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~----------aG~~f~~~~~~~~~~~~~ 1174 (1960)
T TIGR02760 1105 RNSGGDFRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLA----------AGKPFELAITFDIIDTAI 1174 (1960)
T ss_pred cccCCCCcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCC----------CCcCHHHHHhcCCCCeEE
Confidence 0000022568999999999998553 33222 2457999999999999984 234566666554 77789
Q ss_pred eeeeeccC-CCCCCccccccccCc
Q 001501 620 LQVQYRMH-PSLSEFPSNSFYEGT 642 (1066)
Q Consensus 620 L~~qYRm~-p~I~~f~s~~FY~g~ 642 (1066)
|++.+|.. ...+.-+...+-++.
T Consensus 1175 L~~I~RQ~~~~~l~~a~~~~~~~~ 1198 (1960)
T TIGR02760 1175 MKEIVRQNNSAELKAAHNSLDKRS 1198 (1960)
T ss_pred eeeEecCCCCHHHHHHHHHHhcCc
Confidence 99999984 233333334444444
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=99.65 E-value=2.7e-16 Score=169.55 Aligned_cols=168 Identities=23% Similarity=0.236 Sum_probs=95.9
Q ss_pred CCCEEEEECCCCCChhhhhhhc-cccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCcceEeeeeeccCCC
Q 001501 551 RFRQVLIDESTQATEPECLIPL-VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPS 629 (1066)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e~LIpL-~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qYRm~p~ 629 (1066)
.++++||||+++...-..+..+ ....+.++++||+.|.+............+... -.....+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHFISD--------ISHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceecccccc--------eeeeecceeEeecccc
Confidence 5899999999999864433322 235679999999999776643221111111100 1233467888999998
Q ss_pred CCCccccc-cccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHCCCC
Q 001501 630 LSEFPSNS-FYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVV 708 (1066)
Q Consensus 630 I~~f~s~~-FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~ 708 (1066)
+..+.+.. ......... ..+ ..+.. -.+.+
T Consensus 134 ~~~~~~~~~~~~~~~~~~---------------------~~~-----~~~~~-----------------------~~~~~ 164 (234)
T PF01443_consen 134 RFDIISALVYTEDHVESS---------------------VEF-----RVETD-----------------------PSGVD 164 (234)
T ss_pred cceeeecccccCCceeec---------------------ccc-----ccccc-----------------------CcccC
Confidence 88887666 111111000 000 00000 00011
Q ss_pred CCcEEEEecchhHHHHHHHHHHhccchhhhccCCe-EEeecccCCCccccEEEEEccccCCCCCcCCC-CCCCceeeech
Q 001501 709 PSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI-EVASVDSFQGREKDYIILSCVRSNEHQGIGFL-NDPRRLNVALT 786 (1066)
Q Consensus 709 ~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V-~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL-~d~RRLNVALT 786 (1066)
..+.+++.... ..+.+ .. .+.|+|++||+|||.|++........ ... .+++++|||||
T Consensus 165 -~~~~~~~~~~~----~~~~~------------~~~~~~T~~e~qG~tf~~V~l~~~~~~~~---~~~~~~~~~~~VALT 224 (234)
T PF01443_consen 165 -KVIVYLTFTQA----EKEQL------------GSDRVFTVHESQGLTFDNVTLVLLSDTDN---ELYSESRNHLYVALT 224 (234)
T ss_pred -cccchhhHHHH----HHHHc------------CCCceechHHcceEEeCCEEEEECCCccc---ccccCCcccEEEEcc
Confidence 11222221111 11111 12 59999999999999998876644321 222 36999999999
Q ss_pred hhccceEEE
Q 001501 787 RARYGIVIL 795 (1066)
Q Consensus 787 RAK~~LiIV 795 (1066)
|||+.|+|+
T Consensus 225 R~~~~l~i~ 233 (234)
T PF01443_consen 225 RHTKSLVIL 233 (234)
T ss_pred ccccEEEEE
Confidence 999999986
No 38
>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=99.59 E-value=1.1e-15 Score=170.84 Aligned_cols=64 Identities=25% Similarity=0.330 Sum_probs=56.5
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcC---CCeEEEEcCcHHHHHHHHHHHHh
Q 001501 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~---~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
||++|+++|.. ..+..+|.|+||||||+|+++++.+|+... +.+||++||||+|+++|.+||..
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHH
Confidence 79999999998 588999999999999999999999998864 56899999999999999999876
No 39
>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=99.53 E-value=2.3e-13 Score=183.40 Aligned_cols=167 Identities=19% Similarity=0.211 Sum_probs=113.1
Q ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001501 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~ 467 (1066)
.||+.|++||..++.. .+.+|+|+||||||+++..++..+-..+ .+|+++|||++|+..|.+.+...
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G-~~V~~lAPTgrAA~~L~e~~g~~---------- 497 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQG-YEIQIITAGSLSAQELRQKIPRL---------- 497 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhcC-CeEEEEeCCHHHHHHHHHHhcch----------
Confidence 6999999999999874 7999999999999999998887655554 59999999999999998864311
Q ss_pred cccccCCcchhhhHHHHHhhccchh-HHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCcc
Q 001501 468 SREAVSSPVEHLTLHYQVRHLDTSE-KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1066)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~~~~~~-~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~ 546 (1066)
-.+++.++..+.... ...+..+ + ...
T Consensus 498 ----------A~Ti~~~l~~l~~~~~~~tv~~f-----------------------------l--------------~~~ 524 (1960)
T TIGR02760 498 ----------ASTFITWVKNLFNDDQDHTVQGL-----------------------------L--------------DKS 524 (1960)
T ss_pred ----------hhhHHHHHHhhcccccchhHHHh-----------------------------h--------------ccc
Confidence 012222222111100 0000000 0 000
Q ss_pred ccCCCCCEEEEECCCCCChhhhhhhc--c-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCcceEeeee
Q 001501 547 LANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQ 623 (1066)
Q Consensus 547 L~~~~Fd~VIIDEAsQ~tE~e~LIpL--~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~q 623 (1066)
..-..-++||||||+|++..++...+ . ....+||||||+.||++|- ....|.-|...+.+.++|+..
T Consensus 525 ~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~----------aG~~f~~L~~~gv~t~~l~~i 594 (1960)
T TIGR02760 525 SPFSNKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMS----------AGSAIDLLKEGGVTTYAWVDT 594 (1960)
T ss_pred CCCCCCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccc----------cchHHHHHHHCCCcEEEeecc
Confidence 00125789999999999986643333 2 2457999999999999985 346677677778888888776
Q ss_pred eccCCCC
Q 001501 624 YRMHPSL 630 (1066)
Q Consensus 624 YRm~p~I 630 (1066)
-|....|
T Consensus 595 ~rq~~~v 601 (1960)
T TIGR02760 595 KQQKASV 601 (1960)
T ss_pred cccCcce
Confidence 6654444
No 40
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.50 E-value=3.6e-14 Score=177.17 Aligned_cols=133 Identities=28% Similarity=0.343 Sum_probs=94.0
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEecccc
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~s 468 (1066)
..++++|.+|+..++.++.++|.|+||||||+++..++..+.... ..+++.|+|.+|+..|.+.-...
T Consensus 318 ~~~~~~q~~a~~vl~~de~smlt~~~~~~~~~~~~~~~~l~~~~~-~~~l~aa~tG~a~~~l~e~tg~~----------- 385 (696)
T COG0507 318 LRLSLEQKEALDVLVVDEVSMLTGGPGTGKTTAIKAIARLIKEGD-GDQLLAAPTGKAAKRLNESTGLE----------- 385 (696)
T ss_pred CCcCcccHHHHHHHhcCCeeEEeccCCcchHHHHHHHHHHHHhcC-CcEEeechhhHHHHHHHHhhCcc-----------
Confidence 478999999999999999999999999999999988886555443 46999999999999888742100
Q ss_pred ccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCcccc
Q 001501 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (1066)
Q Consensus 469 re~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~ 548 (1066)
-.++ +++..+..... ....
T Consensus 386 ---------a~ti---------------~~~~~~~~~~~-------------------------------------~~~~ 404 (696)
T COG0507 386 ---------ARTI---------------HRLLGLWEKTG-------------------------------------NNEE 404 (696)
T ss_pred ---------hhHH---------------HHHHhccccCC-------------------------------------CCCC
Confidence 0122 22211111100 0112
Q ss_pred CCCCCEEEEECCCCCChhhhhhhc---cccCceEEEeCCccCCCceeecH
Q 001501 549 NFRFRQVLIDESTQATEPECLIPL---VLGAKQVVLVGDHCQLGPVIMCK 595 (1066)
Q Consensus 549 ~~~Fd~VIIDEAsQ~tE~e~LIpL---~~~~krlILVGD~~QLpPvv~s~ 595 (1066)
....|.+||||++++.. ....-+ .....++|+|||..||+++....
T Consensus 405 ~~~~d~~iiDe~~ml~~-~~~~~l~~~i~~~a~~i~vGD~~ql~~v~~g~ 453 (696)
T COG0507 405 PLDGDLLIIDEASMLDT-SLAFGLLSAIGKLAKVILVGDVDQLPSVGAGA 453 (696)
T ss_pred ccccceeEEehhhhHHH-HHhhhhhcccccCCeEEEeCCHHhcCCCCCCc
Confidence 23679999999999988 322222 12457999999999999997654
No 41
>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=99.47 E-value=9.6e-14 Score=159.89 Aligned_cols=165 Identities=20% Similarity=0.276 Sum_probs=102.9
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH--HHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM--AKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHY 483 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L--lk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l~~ 483 (1066)
.+.+|+|.||||||.++..++..| ... ..++++++++..-++.+.+.|....... ..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~-~~~~~~l~~n~~l~~~l~~~l~~~~~~~-----~~--------------- 60 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEE-GKKVLYLCGNHPLRNKLREQLAKKYNPK-----LK--------------- 60 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhcccc-CCceEEEEecchHHHHHHHHHhhhcccc-----hh---------------
Confidence 468999999999999999999998 333 3478889999988888888876542000 00
Q ss_pred HHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCC
Q 001501 484 QVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQA 563 (1066)
Q Consensus 484 ~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~ 563 (1066)
...+.... . .+.... ........||+||||||+.+
T Consensus 61 ---------~~~~~~~~------------------~--------~i~~~~----------~~~~~~~~~DviivDEAqrl 95 (352)
T PF09848_consen 61 ---------KSDFRKPT------------------S--------FINNYS----------ESDKEKNKYDVIIVDEAQRL 95 (352)
T ss_pred ---------hhhhhhhH------------------H--------HHhhcc----------cccccCCcCCEEEEehhHhh
Confidence 00000000 0 000000 01123347999999999998
Q ss_pred Ch----------hhhhhhccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc-CCc--c-eEeeeeecc--C
Q 001501 564 TE----------PECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLK--P-IRLQVQYRM--H 627 (1066)
Q Consensus 564 tE----------~e~LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~--~-i~L~~qYRm--~ 627 (1066)
.. ...|.-+...++.+|++-|+.| ++.... . .....++.+... +.. . +.|+.|||| .
T Consensus 96 ~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q---~i~~~e---~-~~~~~l~~~~~~~~~~~~~~~~L~~q~R~~~~ 168 (352)
T PF09848_consen 96 RTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQ---SIRPSE---I-GTLENLEEIAENLGIEVRHFFELKTQFRCHGS 168 (352)
T ss_pred hhccccccccccHHHHHHHHhcCCEEEEEEcccc---Eeeccc---C-CCHHHHHHHHHhcCCccccCcCcCcceecCCC
Confidence 87 2345555555678888999999 222111 0 122334444332 332 2 489999999 8
Q ss_pred CCCCCccccccccCcc
Q 001501 628 PSLSEFPSNSFYEGTL 643 (1066)
Q Consensus 628 p~I~~f~s~~FY~g~L 643 (1066)
+++.+|..++++....
T Consensus 169 ~~~~~wI~~ll~~~~~ 184 (352)
T PF09848_consen 169 KEYIDWIDNLLDNKNI 184 (352)
T ss_pred HHHHHHHHHHHhcccc
Confidence 8999999988876443
No 42
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.44 E-value=2.4e-13 Score=154.74 Aligned_cols=365 Identities=15% Similarity=0.115 Sum_probs=195.4
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcC---------
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG--------- 458 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~g--------- 458 (1066)
.+++..|++|+-... .+.-.|+|-+|+|||.+++..+++|... +..+|+++.+|...+..|+.++.+..
T Consensus 161 anfD~~Q~kaa~~~~-~G~qrIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~~~e~~pd 239 (660)
T COG3972 161 ANFDTDQTKAAFQSG-FGKQRIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFMRVEKQPD 239 (660)
T ss_pred hcccchhheeeeecC-CchhhhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHHHhhcCCC
Confidence 478889988765432 3455899999999999999999988765 66799999999999999988876531
Q ss_pred --CeEEEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhcccccc
Q 001501 459 --LKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIC 536 (1066)
Q Consensus 459 --l~ivRlg~~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~ 536 (1066)
-..++.+.... ..+. ++.. ......+++.. ++... ..++... ++++..+.
T Consensus 240 W~~~l~~h~wgG~--t~~g--~y~~--------------~~~~~~~~~~~--fsg~g-~~F~~aC----~eli~~~~--- 291 (660)
T COG3972 240 WGTKLFCHNWGGL--TKEG--FYGM--------------YRYICHYYEIP--FSGFG-NGFDAAC----KELIADIN--- 291 (660)
T ss_pred ccceEEEeccCCC--CCCc--chHH--------------HHHHhcccccc--cCCCC-cchHHHH----HHHHHhhh---
Confidence 11111111000 0000 0000 00000000000 00000 0011111 11121111
Q ss_pred ccccccCCccccCCCCCEEEEECCCCCChh--hhhhhccccCceEEEeCCccCC-CceeecHHHHhhcchHHHHHH--HH
Q 001501 537 CTCVGAGDPRLANFRFRQVLIDESTQATEP--ECLIPLVLGAKQVVLVGDHCQL-GPVIMCKKAARAGLAQSLFER--LV 611 (1066)
Q Consensus 537 ~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE~--e~LIpL~~~~krlILVGD~~QL-pPvv~s~~a~~~gl~~SLFeR--L~ 611 (1066)
.+.-+|+|+|||+|+.... ++..-+....|++|.++|.-|- .-+-+-..+...|-...---| |.
T Consensus 292 -----------~~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg~P~V~l~ 360 (660)
T COG3972 292 -----------NKKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDGEPRVNLA 360 (660)
T ss_pred -----------ccccccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCCCcccccc
Confidence 1335999999999998752 2222223367899999999993 111111111111110000000 00
Q ss_pred HcCCcceEeeeeeccCCCCCCccccc---cccCcccc----------cccccccccC-C--CCCCCCCCCCCeEEEEecC
Q 001501 612 LLGLKPIRLQVQYRMHPSLSEFPSNS---FYEGTLQN----------GVTINERQSS-G--IDFPWPVPNRPMFFYVQMG 675 (1066)
Q Consensus 612 ~~g~~~i~L~~qYRm~p~I~~f~s~~---FY~g~L~~----------~~~~~~r~~~-~--~~~~~p~~~~P~~f~~~~g 675 (1066)
...-.-+.|.+.||..|..+-++-.+ .|.|..+- +-.+....+. + +...-+....|.++-....
T Consensus 361 radr~DiVL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~ 440 (660)
T COG3972 361 RADRNDIVLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHK 440 (660)
T ss_pred cCccccchHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCC
Confidence 00112367999999888766554333 23322210 0000000000 0 0000001112322221111
Q ss_pred ceeecccCCCcCCHHHHHHHHHHHHHHHHCCCCCCcEEEEecchh----HHHHHHHHHHhccch------------hhhc
Q 001501 676 QEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEG----QRAYIVNYMSRNGAL------------RQQL 739 (1066)
Q Consensus 676 ~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~a----Qv~~L~~~L~~~~~~------------~~~~ 739 (1066)
.++...-..+-.-..|+.+|+.-|..+.+.++..+||.||.+-.. -...|.+-|...+.- ....
T Consensus 441 p~~i~~fi~fd~~~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~ 520 (660)
T COG3972 441 PTAIHLFIGFDNGPDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQ 520 (660)
T ss_pred hhhhheeeccCCcchhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCccccccccc
Confidence 111111111222367899999888888888999999999987543 333444444443311 1112
Q ss_pred cCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCCCCceeeechhhccceEEEe
Q 001501 740 YKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILG 796 (1066)
Q Consensus 740 ~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVG 796 (1066)
...|.+.+|-.+||.|+.+|+...+..-. .|....++-+++|+||.|.-+-|+|
T Consensus 521 dgkvtis~IyrAKGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~g 574 (660)
T COG3972 521 DGKVTISRIYRAKGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVG 574 (660)
T ss_pred CceEEeeeehhccCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhc
Confidence 23699999999999999999998775532 4555667799999999999988888
No 43
>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=99.30 E-value=1.2e-12 Score=147.94 Aligned_cols=96 Identities=20% Similarity=0.295 Sum_probs=61.5
Q ss_pred eEeeeeeccCCCCCCcccccccc-----CcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHH
Q 001501 618 IRLQVQYRMHPSLSEFPSNSFYE-----GTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEA 692 (1066)
Q Consensus 618 i~L~~qYRm~p~I~~f~s~~FY~-----g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA 692 (1066)
+.|++|||+++.|+++.|.+|-. ..-........ .......++.++.. .....|+
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~------------~~~~~e~ 60 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENILPNDNKDRYEKEIQS--------AENSEDGKISIIEF------------DNEEEEA 60 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC---TTSSSSCCCEEEE--------SSTCEESSEEEEEE------------SSHHHHH
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhhhhhhccchhhhhhcc--------ccccccCCceeecc------------CCHHHHH
Confidence 57999999999999999999822 11110000000 00000012222221 2235689
Q ss_pred HHHHHHHHHHHHCCCCCCcEEEEecchhHHHHHHHHHHhcc
Q 001501 693 ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1066)
Q Consensus 693 ~~V~~iV~~Ll~~gv~~~dIgIITPY~aQv~~L~~~L~~~~ 733 (1066)
+.|++.|..+...+++++||+||++.+.+...|.+.|...+
T Consensus 61 ~~i~~~I~~l~~~~~~~~diAVL~R~~~~~~~i~~~L~~~g 101 (351)
T PF13361_consen 61 EYIAEEIKELIRNGIPPSDIAVLVRTNSQIKEIEDALKEAG 101 (351)
T ss_dssp HHHHHHHHHHHHTTS-GGGEEEEESSGGHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhhcCCCcccEEEEEECchhHHHHHHHHhhhc
Confidence 99999999998889999999999999999999999887653
No 44
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=99.27 E-value=3.8e-12 Score=147.33 Aligned_cols=60 Identities=30% Similarity=0.440 Sum_probs=51.3
Q ss_pred CCCHHHHHHHHHHh------cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHH
Q 001501 390 ELNASQVFAVKSVL------QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQL 450 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL------~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L 450 (1066)
.||++|++++..++ ......|.|++|||||+++.+++..+... ...|++||+|..||.+|
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~-~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR-GKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc-cceEEEecchHHHHHhc
Confidence 48999999988873 35578999999999999999998876554 45899999999999887
No 45
>PF13245 AAA_19: Part of AAA domain
Probab=99.23 E-value=2e-11 Score=109.92 Aligned_cols=58 Identities=43% Similarity=0.644 Sum_probs=51.1
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHH
Q 001501 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKI 454 (1066)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL 454 (1066)
+||..++. +++++|+||||||||+|++.++..++.. +.++||+++|||.|+|+|.+|+
T Consensus 1 ~av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 1 EAVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CHHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 36776776 8899999999999999999999999864 2458999999999999999999
No 46
>PRK10536 hypothetical protein; Provisional
Probab=98.91 E-value=5.3e-09 Score=114.32 Aligned_cols=58 Identities=22% Similarity=0.294 Sum_probs=45.2
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCc
Q 001501 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPS 443 (1066)
Q Consensus 386 ~~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApS 443 (1066)
..+..+|..|..++..+....+++|.||+|||||+++..+...++.. .-.+|+++-|+
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~ 113 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPV 113 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCC
Confidence 34567999999999988888999999999999999999888765533 33355554443
No 47
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=98.90 E-value=1.7e-09 Score=115.02 Aligned_cols=58 Identities=29% Similarity=0.543 Sum_probs=41.6
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEcCcHHH
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVA 446 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~A 446 (1066)
..+|..|+.++..++..+++++.||+|||||.++++...+++..+ ..+|+++-|+-.+
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEA 61 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--T
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCC
Confidence 357999999999999999999999999999999998888888764 3567766555433
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=98.88 E-value=3.5e-08 Score=130.09 Aligned_cols=159 Identities=12% Similarity=0.054 Sum_probs=86.6
Q ss_pred CCCEEEEECCCCCChhhh--hhhccccCceEEEeCCccCCCceeecHH-HHhhcchHHHHHHHHHcCCcceEeeeeeccC
Q 001501 551 RFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKK-AARAGLAQSLFERLVLLGLKPIRLQVQYRMH 627 (1066)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s~~-a~~~gl~~SLFeRL~~~g~~~i~L~~qYRm~ 627 (1066)
+..+|+|||+++++..+. +-.|...++++++|||.+|.. .... ...+.+....+.++.. +.++.+||..
T Consensus 196 ~~~~I~VDeFqdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~~---~~~~~~~lf~~~~~~~~~l~~-----~~~~~~~~~~ 267 (1158)
T TIGR02773 196 KGAEIYIDGFHSFTPQEYSVIGALMKKAKKVTVTLTLDGPK---SLEDELSLFRATSETYYRLKE-----LAKELGIEVE 267 (1158)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCcEEEEEEeCCcc---ccCCccccchhHHHHHHHHHH-----HHHHcCCCcc
Confidence 467999999999998764 333444578999999999951 1000 0112233344444443 2233455554
Q ss_pred CCCCCccccccccC-cccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHHHHHC-
Q 001501 628 PSLSEFPSNSFYEG-TLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS- 705 (1066)
Q Consensus 628 p~I~~f~s~~FY~g-~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~- 705 (1066)
+.|....+.....+ .+. ............+......++.++... .-..|++.|+..|.++++.
T Consensus 268 ~~i~~~~~~~~~~~~~l~---~Lek~l~~~~~~~~~~~~~~I~i~~~~------------~~~~Eae~va~~I~~l~~~~ 332 (1158)
T TIGR02773 268 EPIFLNEYRPNKKNKELA---HLEKQFDARPFNAYIEEDGSISIFEAN------------NRRAEVEGVARQILRLTRDK 332 (1158)
T ss_pred cccccccccCCCCCHHHH---HHHHHHhhCCCCCCCCCCCCeEEEEcC------------CHHHHHHHHHHHHHHHHHcC
Confidence 44432111110000 000 000000000000001111223222221 1247999999999999876
Q ss_pred CCCCCcEEEEecc-hhHHHHHHHHHHhc
Q 001501 706 GVVPSQIGVITPY-EGQRAYIVNYMSRN 732 (1066)
Q Consensus 706 gv~~~dIgIITPY-~aQv~~L~~~L~~~ 732 (1066)
|+.++||+||++. +.+...|...|.+.
T Consensus 333 g~~~~DIAVL~R~~~~y~~~i~~~f~~~ 360 (1158)
T TIGR02773 333 QYRYQDIAILTRDLEDYAKLVEAVFSDY 360 (1158)
T ss_pred CCChhheEEEeCCHHHHHHHHHHHHHhC
Confidence 8999999999999 88899998888664
No 49
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.75 E-value=8.2e-08 Score=98.61 Aligned_cols=69 Identities=26% Similarity=0.371 Sum_probs=60.1
Q ss_pred CCCCHHHHHHHHHHhcC-CcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 389 PELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~-~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+++.|.+++..++.. ...+|.||+|||||+++...+..++... ..++|+++||+.++.++..++...
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHH
Confidence 46899999999999987 8999999999999998887777766653 458999999999999999988765
No 50
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.70 E-value=3.1e-09 Score=130.30 Aligned_cols=391 Identities=23% Similarity=0.287 Sum_probs=239.0
Q ss_pred CCCCCHHHHHHHHHHhc-----CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHH-Hhc---C
Q 001501 388 LPELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI-SAT---G 458 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL-~~~---g 458 (1066)
.+.+|.-|..|+..... ....|++|+ |+|||.+++.-+..+......+++++.+++.|++...... ++. +
T Consensus 118 ~~~~~~~~~~~l~~~~~~~l~e~~P~L~~G~-~~~~~~~~~~~~~~~~~~~~~k~~~~l~~~~~~~~~ir~y~~~~v~~~ 196 (775)
T KOG1804|consen 118 EPRLNALQKGALLAITVPLLRELPPSLLIGP-GTGETLELAQAVKSLLQQEEAKILILLHSESAADIYIREYLHPYVEEG 196 (775)
T ss_pred chhhhhhhcccccceeccccccCCcccccCC-ccccceeecchhhcccccccccceEeechhHHHHHHHHHhhccccccc
Confidence 34677777776655322 456889998 9999999988887777666679999999999966444332 221 1
Q ss_pred CeE---EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccc
Q 001501 459 LKV---VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVI 535 (1066)
Q Consensus 459 l~i---vRlg~~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI 535 (1066)
.+. .|+....+....... -+.+...+-.. ...+ ..-....+++ .+|+
T Consensus 197 ~~~~~~~r~~~~~r~l~~~~p------------------vv~~~~~if~~--------~~~~---~~pq~~~~~~-Hrv~ 246 (775)
T KOG1804|consen 197 LPEATPLRVYSRKRPLAQVNP------------------VVLQYCFIFDS--------HITF---RRPQVEDLFK-HRVV 246 (775)
T ss_pred ccccccccceeecccccccCC------------------ceeeeeeeccc--------hhhh---ccchhhhhcc-ccee
Confidence 111 022111111000000 00000000000 0000 0000112233 6666
Q ss_pred cccccccC---CccccCCCCCEEEEECCCCCChhhhhhhccc--cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHH
Q 001501 536 CCTCVGAG---DPRLANFRFRQVLIDESTQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERL 610 (1066)
Q Consensus 536 ~~T~~~a~---~~~L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL 610 (1066)
+.|..... ...+....|.+++.|||.++.+.+.+.|+.+ ..++++|+||+.||-|.+.+.......+. .+..++
T Consensus 247 ~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~~~~~~ 325 (775)
T KOG1804|consen 247 VVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQALH-LLLCRL 325 (775)
T ss_pred EeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhhhh-hccccc
Confidence 66655433 2233444689999999999999999999765 45799999999999998866544433332 222222
Q ss_pred HH----cCCcceEeeeeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEecCceeecccCCCc
Q 001501 611 VL----LGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSY 686 (1066)
Q Consensus 611 ~~----~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~ 686 (1066)
.. .+...+-...|||.+-.|..|.+..||...........+ .+......|..|....+.+........+
T Consensus 326 ~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k-------~~~~rl~~p~~~~~~~~~~~~~~~~~~~ 398 (775)
T KOG1804|consen 326 PEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGK-------QPAHRLHYPLTFSTARGEDVRAKSSTAW 398 (775)
T ss_pred ccccccccCCCcCCccchHHHHHHHHhcchHHHhhcccccccccc-------cccccccccccccccccccccccchhHH
Confidence 11 123335689999999999999999999764432222211 1222224677888777777666677788
Q ss_pred CCHHHHHHHHHHHHHHHHCC-----C-CCCcEEEEecchhHHHHHHHHHHhccchhhhccCCeEEeecccCCCcccc---
Q 001501 687 LNRTEAANVEKIVTTFLRSG-----V-VPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKD--- 757 (1066)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~g-----v-~~~dIgIITPY~aQv~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~D--- 757 (1066)
+|..|+..++.-++.+.+.. + .-..+|++++|..|+..++..|....... +.-.---+|..+-
T Consensus 399 ~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~s--------tEpe~lv~i~~~~~~~ 470 (775)
T KOG1804|consen 399 YNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVS--------TEPELLVPGKQFRQPF 470 (775)
T ss_pred hhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecccccc--------cCccccccccccccee
Confidence 89999999888888877432 1 22468899999999988887774322111 0001111111111
Q ss_pred EEEEEcccc--------CCCCCcCCCCCCCceeeechhhccceEEEeccccccC----ChhHHHHHHHHHhcCeeecCCC
Q 001501 758 YIILSCVRS--------NEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK----QPLWNGLLTHYKEHECLVEGPL 825 (1066)
Q Consensus 758 vVIlS~VRS--------n~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~----~~~W~~ll~~~~~~~~lv~g~l 825 (1066)
.|+|++... ......| .++.+++.|+|||.+.+-.+|+...+.. ..+|.+.+..+-.+..++++.|
T Consensus 471 ~vvLsgdh~Qlgpv~~s~~A~~~g--l~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL 548 (775)
T KOG1804|consen 471 QVVLSGDHTQLGPVSKSARAEELG--LDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGEL 548 (775)
T ss_pred EEEEccCcccccccccchhhhhhc--ccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccce
Confidence 455544322 1112222 4588999999999999999999988765 5789999999999999888776
Q ss_pred cc
Q 001501 826 NN 827 (1066)
Q Consensus 826 ~~ 827 (1066)
..
T Consensus 549 ~~ 550 (775)
T KOG1804|consen 549 TA 550 (775)
T ss_pred ee
Confidence 53
No 51
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=98.53 E-value=4.8e-07 Score=87.40 Aligned_cols=51 Identities=31% Similarity=0.504 Sum_probs=44.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+|.||+|||||+++...+..+... ...++++++|++..++++.+++...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 46899999999999999998888765 4569999999999999999988764
No 52
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.52 E-value=2.3e-05 Score=93.88 Aligned_cols=69 Identities=22% Similarity=0.255 Sum_probs=54.8
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHH-HHHHHcC-------CCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV-YHMAKQG-------QGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI-~~Llk~~-------~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+++-|.+||..++...-.++++|.|||||.+...-+ ..+.... ..++|+++||...|.++.+.+...
T Consensus 22 ~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 22 REPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 47899999999999987779999999999998765443 3333321 126999999999999999887653
No 53
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.50 E-value=2.3e-08 Score=94.61 Aligned_cols=50 Identities=26% Similarity=0.195 Sum_probs=40.2
Q ss_pred CeEEeecccCCCccccEEEEEccccCCCCCcCCCCCCCceeeechhhccceEEE
Q 001501 742 EIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVIL 795 (1066)
Q Consensus 742 ~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIV 795 (1066)
.+.+.|||++||+|||.||+....... .-...+|+||||+||||+.|+||
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 688999999999999999998876651 11345788999999999999997
No 54
>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=98.41 E-value=2.1e-06 Score=87.54 Aligned_cols=66 Identities=23% Similarity=0.375 Sum_probs=56.0
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
++.|.+++..++.+.-.+|.||+|+|||.+....+...+... ..++++++|+...++++.+++...
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~ 67 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKF 67 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccc
Confidence 468999999999877899999999999999887666655553 359999999999999999998765
No 55
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.37 E-value=0.00026 Score=87.14 Aligned_cols=70 Identities=17% Similarity=0.185 Sum_probs=56.1
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHH-HHHHHHHcC--------CCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~-iI~~Llk~~--------~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
+..+++-|.++|-.++...-+++++|.|||||.+... ++..|++.. ..++|+++||...+.++.+.+.+.
T Consensus 29 ~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l 107 (572)
T PRK04537 29 FTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKF 107 (572)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 3478999999999999988899999999999987654 344444321 248999999999999999887654
No 56
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=98.31 E-value=4.6e-07 Score=110.66 Aligned_cols=65 Identities=31% Similarity=0.393 Sum_probs=52.5
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCC---CeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ---GQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~---~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.||.+|+.++..- ....-+|.| ||+|||.++...+.+++..+. .-|++.|.||+|+|.+.+++..
T Consensus 13 ~l~~~q~~~~~~~-~~~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~ 80 (853)
T KOG2108|consen 13 LLNKSQRFSALSP-LRRKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIA 80 (853)
T ss_pred hhhhhhhhhhcCC-Ccccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHH
Confidence 5778888776642 145567777 999999999999999887643 3599999999999999999865
No 57
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.31 E-value=2.1e-05 Score=97.46 Aligned_cols=68 Identities=24% Similarity=0.241 Sum_probs=54.6
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHH-c-CCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAK-Q-GQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk-~-~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.++++.|.+|+..++...-+|+++|.|||||.+...-+...+. . ...++||++||...+.++.+.+..
T Consensus 27 ~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~ 96 (629)
T PRK11634 27 EKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTD 96 (629)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHH
Confidence 4789999999999998888999999999999886543333332 2 334899999999999999887765
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=98.27 E-value=9.1e-06 Score=85.88 Aligned_cols=69 Identities=23% Similarity=0.216 Sum_probs=57.0
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHH-HHHHHHHHHc---CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTl-a~iI~~Llk~---~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+++.|++|+..++...-.+|.+|.|+|||.+. ..++..+... +..++++++||...+.++.+.+...
T Consensus 20 ~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 20 EKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 3689999999999998888999999999999884 4555566554 3458999999999999988877654
No 59
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=98.21 E-value=2.3e-05 Score=100.51 Aligned_cols=67 Identities=24% Similarity=0.288 Sum_probs=55.2
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
++++.|.+||..++.. .-.||+||.|||||.+....+...+..+ .++|+++||..-|.+..+.+.+.
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g-~qvlvLvPT~~LA~Q~~~~f~~~ 523 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG-KQVAVLVPTTLLAQQHFETFKER 523 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC-CeEEEEeCcHHHHHHHHHHHHHH
Confidence 5899999999998763 2469999999999998876665555555 48999999999999998887653
No 60
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.19 E-value=8.3e-06 Score=98.75 Aligned_cols=68 Identities=22% Similarity=0.238 Sum_probs=59.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.|.+.|++||..++...-.++++|.|+|||.+++.++..++.....++|+++||...++++.+++.+.
T Consensus 114 ~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 114 EPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 68899999999999877789999999999999887776666665559999999999999999998865
No 61
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.14 E-value=2.3e-05 Score=93.13 Aligned_cols=69 Identities=25% Similarity=0.288 Sum_probs=54.8
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHH-HHHHHHHc-----CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~-iI~~Llk~-----~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+++-|.+|+..++...-.++++|.|||||.+... ++.+|... +..++|+++||...|.++.+.+...
T Consensus 22 ~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l 96 (434)
T PRK11192 22 TRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAREL 96 (434)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHH
Confidence 467899999999999887899999999999987644 33444332 2358999999999999998876543
No 62
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.11 E-value=4.2e-05 Score=100.18 Aligned_cols=66 Identities=24% Similarity=0.292 Sum_probs=54.8
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.+++.|.+|+..++.. .-.||+|+.|||||.+....+...+..+ .++||++||..-|.++.+.+.+
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g-~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENH-KQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHH
Confidence 6899999999998864 3579999999999998776655555544 5899999999999999887765
No 63
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.10 E-value=2.9e-05 Score=97.17 Aligned_cols=75 Identities=31% Similarity=0.382 Sum_probs=62.2
Q ss_pred CCCCHHHHHHHHHHhc---CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc-CCeEEEe
Q 001501 389 PELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GLKVVRL 464 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~---~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~-gl~ivRl 464 (1066)
..|++.|++|+..++. ....|++|+.|||||.+...++...+..+ .++|+++||..-++++.+++.+. +.++..+
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g-~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~ 221 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQG-KQALVLVPEIALTPQMLARFRARFGAPVAVL 221 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHHHhCCCEEEE
Confidence 4699999999999886 36799999999999999888877777665 48999999999999999999763 4444433
No 64
>PTZ00424 helicase 45; Provisional
Probab=98.04 E-value=2.6e-05 Score=91.40 Aligned_cols=70 Identities=24% Similarity=0.265 Sum_probs=56.5
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc--CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
...+++.|.+|+..++...-.+|++|.|||||.+....+...+.. ...++|+++||...+.++.+.+...
T Consensus 48 ~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 48 FEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 347899999999999988778999999999998776555444433 3458999999999999888776654
No 65
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.02 E-value=4.6e-05 Score=91.31 Aligned_cols=70 Identities=23% Similarity=0.246 Sum_probs=54.8
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc--CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
...+++-|.+|+..++...-.++++|.|||||.+....+...+.. ...++|+++||...++++.+.+...
T Consensus 24 ~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~ 95 (460)
T PRK11776 24 YTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRL 95 (460)
T ss_pred CCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 347899999999999998889999999999997754333333322 2337999999999999998877653
No 66
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.97 E-value=5.3e-05 Score=95.09 Aligned_cols=67 Identities=30% Similarity=0.380 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
+|++.|++|+..++.. .-.||+||.|||||.+....+...+..+ .++|++|||...|.++.+++.+.
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g-~q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAG-YQAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcC-CeEEEEeccHHHHHHHHHHHHHH
Confidence 6999999999988763 2479999999999999877666666554 48999999999999999987754
No 67
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.96 E-value=5e-05 Score=94.51 Aligned_cols=67 Identities=30% Similarity=0.401 Sum_probs=55.1
Q ss_pred CCCHHHHHHHHHHhcC---C---cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQR---P---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~---~---l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
+|++.|++|+..++.. + ..||+||.|||||.+....+...+..+ .++|+++||...|.++.+.+.+.
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g-~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAG-YQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcC-CcEEEECCHHHHHHHHHHHHHHH
Confidence 6999999999988753 2 369999999999998776665555554 48999999999999999887653
No 68
>PRK02362 ski2-like helicase; Provisional
Probab=97.95 E-value=1.5e-05 Score=101.03 Aligned_cols=76 Identities=22% Similarity=0.267 Sum_probs=58.9
Q ss_pred CCCCCHHHHHHHHH-HhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc---CCeEEE
Q 001501 388 LPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT---GLKVVR 463 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~-aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~---gl~ivR 463 (1066)
+.+|++.|.+|+.. .+...-.+|.+|.|+|||.+....+...+.. ..++|+++|+..-+++..+++.+. ++++..
T Consensus 21 ~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~-~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~ 99 (737)
T PRK02362 21 IEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-GGKALYIVPLRALASEKFEEFERFEELGVRVGI 99 (737)
T ss_pred CCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEE
Confidence 45799999999988 4567788999999999999876544444433 458999999999999999888754 444443
Q ss_pred e
Q 001501 464 L 464 (1066)
Q Consensus 464 l 464 (1066)
+
T Consensus 100 ~ 100 (737)
T PRK02362 100 S 100 (737)
T ss_pred E
Confidence 3
No 69
>PRK00254 ski2-like helicase; Provisional
Probab=97.91 E-value=3.8e-05 Score=97.11 Aligned_cols=68 Identities=22% Similarity=0.335 Sum_probs=55.3
Q ss_pred CCCCCHHHHHHHHH-HhcCCcEEEECCCCCcHhHHHH-HHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 388 LPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~-aL~~~l~LIqGPPGTGKTtTla-~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
..+||+.|.+|+.. .+.+.-.+|++|.|||||.+.. .++..+.. ...++++++|+..-+++..+++..
T Consensus 21 ~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~-~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 21 IEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLR-EGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHh-cCCeEEEEeChHHHHHHHHHHHHH
Confidence 45799999999986 5667789999999999999884 44444444 345999999999999999988764
No 70
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.85 E-value=4.5e-05 Score=76.69 Aligned_cols=53 Identities=28% Similarity=0.426 Sum_probs=42.5
Q ss_pred CCcEEEECCCCCcHhH-HHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 405 RPISLIQGPPGTGKTV-TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTt-Tla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
..+++|.=.||+|||+ ++.+++.+-++.+. |+||++||...++++.+.|....
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~-rvLvL~PTRvva~em~~aL~~~~ 57 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRL-RVLVLAPTRVVAEEMYEALKGLP 57 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHTTTSS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccC-eEEEecccHHHHHHHHHHHhcCC
Confidence 4578899999999998 67888888888765 99999999999999999987553
No 71
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.85 E-value=5.2e-05 Score=89.83 Aligned_cols=69 Identities=20% Similarity=0.186 Sum_probs=54.2
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHH-HHHHHHc--------CCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAI-VYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~i-I~~Llk~--------~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+..+++-|.+|+..++...-.++++|.|||||.+.... +..|... ...++||++||...|.++.+.+..
T Consensus 28 ~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~ 105 (423)
T PRK04837 28 FHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEP 105 (423)
T ss_pred CCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHH
Confidence 35789999999999999888999999999999876433 3344432 124799999999999998776544
No 72
>PRK01172 ski2-like helicase; Provisional
Probab=97.85 E-value=7.3e-05 Score=93.85 Aligned_cols=66 Identities=20% Similarity=0.263 Sum_probs=55.0
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+|++.|.+|+..++.+.-.+|.+|.|||||.+....+...+..+ .++++++|+..-|++..+.+.+
T Consensus 22 ~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~~-~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 22 ELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAG-LKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHhC-CcEEEEechHHHHHHHHHHHHH
Confidence 58999999999988888899999999999998765554444444 4899999999999998887754
No 73
>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=97.83 E-value=3.6e-05 Score=79.10 Aligned_cols=64 Identities=25% Similarity=0.464 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
+|.+.|.+|+..++. .+..+|.+|+|||||.+++.++..+.. ++++++|+...++++.+.+...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHHh
Confidence 578999999999884 478999999999999999998888876 9999999999999999998543
No 74
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.79 E-value=0.0001 Score=83.25 Aligned_cols=55 Identities=20% Similarity=0.263 Sum_probs=46.5
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcC
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~Ap 442 (1066)
+.-.++.|..-++++....+.+=.||+|||||+..+......++. .-.+||++=|
T Consensus 126 I~~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP 181 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP 181 (348)
T ss_pred eEecChhHHHHHHHHHhcCeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc
Confidence 345799999999999999999999999999999998777666665 3457888877
No 75
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.78 E-value=7.5e-05 Score=89.14 Aligned_cols=65 Identities=29% Similarity=0.385 Sum_probs=57.6
Q ss_pred CCCCHHHHHHHHHHhc----CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 389 PELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..|.+.|.+|+..... ..-.+|.-|+|+|||.+.+.++..+.. ++||++|+...+++..+++...
T Consensus 35 ~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~----~~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 35 FELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKR----STLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred CCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcC----CEEEEECcHHHHHHHHHHHHHh
Confidence 4799999999999988 788999999999999999999887633 4999999999999999887654
No 76
>PTZ00110 helicase; Provisional
Probab=97.73 E-value=0.00029 Score=86.35 Aligned_cols=70 Identities=24% Similarity=0.237 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHH-HHHHHHHHc------CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQ------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla-~iI~~Llk~------~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
+..+++-|.+|+..++...-.++.+|.|||||.+.. -++.++..+ ....+||++||...|.++.+.+.+.
T Consensus 150 ~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 150 FTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 457899999999999988788999999999998643 334444432 1236999999999999998887764
No 77
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.73 E-value=0.00011 Score=83.05 Aligned_cols=56 Identities=25% Similarity=0.372 Sum_probs=39.8
Q ss_pred CCCCCHHHHHHHHHHhcC--CcEEEECCCCCcHhHHHH-HHHHHHH-HcCCCeEEEEcCc
Q 001501 388 LPELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSA-AIVYHMA-KQGQGQVLVCAPS 443 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKTtTla-~iI~~Ll-k~~~~rILV~ApS 443 (1066)
+...|.+|+-|+...+.. +++-+.|.+|||||-.+. +-+.+.+ +....||+|+=|+
T Consensus 226 i~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~ 285 (436)
T COG1875 226 IRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPT 285 (436)
T ss_pred cCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCC
Confidence 457899999999999875 567788999999997763 3333333 3344567776543
No 78
>PRK13766 Hef nuclease; Provisional
Probab=97.70 E-value=0.00023 Score=90.84 Aligned_cols=67 Identities=27% Similarity=0.351 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
++-+.|++++..++.+ -.||..|.|+|||.+...++..++.....+||+++||...+++..+.+.+.
T Consensus 15 ~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~ 81 (773)
T PRK13766 15 EARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred CccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 5567899999988876 679999999999998887777776655679999999999999888887653
No 79
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.67 E-value=0.00017 Score=94.23 Aligned_cols=69 Identities=25% Similarity=0.265 Sum_probs=57.9
Q ss_pred CCCHHHHHHHHHHhc-----CCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
.|-+.|.+||..+.. .+-.||+.+.|||||.|++.++..|++. ...+||++++++.-+++..+.+...+
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~ 487 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTK 487 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcc
Confidence 577899999987652 3458999999999999999999888876 34599999999999999999877653
No 80
>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=97.66 E-value=0.00028 Score=89.29 Aligned_cols=71 Identities=11% Similarity=0.118 Sum_probs=58.5
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHH-HHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~-iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
...|++-|.+|+..++...-++|..|.|||||.+-.. ++..|.+.+..++|+++||..-+.++.+++.+.+
T Consensus 34 ~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 34 IHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred CCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 3478999999999999888899999999999987643 4444555455689999999999999999887653
No 81
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.65 E-value=0.00027 Score=85.14 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=55.8
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHH-HHHHHHHHcC--------CCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla-~iI~~Llk~~--------~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
+..+++-|.+|+..++...-.+|++|.|||||.+.. -++..|++.. ..++|+++||...+.++.+.+...
T Consensus 107 ~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l 185 (475)
T PRK01297 107 FPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAAL 185 (475)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHh
Confidence 347899999999999988788999999999997653 3444555432 347999999999999998877653
No 82
>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=0.00026 Score=93.17 Aligned_cols=67 Identities=33% Similarity=0.350 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.+.+-|+.++..++...-.++++|.|||||..+.-++..+... ..++||++||..-|.++.+++...
T Consensus 78 ~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~l~~~~~l~~~-g~~vLIL~PTreLa~Qi~~~l~~l 144 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAKK-GKRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEeCHHHHHHHHHHHHHHH
Confidence 5788999999999988888999999999998665555455444 458999999999999999988764
No 83
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.57 E-value=0.00023 Score=89.78 Aligned_cols=77 Identities=27% Similarity=0.343 Sum_probs=62.9
Q ss_pred CCCCCHHHHHHHHHHhcC-CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHH---hcCCeEEE
Q 001501 388 LPELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS---ATGLKVVR 463 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~-~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~---~~gl~ivR 463 (1066)
..+|.+.|+.||...+-. .-.||..|-|+|||-++-..+..-+..+..+++.++|++.-|.+..+++. ..|+++.-
T Consensus 29 ~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~ 108 (766)
T COG1204 29 IDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGI 108 (766)
T ss_pred hHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEE
Confidence 347899999999887664 88999999999999998766655555555699999999999999999887 56777654
Q ss_pred e
Q 001501 464 L 464 (1066)
Q Consensus 464 l 464 (1066)
.
T Consensus 109 ~ 109 (766)
T COG1204 109 S 109 (766)
T ss_pred e
Confidence 4
No 84
>PRK09401 reverse gyrase; Reviewed
Probab=97.56 E-value=0.00038 Score=91.65 Aligned_cols=67 Identities=24% Similarity=0.241 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
++++-|+.++..++...-++|++|.|||||..+..++..+.. ...++||++||..-|.++.+++...
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 KPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVMSLYLAK-KGKKSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHHHHH
Confidence 578999999999999888999999999999765544444444 3458999999999999999998765
No 85
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.55 E-value=0.00047 Score=85.96 Aligned_cols=64 Identities=19% Similarity=0.272 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHhcCC---cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~---l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.|=+.|++||...+.++ -.+|.-|+|+|||.+.+.++..+ ..++||++||...+++..+.+.+.
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l----~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV----KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh----CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 57789999999988543 57999999999999998877655 348999999999999999988764
No 86
>PRK08181 transposase; Validated
Probab=97.53 E-value=0.00075 Score=75.40 Aligned_cols=53 Identities=32% Similarity=0.468 Sum_probs=42.2
Q ss_pred CCCCCHHHHHHHHHHh----cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 388 LPELNASQVFAVKSVL----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL----~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
.+.++..|..++..+- .....+|+||||||||+.+..+...+++.+. +|+.+.
T Consensus 85 ~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~-~v~f~~ 141 (269)
T PRK08181 85 VPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENGW-RVLFTR 141 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcCC-ceeeee
Confidence 4678999999986552 2456899999999999999999988887754 676665
No 87
>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=97.51 E-value=0.001 Score=80.14 Aligned_cols=74 Identities=20% Similarity=0.299 Sum_probs=58.2
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEec
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg 465 (1066)
+..+.+-|.+||..++...-.+|..|.|||||.+- .+-.+.. ....||++|+..-+.+..+++...++++.-+.
T Consensus 9 ~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y--~lp~l~~--~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~ 82 (470)
T TIGR00614 9 LSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCY--QLPALCS--DGITLVISPLISLMEDQVLQLKASGIPATFLN 82 (470)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHH--HHHHHHc--CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEe
Confidence 35789999999999999888999999999999643 2222322 34799999999999888888888777665443
No 88
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=97.49 E-value=0.00078 Score=83.15 Aligned_cols=58 Identities=16% Similarity=0.340 Sum_probs=41.9
Q ss_pred HHHHHhc-CCcEEEECCCCCcHhHHHHHH-HHHHHHcCCCeEEEEcCcHHHHHHHHHHHH
Q 001501 398 AVKSVLQ-RPISLIQGPPGTGKTVTSAAI-VYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 398 AV~~aL~-~~l~LIqGPPGTGKTtTla~i-I~~Llk~~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
+|..++. ....+|.+|.|||||..-..- +.++......+|+|+++|..-++++.+.+.
T Consensus 8 ~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 8 NCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred HHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHH
Confidence 4444444 567899999999999665433 333433345699999999999999987554
No 89
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.48 E-value=0.00065 Score=82.82 Aligned_cols=68 Identities=18% Similarity=0.203 Sum_probs=53.2
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHH-HHHHHHHHc--------CCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla-~iI~~Llk~--------~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
..+++-|.+|+..++...-.++.+|.|||||.+-. -++.++... ...++|+++||...|.++.+.+..
T Consensus 142 ~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~ 218 (518)
T PLN00206 142 EFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKV 218 (518)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHH
Confidence 46899999999999998889999999999997643 344444321 234799999999999888776554
No 90
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.48 E-value=0.00087 Score=83.57 Aligned_cols=76 Identities=16% Similarity=0.204 Sum_probs=55.3
Q ss_pred CCCCCCCCCCCC-HHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHH---------HHH----c-CCCeEEEEcCcHH
Q 001501 381 RRFGAPGLPELN-ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYH---------MAK----Q-GQGQVLVCAPSNV 445 (1066)
Q Consensus 381 ~~~~~~~~~~LN-~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~---------Llk----~-~~~rILV~ApSN~ 445 (1066)
+.|..-.+..|- .-|.+++..++.+...+++|+.|||||+.+-..+.+ .+. . ...+|+|++|+..
T Consensus 154 ~~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~Prre 233 (675)
T PHA02653 154 EPFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVA 233 (675)
T ss_pred CccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHH
Confidence 344433344454 468888888888999999999999999986544432 111 1 2348999999999
Q ss_pred HHHHHHHHHHh
Q 001501 446 AVDQLAEKISA 456 (1066)
Q Consensus 446 AvD~L~eRL~~ 456 (1066)
+|.++.+++.+
T Consensus 234 La~qi~~~i~~ 244 (675)
T PHA02653 234 LVRLHSITLLK 244 (675)
T ss_pred HHHHHHHHHHH
Confidence 99999988865
No 91
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.45 E-value=0.00078 Score=89.76 Aligned_cols=64 Identities=19% Similarity=0.214 Sum_probs=50.9
Q ss_pred CCCCHHHHHHHHHHhcC--CcEEEECCCC-CcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHH
Q 001501 389 PELNASQVFAVKSVLQR--PISLIQGPPG-TGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~--~l~LIqGPPG-TGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eR 453 (1066)
..++..|..||..++.. .+.+|.|..| ||||+++..++..+-. ...+|.++||++.|+..|.+.
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~-~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMARE-QGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHh-CCcEEEEEeCCHHHHHHHHhc
Confidence 35788999999999974 4666666666 9999999977665544 445999999999999988763
No 92
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.45 E-value=0.0015 Score=73.81 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=46.1
Q ss_pred CHHHHHHHHH---Hhc-CCcEEEECCCCCcHhHHHHHHH-HHHHHcCCC----eEEEEcCcHHHHHHHHHHHHh
Q 001501 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 392 N~sQ~~AV~~---aL~-~~l~LIqGPPGTGKTtTla~iI-~~Llk~~~~----rILV~ApSN~AvD~L~eRL~~ 456 (1066)
-+.|.+.++. .+. .+..+|.+|.|||||..+...+ .++...+.. +|++++.|+.-.+.....+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 5788884443 333 6789999999999997766544 444444432 899999999987777665544
No 93
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.45 E-value=0.0015 Score=73.81 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=46.1
Q ss_pred CHHHHHHHHH---Hhc-CCcEEEECCCCCcHhHHHHHHH-HHHHHcCCC----eEEEEcCcHHHHHHHHHHHHh
Q 001501 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 392 N~sQ~~AV~~---aL~-~~l~LIqGPPGTGKTtTla~iI-~~Llk~~~~----rILV~ApSN~AvD~L~eRL~~ 456 (1066)
-+.|.+.++. .+. .+..+|.+|.|||||..+...+ .++...+.. +|++++.|+.-.+.....+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 5788884443 333 6789999999999997766544 444444432 899999999987777665544
No 94
>PRK06526 transposase; Provisional
Probab=97.45 E-value=0.0008 Score=74.61 Aligned_cols=51 Identities=24% Similarity=0.404 Sum_probs=37.7
Q ss_pred CCCCCHHHHHHHHHH---hcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEE
Q 001501 388 LPELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~a---L~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1066)
.+.++..|...+... -.....+|.||||||||+++..+...+.+.+. +|+.
T Consensus 78 ~~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~-~v~f 131 (254)
T PRK06526 78 QRSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGH-RVLF 131 (254)
T ss_pred CCCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCC-chhh
Confidence 356888776655332 12456899999999999999999988887654 5655
No 95
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.41 E-value=0.00018 Score=70.40 Aligned_cols=51 Identities=27% Similarity=0.473 Sum_probs=32.4
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHc-----CCCeEEEEcCcHHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~-----~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
+...+|.|+||+|||+++..++..+... ...-+.+.++.......+.+.|.
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 59 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEIL 59 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHH
Confidence 5678999999999999999999887653 23234444544444555555554
No 96
>PRK14974 cell division protein FtsY; Provisional
Probab=97.39 E-value=0.0017 Score=74.78 Aligned_cols=56 Identities=36% Similarity=0.542 Sum_probs=41.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc-Cc--HHHHHHHHHHHHhcCCeEE
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A-pS--N~AvD~L~eRL~~~gl~iv 462 (1066)
.+.++.|+||+|||||++.++..|...+. +|++++ .+ ..|++++.......+++++
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~g~-~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~ 199 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKNGF-SVVIAAGDTFRAGAIEQLEEHAERLGVKVI 199 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEecCCcCcHHHHHHHHHHHHHcCCcee
Confidence 36788999999999999999988776554 665554 33 5677787776666666554
No 97
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=97.38 E-value=2.6e-05 Score=81.42 Aligned_cols=47 Identities=26% Similarity=0.358 Sum_probs=31.6
Q ss_pred EEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHH
Q 001501 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
+|.|+.|.|||+++-..+..++..+..+|+||||+..++..+.+.+.
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~ 47 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAE 47 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC-
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHH
Confidence 58999999999999988888877766799999999999999888543
No 98
>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=97.38 E-value=0.00078 Score=84.49 Aligned_cols=68 Identities=21% Similarity=0.140 Sum_probs=56.3
Q ss_pred CCHHHHHHHHHHhc----------CCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 391 LNASQVFAVKSVLQ----------RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~----------~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
.-..|..||+.++. .+-.||+-+.|||||.|++.++..|++. ...+||+++++..-++++.+.+...+
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 34679999988643 2468999999999999999999888754 44689999999999999999887654
No 99
>PRK14701 reverse gyrase; Provisional
Probab=97.35 E-value=0.0013 Score=88.75 Aligned_cols=67 Identities=27% Similarity=0.302 Sum_probs=54.7
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
++.+-|+.++..++...-+++++|.|||||.+...+...+... ..++||++||..-+.++.+++...
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~-g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALK-GKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhc-CCeEEEEECHHHHHHHHHHHHHHH
Confidence 4789999999999998888999999999999544333333333 348999999999999999998764
No 100
>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=97.35 E-value=0.0009 Score=81.22 Aligned_cols=48 Identities=25% Similarity=0.360 Sum_probs=42.2
Q ss_pred EEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
||+||.|+|||.+...++..++..+. ++|+++|+..-+.++.+++.+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~-~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGK-SVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 68999999999998888877777654 8999999999999999999763
No 101
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=97.34 E-value=0.0021 Score=79.71 Aligned_cols=73 Identities=21% Similarity=0.296 Sum_probs=58.3
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRl 464 (1066)
..++++-|.+||..++...-++|..|.|+|||.+.. +-.|+. ...++|++|+..-+.+..+++...++.+..+
T Consensus 11 ~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~--lpal~~--~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~ 83 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQ--VPALLL--KGLTVVISPLISLMKDQVDQLRAAGVAAAYL 83 (591)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHH--HHHHHc--CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEE
Confidence 347899999999999987789999999999998753 222332 3478999999999888888888887766555
No 102
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.32 E-value=0.0011 Score=85.42 Aligned_cols=67 Identities=18% Similarity=0.315 Sum_probs=54.1
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHH-HHHHHHHc-------CCCeEEEEcCcHHHHHHHHHHHH
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-------GQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~-iI~~Llk~-------~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
..|++-|.+|+..++...-++|++|.|||||.+... ++..|... ...++|+++|+...+.++.+++.
T Consensus 31 ~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 368999999999999888899999999999988653 44455432 12369999999999998888765
No 103
>PRK04296 thymidine kinase; Provisional
Probab=97.30 E-value=0.0005 Score=72.84 Aligned_cols=36 Identities=28% Similarity=0.480 Sum_probs=30.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcC
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1066)
.+.+|.||||+|||+.+..++..+...+ .+|++..+
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g-~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERG-MKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcC-CeEEEEec
Confidence 3689999999999999999998887765 48888743
No 104
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.29 E-value=0.0009 Score=85.31 Aligned_cols=61 Identities=18% Similarity=0.377 Sum_probs=45.3
Q ss_pred HHHHHHHHh-cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 395 Q~~AV~~aL-~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.+..|..++ +++.++|+|++|||||+.+...+..-.. ...+|+|+.||..||.++++++.+
T Consensus 9 ~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~-~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 9 VLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG-INGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC-cCCeEEEECChHHHHHHHHHHHHH
Confidence 344455555 3678999999999999998644332211 234899999999999999999864
No 105
>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=97.29 E-value=0.0011 Score=84.62 Aligned_cols=61 Identities=20% Similarity=0.456 Sum_probs=47.2
Q ss_pred HHHHHHHHh-cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 395 Q~~AV~~aL-~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.+..|..++ +++.++|+|++|||||+.+...+..... ...+|+|+.|+..||.++++|+.+
T Consensus 6 ~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 6 VLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG-IGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc-cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 344455454 4689999999999999998766554332 335899999999999999999864
No 106
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.24 E-value=0.0026 Score=79.06 Aligned_cols=71 Identities=20% Similarity=0.293 Sum_probs=56.6
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivR 463 (1066)
..+.+.|.+|+..++...-.+|.+|.|+|||.+- .+-.|.. ...+||++|+..-+.+..+++...++...-
T Consensus 24 ~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y--~lpal~~--~g~tlVisPl~sL~~dqv~~l~~~gi~~~~ 94 (607)
T PRK11057 24 QQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCY--QIPALVL--DGLTLVVSPLISLMKDQVDQLLANGVAAAC 94 (607)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHH--HHHHHHc--CCCEEEEecHHHHHHHHHHHHHHcCCcEEE
Confidence 4688999999999998888899999999999653 2333333 247999999999999888888887765543
No 107
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=97.24 E-value=0.0022 Score=68.38 Aligned_cols=57 Identities=28% Similarity=0.390 Sum_probs=41.4
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcH--HHHHHHHHHHHhcCCeEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVVR 463 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN--~AvD~L~eRL~~~gl~ivR 463 (1066)
+.++.||.|+|||||++.+++++..++.+--|+++-|. .|+++|..-....++++..
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~ 61 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYV 61 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEE
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccch
Confidence 56889999999999999999999888543345555554 5778887666555665544
No 108
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.19 E-value=0.0015 Score=73.47 Aligned_cols=76 Identities=20% Similarity=0.216 Sum_probs=62.9
Q ss_pred CCCHHHHHHHHHHhc----CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc--CCeEEE
Q 001501 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT--GLKVVR 463 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~--gl~ivR 463 (1066)
.|++-|+.|-..++. +.-+|||+..|+|||..+-..|.+.++++. +|.+.+|--.-+-+|..||... +.+|.-
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~-~vciASPRvDVclEl~~Rlk~aF~~~~I~~ 175 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGG-RVCIASPRVDVCLELYPRLKQAFSNCDIDL 175 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCC-eEEEecCcccchHHHHHHHHHhhccCCeee
Confidence 689999988777664 567999999999999999999988888876 9999999999999999999864 344544
Q ss_pred ecc
Q 001501 464 LCA 466 (1066)
Q Consensus 464 lg~ 466 (1066)
+.+
T Consensus 176 Lyg 178 (441)
T COG4098 176 LYG 178 (441)
T ss_pred Eec
Confidence 433
No 109
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=97.19 E-value=0.0017 Score=75.13 Aligned_cols=50 Identities=22% Similarity=0.413 Sum_probs=41.9
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHH-cCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
++|++|.|+|||.+....+...+. ....+|++++|+...++++.+++...
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHH
Confidence 689999999999997766655543 34569999999999999999999875
No 110
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.17 E-value=0.0023 Score=80.39 Aligned_cols=69 Identities=23% Similarity=0.319 Sum_probs=58.4
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHc---------CCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
...||.-|..+...+.. +...||.+|-|+|||.+....|.+++++ +.-||..+||+...|.++.++..+
T Consensus 108 f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 108 FEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred HHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhh
Confidence 34799999999998886 6789999999999999987777777764 455899999999999999887654
No 111
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.16 E-value=0.002 Score=81.41 Aligned_cols=65 Identities=15% Similarity=0.267 Sum_probs=48.1
Q ss_pred CHHHHHHHHHHhc----CCcEEEECCCCCcHhHHHH-HHHHHHHHcC-CCeEEEEcCcHHHHHHHHHHHHh
Q 001501 392 NASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSA-AIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 392 N~sQ~~AV~~aL~----~~l~LIqGPPGTGKTtTla-~iI~~Llk~~-~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
=+.|++.+..+.. ....++.+|.|||||..+. ..+.++...+ ..+|..|+.|+.-..++.+-|.+
T Consensus 12 y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 12 YPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 4688877766543 6789999999999996554 4444444332 35899999999988888777766
No 112
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.14 E-value=0.0015 Score=81.83 Aligned_cols=68 Identities=24% Similarity=0.307 Sum_probs=60.4
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
++-..|+-=.+..+.+.-+-|.+|.|+||||....+...+...+ ++++++-||...|.+..+||.+..
T Consensus 82 ~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kg-kr~yii~PT~~Lv~Q~~~kl~~~~ 149 (1187)
T COG1110 82 RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKG-KRVYIIVPTTTLVRQVYERLKKFA 149 (1187)
T ss_pred CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcC-CeEEEEecCHHHHHHHHHHHHHHH
Confidence 34567999999999888889999999999999999888888887 599999999999999999998753
No 113
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.13 E-value=0.011 Score=72.27 Aligned_cols=66 Identities=29% Similarity=0.439 Sum_probs=56.0
Q ss_pred CCCHHHHHHHHHHhc---CC---cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVLQ---RP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~---l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+|+..|+++++.++. ++ .-||||-=|||||.+++......+..+. ++.++|||..-|.+-.+.+.+
T Consensus 262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~-Q~ALMAPTEILA~QH~~~~~~ 333 (677)
T COG1200 262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGY-QAALMAPTEILAEQHYESLRK 333 (677)
T ss_pred CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCC-eeEEeccHHHHHHHHHHHHHH
Confidence 799999999999875 22 3599999999999999887777777765 999999999999888777654
No 114
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.12 E-value=0.0013 Score=81.17 Aligned_cols=68 Identities=31% Similarity=0.358 Sum_probs=56.7
Q ss_pred CCCHHHHHHHHHHhc-----CCcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.+-.-|..||+.+.. ++-.||.=.+|||||+|+.++|..|++.+ .+|||.+|-.|.-+++-.+.....
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHh
Confidence 456789999988753 33488888899999999999999999884 568999999999999988776554
No 115
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.08 E-value=0.002 Score=80.48 Aligned_cols=68 Identities=32% Similarity=0.395 Sum_probs=60.8
Q ss_pred CCCCCHHHHHHHHHHhcC----CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 388 LPELNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~----~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
...||..|..|+..+... ..+|+.|.+|+|||-+-..+|...+++++ .+|++.|--.-..++.+|+..
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~Gk-qvLvLVPEI~Ltpq~~~rf~~ 267 (730)
T COG1198 196 WLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGK-QVLVLVPEIALTPQLLARFKA 267 (730)
T ss_pred ccccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCC-EEEEEeccccchHHHHHHHHH
Confidence 458999999999998765 67999999999999999999999999885 999999988888888888865
No 116
>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=97.05 E-value=0.00098 Score=74.25 Aligned_cols=62 Identities=27% Similarity=0.333 Sum_probs=40.5
Q ss_pred HHHHHHHHhc-------------CCcEEEECCCCCcHhHHHHHHHHHHHHcCCC----eEEEEcCcHHHHHHHHHHHHhc
Q 001501 395 QVFAVKSVLQ-------------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG----QVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 395 Q~~AV~~aL~-------------~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~----rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
|++||...+. ..=.+|.=.+|+|||.++..++..|...... ++||++|+ ..+.+-.+.+.+.
T Consensus 2 Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 2 QLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhccc
Confidence 7777766533 2336677789999999999999888776432 49999999 5556666656543
No 117
>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=97.05 E-value=0.0016 Score=85.64 Aligned_cols=63 Identities=19% Similarity=0.389 Sum_probs=47.1
Q ss_pred HHHHHHHHh-cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 395 Q~~AV~~aL-~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.++.|..++ .+.+++|.|++||||||.+-.++...-.....+|+++-|-..||-.+++|+.+.
T Consensus 71 ~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~e 134 (1283)
T TIGR01967 71 KREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEE 134 (1283)
T ss_pred HHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHH
Confidence 345555555 478999999999999998765554432222347888999999999999998763
No 118
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.02 E-value=0.00012 Score=90.17 Aligned_cols=53 Identities=19% Similarity=0.243 Sum_probs=40.2
Q ss_pred eEEeecccCCCccccEEEEEccccCCCCCcC------------CC-CCCCceeeechhhccceEEE
Q 001501 743 IEVASVDSFQGREKDYIILSCVRSNEHQGIG------------FL-NDPRRLNVALTRARYGIVIL 795 (1066)
Q Consensus 743 V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iG------------FL-~d~RRLNVALTRAK~~LiIV 795 (1066)
+.++|+|.++|.|||+|-+.+.+....+..- +. .+++.+|||+||||+++|..
T Consensus 675 ~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~ 740 (853)
T KOG2108|consen 675 VILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFERLPSFRVETYNEDEWNFLYVAVTRAKKRLIMC 740 (853)
T ss_pred hhhHHHHhccCcccceeecccCcccccccccchhhcchhhhhhhhhhhhhheeeeecchhhhcccc
Confidence 7789999999999999999877654322111 11 24688999999999977765
No 119
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.00 E-value=0.0042 Score=79.64 Aligned_cols=62 Identities=27% Similarity=0.356 Sum_probs=45.6
Q ss_pred CCCHHHHH---HHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHH
Q 001501 390 ELNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1066)
Q Consensus 390 ~LN~sQ~~---AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eR 453 (1066)
+.-+.|.+ +|..++. ....+|++++|||||..-.. -.+......+|+|.|+|..-++++..+
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayll--p~l~~~~~~~vvI~t~T~~Lq~Ql~~~ 310 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLL--PLLAQSDQRQIIVSVPTKILQDQIMAE 310 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHH--HHHHhcCCCcEEEEeCcHHHHHHHHHH
Confidence 34578877 7777776 56788999999999975432 223332346899999999999999543
No 120
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.99 E-value=0.0047 Score=67.66 Aligned_cols=52 Identities=17% Similarity=0.166 Sum_probs=37.7
Q ss_pred CCCHHHHHHHHHHhc---CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcC
Q 001501 390 ELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1066)
.-|.....++..... .+..+|+||||||||+.+..+...+.+.+ .+++.+..
T Consensus 27 ~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~-~~v~y~~~ 81 (235)
T PRK08084 27 GDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRG-RAVGYVPL 81 (235)
T ss_pred CccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEEH
Confidence 356666777766543 35689999999999999988887776654 36666553
No 121
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=96.97 E-value=0.0023 Score=79.01 Aligned_cols=72 Identities=29% Similarity=0.288 Sum_probs=60.2
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 386 ~~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
|..-.|=..|.+.+..|| ..-+||..|-|+|||.+++.+++..++- +..||+++|||.--|.+-..++...+
T Consensus 58 p~~~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~ 130 (746)
T KOG0354|consen 58 PTNLELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYL 130 (746)
T ss_pred cCcccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhcc
Confidence 444468889999999999 8889999999999999999888776654 66799999999998887777666554
No 122
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=96.96 E-value=0.00082 Score=83.45 Aligned_cols=55 Identities=29% Similarity=0.409 Sum_probs=49.2
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl 459 (1066)
+++.+|.+|=|||||+.+...+...++.+..+||++++-+.-+.+|++|+...++
T Consensus 49 ~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l 103 (824)
T PF02399_consen 49 RGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGL 103 (824)
T ss_pred CCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCC
Confidence 7889999999999999998877777766777999999999999999999987765
No 123
>PF13173 AAA_14: AAA domain
Probab=96.90 E-value=0.0036 Score=61.79 Aligned_cols=41 Identities=22% Similarity=0.320 Sum_probs=31.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~Av 447 (1066)
+++.+|.||.|+||||++..++..+. ...+|+.+.......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRD 42 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHH
Confidence 57889999999999999999888776 334666665544333
No 124
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.85 E-value=0.006 Score=79.40 Aligned_cols=63 Identities=25% Similarity=0.238 Sum_probs=45.6
Q ss_pred CCHHHHH---HHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHH
Q 001501 391 LNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1066)
Q Consensus 391 LN~sQ~~---AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eR 453 (1066)
.-+.|.+ +|..++. +...+|.+|.|||||..-.--+..+.....++|+|.|+|..-.++|.++
T Consensus 258 ~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 258 KREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 3467777 6666665 5678899999999997532222223344556999999999999999875
No 125
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.80 E-value=0.0059 Score=71.16 Aligned_cols=55 Identities=24% Similarity=0.310 Sum_probs=37.7
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcH---HHHHHHHHHHHhcCC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSN---VAVDQLAEKISATGL 459 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN---~AvD~L~eRL~~~gl 459 (1066)
..++++.||+|+|||||++.++..++.. +..+|.+++.-. .|+++|.......++
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv 195 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGV 195 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCC
Confidence 4588999999999999999999887654 445776665322 255555543333343
No 126
>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=96.80 E-value=0.0044 Score=80.04 Aligned_cols=62 Identities=31% Similarity=0.318 Sum_probs=44.6
Q ss_pred CCHHHHH---HHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHH
Q 001501 391 LNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1066)
Q Consensus 391 LN~sQ~~---AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eR 453 (1066)
..+.|.+ +|..++. ....+|.+|.|||||..-..-+...+. ...+|+|.|+|..-.+++.++
T Consensus 246 ~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 246 YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-TEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHHHHH
Confidence 4578886 4555554 567889999999999764433333333 445999999999988888764
No 127
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=96.80 E-value=0.011 Score=80.03 Aligned_cols=62 Identities=23% Similarity=0.292 Sum_probs=46.5
Q ss_pred CCHHHHHHHHHHhcC--CcEEEECCCCC-cHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHH
Q 001501 391 LNASQVFAVKSVLQR--PISLIQGPPGT-GKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~--~l~LIqGPPGT-GKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eR 453 (1066)
.+..|.+|+..+++. .+.+|+|+.|. |+++++..++ .+++....+|.++|||++|+..|.+.
T Consensus 414 ~~~~~~~av~~~~q~~~~~~il~g~~G~aG~g~~l~~l~-~~a~~~G~~V~glAPt~~a~~~L~~~ 478 (1747)
T PRK13709 414 RTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELV-MMAREQGREVQILAADRRSQMNLKQD 478 (1747)
T ss_pred cchhhhHHHHHHhcccCcEEEEEcCCcchHHHHHHHHHH-HHHHhCCcEEEEEeCcHHHHHHHHHh
Confidence 456889999988874 57889988884 6665555544 44445555999999999999988764
No 128
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=96.74 E-value=0.0096 Score=69.34 Aligned_cols=59 Identities=22% Similarity=0.385 Sum_probs=46.1
Q ss_pred HHHHHHHHhcCC--cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 395 QVFAVKSVLQRP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 395 Q~~AV~~aL~~~--l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
|.+|+..+.... .++|.+|+|+|||.+....+. . ...+.++++|++..+++..+++.+.
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l---~-~~~~~~~~~P~~aL~~~~~~~~~~~ 62 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLL---H-GENDTIALYPTNALIEDQTEAIKEF 62 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHH---H-cCCCEEEEeChHHHHHHHHHHHHHH
Confidence 888999888744 689999999999986543322 2 2347899999999999998887664
No 129
>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=96.72 E-value=0.0046 Score=78.24 Aligned_cols=67 Identities=18% Similarity=0.136 Sum_probs=49.2
Q ss_pred CCHHHHHHHHHHhcCC-cEEEECCCCCcHhHHHHHHHHHHHHc--CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 391 LNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~~-l~LIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.++-|.+++..++... ..+++.|.|||||.+++.-+..+... ...++++++||..-|+++.+.+.+.
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHH
Confidence 5789999999998754 78889999999998664222222111 2335666889999999999987664
No 130
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=96.70 E-value=0.005 Score=59.80 Aligned_cols=55 Identities=29% Similarity=0.445 Sum_probs=38.7
Q ss_pred HHHHHHHHHHhc---CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH
Q 001501 393 ASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1066)
Q Consensus 393 ~sQ~~AV~~aL~---~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD 448 (1066)
+.+..++...+. ....+|.||||||||+++..++..+...+ .+++.+..+..+..
T Consensus 4 ~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~-~~v~~~~~~~~~~~ 61 (151)
T cd00009 4 EEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPG-APFLYLNASDLLEG 61 (151)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCC-CCeEEEehhhhhhh
Confidence 445556655553 46789999999999998888887776443 46777766555443
No 131
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.67 E-value=0.0084 Score=70.38 Aligned_cols=56 Identities=21% Similarity=0.241 Sum_probs=37.2
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEE-EEcCc--HHHHHHHHHHHHhcCCeE
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVL-VCAPS--NVAVDQLAEKISATGLKV 461 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rIL-V~ApS--N~AvD~L~eRL~~~gl~i 461 (1066)
.+.++.||.|+|||||++.++.++... ...+|+ +.+-| ..|++++.......++++
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv 236 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPV 236 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcce
Confidence 468899999999999999999877643 233555 55555 456666554443344443
No 132
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.67 E-value=0.0088 Score=67.40 Aligned_cols=36 Identities=28% Similarity=0.472 Sum_probs=29.3
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcC
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~Ap 442 (1066)
+.+|.||.|+|||||++.++.++... +..+|.+++.
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 67889999999999999999988876 4347666553
No 133
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=96.67 E-value=0.0074 Score=71.21 Aligned_cols=122 Identities=23% Similarity=0.255 Sum_probs=84.2
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc-CC---eEEEecc
Q 001501 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GL---KVVRLCA 466 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~-gl---~ivRlg~ 466 (1066)
--.-|...+..++.. .+||.=|-|=|||.+++.++...+...+++||++|||.-.|.+=++.+.+. ++ +++.+
T Consensus 16 ~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~l-- 92 (542)
T COG1111 16 PRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAAL-- 92 (542)
T ss_pred HHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeee--
Confidence 345788888877755 789999999999999998887665554449999999999999888776552 22 11111
Q ss_pred ccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCcc
Q 001501 467 KSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1066)
Q Consensus 467 ~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~ 546 (1066)
.++.+... ..+....++|+++|.....+..
T Consensus 93 ---------------------------------------tGev~p~~-----------R~~~w~~~kVfvaTPQvveNDl 122 (542)
T COG1111 93 ---------------------------------------TGEVRPEE-----------REELWAKKKVFVATPQVVENDL 122 (542)
T ss_pred ---------------------------------------cCCCChHH-----------HHHHHhhCCEEEeccHHHHhHH
Confidence 12222111 1233456889999977655443
Q ss_pred ----ccCCCCCEEEEECCCCCCh
Q 001501 547 ----LANFRFRQVLIDESTQATE 565 (1066)
Q Consensus 547 ----L~~~~Fd~VIIDEAsQ~tE 565 (1066)
+.-..+.+||+|||-.++-
T Consensus 123 ~~Grid~~dv~~lifDEAHRAvG 145 (542)
T COG1111 123 KAGRIDLDDVSLLIFDEAHRAVG 145 (542)
T ss_pred hcCccChHHceEEEechhhhccC
Confidence 3334799999999988875
No 134
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.67 E-value=0.01 Score=70.75 Aligned_cols=53 Identities=30% Similarity=0.406 Sum_probs=35.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEE-EcCcH--HHHHHHHHHHHhcCCe
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV-CAPSN--VAVDQLAEKISATGLK 460 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV-~ApSN--~AvD~L~eRL~~~gl~ 460 (1066)
+.++.|++|+|||||++.++.+|.+.+. +|++ .+.+. .|.+++..-....++.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~g~-kV~lV~~D~~R~aa~eQL~~la~~~gvp 152 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKKGL-KVGLVAADTYRPAAYDQLKQLAEKIGVP 152 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEecCCCCCHHHHHHHHHHHHHcCCc
Confidence 5788999999999999999988877655 5554 44443 3445554433333433
No 135
>PRK12377 putative replication protein; Provisional
Probab=96.64 E-value=0.0082 Score=66.41 Aligned_cols=49 Identities=31% Similarity=0.439 Sum_probs=36.1
Q ss_pred CHHHHHHHHHHhc--------CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 392 NASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 392 N~sQ~~AV~~aL~--------~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
++.|+.|+..+.. ....+|+||||||||+++.+++..+.+.+. +|++++
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~-~v~~i~ 136 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGR-SVIVVT 136 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CeEEEE
Confidence 4567666654421 245789999999999999999999987654 565554
No 136
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=96.60 E-value=0.0076 Score=74.02 Aligned_cols=45 Identities=24% Similarity=0.484 Sum_probs=39.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
...+|.|-+|||||+.|..+...+ +.+|+++|..||.||..+|..
T Consensus 72 s~~~itG~AGsGKst~i~~l~~~l------~cvitg~T~vAAqN~~~~L~~ 116 (828)
T PHA03311 72 SVYLITGTAGAGKSTSIQTLNENL------DCVITGATRVAAQNLSAKLSR 116 (828)
T ss_pred EEEEEecCCCCChHHHHHHHHHhc------CEEEEcchHHHHHhhhccccc
Confidence 458999999999999998887766 688999999999999988763
No 137
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=96.59 E-value=0.032 Score=70.55 Aligned_cols=60 Identities=23% Similarity=0.343 Sum_probs=44.3
Q ss_pred CHHHHH---HHHHHhcC------CcEEEECCCCCcHhHHHHHHHHH--HHHcCCCeEEEEcCcHHHHHHHHHH
Q 001501 392 NASQVF---AVKSVLQR------PISLIQGPPGTGKTVTSAAIVYH--MAKQGQGQVLVCAPSNVAVDQLAEK 453 (1066)
Q Consensus 392 N~sQ~~---AV~~aL~~------~l~LIqGPPGTGKTtTla~iI~~--Llk~~~~rILV~ApSN~AvD~L~eR 453 (1066)
=+.|.+ +|..++.. ...+|.+|.|||||.- +++-. +.....++|+|-|.|..--++|.+|
T Consensus 27 R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTla--YLlPai~~A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 27 RAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLS--YLLAGIPIARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred CHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHH--HHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhh
Confidence 357776 77777765 6789999999999963 33322 2233456999999999999999876
No 138
>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=96.55 E-value=0.0038 Score=64.95 Aligned_cols=52 Identities=27% Similarity=0.422 Sum_probs=40.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
.++|.||||||||+++..+++..++.+. ++++++.. ...+++.+++...+.+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~-~v~~~s~e-~~~~~~~~~~~~~g~~ 52 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARGE-PGLYVTLE-ESPEELIENAESLGWD 52 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCCC-cEEEEECC-CCHHHHHHHHHHcCCC
Confidence 3689999999999999999998887664 78888764 4566777777665543
No 139
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.50 E-value=0.016 Score=67.75 Aligned_cols=55 Identities=25% Similarity=0.430 Sum_probs=39.8
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEE-EEcCcHH--HHHHHHHHHHhcCCeE
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL-VCAPSNV--AVDQLAEKISATGLKV 461 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rIL-V~ApSN~--AvD~L~eRL~~~gl~i 461 (1066)
...+|.||+|+|||||++.+...+...+. +|+ +.+-+.. |++++.......++.+
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~Gk-kVglI~aDt~RiaAvEQLk~yae~lgipv 299 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFEV 299 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCC-cEEEEecCCcchHHHHHHHHHhhhcCCcE
Confidence 46789999999999999999998877665 554 4554554 7777776544444443
No 140
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.49 E-value=0.01 Score=65.46 Aligned_cols=59 Identities=27% Similarity=0.380 Sum_probs=43.1
Q ss_pred CCHHHHHHHHHHhc------C--CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHH
Q 001501 391 LNASQVFAVKSVLQ------R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~------~--~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
.++.|+.|+..+.. . ...++.|+||||||+++..++.+|.+.+. +|++++ +.++.+++.
T Consensus 77 ~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~-~v~~it-----~~~l~~~l~ 143 (244)
T PRK07952 77 ECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGK-SVLIIT-----VADIMSAMK 143 (244)
T ss_pred CCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEEE-----HHHHHHHHH
Confidence 35677777766543 1 46899999999999999999999988754 777774 344555443
No 141
>COG4889 Predicted helicase [General function prediction only]
Probab=96.47 E-value=0.015 Score=71.81 Aligned_cols=75 Identities=24% Similarity=0.302 Sum_probs=51.8
Q ss_pred CCCCHHHHHHHHHHhc-----CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHH-HHhc--CCe
Q 001501 389 PELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK-ISAT--GLK 460 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eR-L~~~--gl~ 460 (1066)
.++-+.|+.|+..++. .+=-||-+ +|||||.|...|...|.+ .+||.++||-...-+-+.. -.+. .+.
T Consensus 160 kk~R~hQq~Aid~a~~~F~~n~RGkLIMA-cGTGKTfTsLkisEala~---~~iL~LvPSIsLLsQTlrew~~~~~l~~~ 235 (1518)
T COG4889 160 KKPRPHQQTAIDAAKEGFSDNDRGKLIMA-CGTGKTFTSLKISEALAA---ARILFLVPSISLLSQTLREWTAQKELDFR 235 (1518)
T ss_pred CCCChhHHHHHHHHHhhcccccCCcEEEe-cCCCccchHHHHHHHHhh---hheEeecchHHHHHHHHHHHhhccCccce
Confidence 3688999999999874 22245555 799999999988887776 5999999998765443332 2222 334
Q ss_pred EEEeccc
Q 001501 461 VVRLCAK 467 (1066)
Q Consensus 461 ivRlg~~ 467 (1066)
.+.+++.
T Consensus 236 a~aVcSD 242 (1518)
T COG4889 236 ASAVCSD 242 (1518)
T ss_pred eEEEecC
Confidence 4555543
No 142
>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=96.45 E-value=0.026 Score=62.37 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=27.6
Q ss_pred CHHHHHHHHHHh---c--CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 392 NASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 392 N~sQ~~AV~~aL---~--~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
...+++|+.... . .++.+|.||+|+|||+++..++..+
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l 67 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRL 67 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhc
Confidence 455666666542 2 4478999999999999988776554
No 143
>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=96.44 E-value=0.027 Score=66.80 Aligned_cols=56 Identities=29% Similarity=0.471 Sum_probs=37.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcH--HHHHHHHHHHHhcCCeE
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKV 461 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN--~AvD~L~eRL~~~gl~i 461 (1066)
.+.++.|++|+|||||++.++.++.+.+.+-.||++-+. .|+++|...-...++.+
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~ 158 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPF 158 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeE
Confidence 357899999999999999999888776653344555554 45666544333334443
No 144
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.44 E-value=0.018 Score=73.18 Aligned_cols=65 Identities=15% Similarity=0.208 Sum_probs=50.0
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHH-HHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY-HMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~-~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+|.+.|.+++-.++...=.+.+.+.|||||.+.+.-++ .++. + ..++|++||..-|.+..+-+..
T Consensus 92 ~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~-g-~~v~IVTpTrELA~Qdae~m~~ 157 (970)
T PRK12899 92 DMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALT-G-KPVHLVTVNDYLAQRDCEWVGS 157 (970)
T ss_pred CCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhh-c-CCeEEEeCCHHHHHHHHHHHHH
Confidence 47899999998877655589999999999988765444 3333 3 3589999999988888776654
No 145
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.44 E-value=0.0042 Score=81.61 Aligned_cols=61 Identities=18% Similarity=0.363 Sum_probs=44.5
Q ss_pred HHHHHHHh-cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 396 VFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 396 ~~AV~~aL-~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
++.|..++ .+.+++|.|++||||||.+-.++..+-.....+|.++-|-..|+-++++|+.+
T Consensus 79 r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~ 140 (1294)
T PRK11131 79 KQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAE 140 (1294)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHH
Confidence 34454444 57899999999999999766555433222234688888999999999999875
No 146
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=96.42 E-value=0.044 Score=66.97 Aligned_cols=69 Identities=26% Similarity=0.272 Sum_probs=53.2
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHH-HHHHHHHHH--cCCCe-EEEEcCcHHHHHHHHHHHHhc
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAK--QGQGQ-VLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTl-a~iI~~Llk--~~~~r-ILV~ApSN~AvD~L~eRL~~~ 457 (1066)
...++-|..||-.++...=.+++++.|||||..- .-++..+.. ..... .||++||...|.++.+-+...
T Consensus 50 ~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~ 122 (513)
T COG0513 50 EEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKL 122 (513)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHH
Confidence 4678999999999999888999999999997543 334444442 22212 899999999999999877653
No 147
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.40 E-value=0.021 Score=70.88 Aligned_cols=71 Identities=24% Similarity=0.185 Sum_probs=54.2
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh----cCCeEEEe
Q 001501 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA----TGLKVVRL 464 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~----~gl~ivRl 464 (1066)
..+-|..++-.++... +.+...|+|||.+.+..++.....+ ..++|+|||..-|.+..+.+.. .++++.-+
T Consensus 104 p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G-~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i 178 (656)
T PRK12898 104 HFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAG-LPVHVITVNDYLAERDAELMRPLYEALGLTVGCV 178 (656)
T ss_pred CChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcC-CeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEE
Confidence 4578999988888766 8899999999998876665544444 4899999999999888877654 35555443
No 148
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.30 E-value=0.0084 Score=74.72 Aligned_cols=25 Identities=28% Similarity=0.327 Sum_probs=20.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
.+|+.||+|||||+++..+...|.-
T Consensus 40 AyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 40 AYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4689999999999998887776653
No 149
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=96.26 E-value=0.029 Score=70.50 Aligned_cols=67 Identities=24% Similarity=0.264 Sum_probs=49.9
Q ss_pred CCCHHHHHHHH---HHhcC-CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVK---SVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~---~aL~~-~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+.-+.|++.+. .++.+ ...+|.+|-|||||......+.......+.+|++++.|+..-+++.++...
T Consensus 15 ~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 15 EPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcc
Confidence 34567776554 44554 459999999999998766555444444456999999999999999998754
No 150
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.25 E-value=0.02 Score=68.28 Aligned_cols=48 Identities=31% Similarity=0.391 Sum_probs=33.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHH-HcCCCeEEEE-cCcHH--HHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVC-APSNV--AVDQLAEK 453 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Ll-k~~~~rILV~-ApSN~--AvD~L~eR 453 (1066)
.+.++.||+|+|||||++.++..+. .....+|+++ +.+.. |++++...
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~ 273 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTY 273 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHH
Confidence 4678899999999999999998887 4444465544 44533 44555443
No 151
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.21 E-value=0.048 Score=70.65 Aligned_cols=70 Identities=24% Similarity=0.378 Sum_probs=51.7
Q ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEcCcHHHHHHHHHHH-HhcCCe
Q 001501 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKI-SATGLK 460 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AvD~L~eRL-~~~gl~ 460 (1066)
.|-+.|..++..++.. +-+||-=.-|.|||-.+..++..++..+ ..+|||++|+.-.- +-.+.+ .+.++.
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~-QW~~El~~kF~l~ 225 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQH-QWLVEMLRRFNLR 225 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHH-HHHHHHHHHhCCC
Confidence 6889999999888763 3478888999999999988888877664 36899999985543 333333 334444
No 152
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.13 E-value=0.023 Score=72.28 Aligned_cols=63 Identities=17% Similarity=0.299 Sum_probs=50.2
Q ss_pred HHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 395 QVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 395 Q~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.+..|..++. +.+++|.|++|+||||-+-..++..--...++|.++=|-..||-.+++|+.+.
T Consensus 54 ~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAee 117 (845)
T COG1643 54 VRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEE 117 (845)
T ss_pred HHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHH
Confidence 4455555554 78999999999999999887766554445568999999999999999999863
No 153
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.10 E-value=0.012 Score=72.32 Aligned_cols=25 Identities=28% Similarity=0.359 Sum_probs=21.4
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
..|++||+|||||+++..+...|.-
T Consensus 40 A~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 40 AYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4699999999999998888877754
No 154
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.09 E-value=0.011 Score=70.84 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=20.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
..|+.||||||||+++..++..|..
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCc
Confidence 3699999999999998888776644
No 155
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.08 E-value=0.011 Score=73.44 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=20.8
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
.|++||+|+|||+++..++..|.-
T Consensus 41 yLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 41 YLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred EEEECCCCCCHHHHHHHHHHhhhh
Confidence 689999999999998888777654
No 156
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.04 E-value=0.015 Score=70.86 Aligned_cols=25 Identities=28% Similarity=0.353 Sum_probs=20.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
..|++||||||||+++..++..|.-
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (509)
T PRK14958 40 AYLFTGTRGVGKTTISRILAKCLNC 64 (509)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4699999999999988877776653
No 157
>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=95.98 E-value=0.03 Score=70.45 Aligned_cols=64 Identities=16% Similarity=0.236 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHHHh-cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHH
Q 001501 390 ELNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL-~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
.+-+.|.+++.... ..+ .+++-+.|||||.|.+.-++.... ....|+|+|||..-|.+.++.+.
T Consensus 68 glrpydVQlig~l~l~~G-~Iaem~TGeGKTLta~Lpa~l~aL-~g~~V~VVTpn~yLA~Rdae~m~ 132 (762)
T TIGR03714 68 GMFPYDVQVLGAIVLHQG-NIAEMKTGEGKTLTATMPLYLNAL-TGKGAMLVTTNDYLAKRDAEEMG 132 (762)
T ss_pred CCCccHHHHHHHHHhcCC-ceeEecCCcchHHHHHHHHHHHhh-cCCceEEeCCCHHHHHHHHHHHH
Confidence 45556666665443 344 699999999999987655433222 33479999999998888877764
No 158
>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=95.96 E-value=0.0058 Score=58.62 Aligned_cols=43 Identities=30% Similarity=0.570 Sum_probs=31.2
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD 448 (1066)
....+|.||||||||+++..++..+.... ..+++++.+.....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~~~~~~~~~ 44 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG-GGVIYIDGEDILEE 44 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC-CCEEEECCEEcccc
Confidence 35689999999999999998887765543 24666665554433
No 159
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=95.92 E-value=0.06 Score=69.95 Aligned_cols=72 Identities=15% Similarity=0.203 Sum_probs=56.0
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRl 464 (1066)
..|.+-|++||..++...-+|+..|.|+|||.+-. +-.|+. ...+||++|+...+..-..+|...+++...+
T Consensus 459 ~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQ--LPAL~~--~GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L 530 (1195)
T PLN03137 459 HSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQ--LPALIC--PGITLVISPLVSLIQDQIMNLLQANIPAASL 530 (1195)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHH--HHHHHc--CCcEEEEeCHHHHHHHHHHHHHhCCCeEEEE
Confidence 47889999999999998889999999999996532 222332 2479999999999876677777777765544
No 160
>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=95.90 E-value=0.021 Score=64.06 Aligned_cols=56 Identities=36% Similarity=0.518 Sum_probs=40.4
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc-C--cHHHHHHHHHHHHhcCCeEE
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-P--SNVAVDQLAEKISATGLKVV 462 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A-p--SN~AvD~L~eRL~~~gl~iv 462 (1066)
.+.++.||+|+|||||++.++..+.+.+. +|++++ - ...|.+++.......++.++
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~-~V~li~~D~~r~~a~~ql~~~~~~~~i~~~ 131 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGK-SVLLAAGDTFRAAAIEQLEEWAKRLGVDVI 131 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCC-EEEEEeCCCCCHHHHHHHHHHHHhCCeEEE
Confidence 35667799999999999999988876654 776655 3 34556777766666665554
No 161
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=95.89 E-value=0.08 Score=63.65 Aligned_cols=36 Identities=22% Similarity=0.151 Sum_probs=27.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1066)
+..+|.|++|||||+++.++...+... +..+|+.++
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~ 178 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS 178 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 457899999999999998887777654 344666554
No 162
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.82 E-value=0.027 Score=65.20 Aligned_cols=40 Identities=18% Similarity=0.370 Sum_probs=30.9
Q ss_pred CEEEEECCCCCChhh--hhhhccccCceEEEeCCccCCCceee
Q 001501 553 RQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIM 593 (1066)
Q Consensus 553 d~VIIDEAsQ~tE~e--~LIpL~~~~krlILVGD~~QLpPvv~ 593 (1066)
.+++|||....+-.+ .++|.+ ....++|||-.-.=|.+..
T Consensus 106 tiLflDEIHRfnK~QQD~lLp~v-E~G~iilIGATTENPsF~l 147 (436)
T COG2256 106 TILFLDEIHRFNKAQQDALLPHV-ENGTIILIGATTENPSFEL 147 (436)
T ss_pred eEEEEehhhhcChhhhhhhhhhh-cCCeEEEEeccCCCCCeee
Confidence 468999998888754 677775 4578999999888766643
No 163
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.82 E-value=0.13 Score=63.59 Aligned_cols=65 Identities=15% Similarity=0.098 Sum_probs=53.5
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
-.+.+++-..+.+..+++..|=|.|||+++..++..|+.....+|+++|+....+.++.+++...
T Consensus 175 ~~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~ 239 (752)
T PHA03333 175 LREIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETV 239 (752)
T ss_pred HHHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHH
Confidence 35667777777899999999999999999987777776633469999999999999998887643
No 164
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=95.82 E-value=0.049 Score=70.10 Aligned_cols=68 Identities=22% Similarity=0.326 Sum_probs=58.7
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHH-HHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTl-a~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.|=..|.+|++.+.....+||+-|.|||||-+- .-|+.++++....+-|++-|||.-|..=++|+.+.
T Consensus 70 ~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~ 138 (851)
T COG1205 70 RLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLREL 138 (851)
T ss_pred cccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHH
Confidence 466789999999998889999999999999764 56778888888889999999999998888887654
No 165
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.78 E-value=0.053 Score=64.98 Aligned_cols=35 Identities=23% Similarity=0.180 Sum_probs=28.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1066)
..+|.||||||||+.+..+...+.+.. ..+|+.++
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~ 167 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT 167 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 589999999999999998888887753 34677665
No 166
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.77 E-value=0.026 Score=62.73 Aligned_cols=51 Identities=27% Similarity=0.314 Sum_probs=37.8
Q ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
..+..+++|+..+.. ..-.++.||||||||++++++...|++.+. +|++++
T Consensus 83 ~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~-sv~f~~ 140 (254)
T COG1484 83 FQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGI-SVLFIT 140 (254)
T ss_pred CCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEEE
Confidence 344556666655532 346789999999999999999999995444 777776
No 167
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=95.73 E-value=0.011 Score=66.24 Aligned_cols=27 Identities=44% Similarity=0.615 Sum_probs=23.1
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
-+..|.+||||||||+|+..+..+|.-
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 467999999999999999888877743
No 168
>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=95.73 E-value=0.018 Score=62.40 Aligned_cols=54 Identities=31% Similarity=0.582 Sum_probs=40.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
..++||.|+||||||+.+..+++.-+++ +. +++.++..... +++.+++...+.+
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge-~vlyvs~ee~~-~~l~~~~~s~g~d 73 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGE-KVLYVSFEEPP-EELIENMKSFGWD 73 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT---EEEEESSS-H-HHHHHHHHTTTS-
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC-cEEEEEecCCH-HHHHHHHHHcCCc
Confidence 5679999999999999999998887777 65 78888864444 7788887776543
No 169
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.69 E-value=0.018 Score=71.03 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=20.7
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
.+|+.||+|||||+++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 468999999999999888887665
No 170
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.63 E-value=0.016 Score=73.56 Aligned_cols=25 Identities=24% Similarity=0.286 Sum_probs=21.1
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
.+|+.||||||||+++..++..|..
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhccC
Confidence 4689999999999998888877653
No 171
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.59 E-value=0.035 Score=63.67 Aligned_cols=68 Identities=24% Similarity=0.185 Sum_probs=57.1
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHH-HHHHHHHHcC-CCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla-~iI~~Llk~~-~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+.-|++||=.++...-++.-+--|+|||-+-+ =|+..|+..+ .-..||+|||..-|-+|.+-....
T Consensus 83 ~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~L 152 (476)
T KOG0330|consen 83 KPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEAL 152 (476)
T ss_pred CCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHh
Confidence 5678999999999999999999999999997654 5667777763 346999999999999999887654
No 172
>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=95.59 E-value=0.034 Score=58.49 Aligned_cols=45 Identities=31% Similarity=0.519 Sum_probs=33.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
..-.+|.||||||||++++.++..+++.+. +++.+. +.+|.++|.
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~-~v~f~~-----~~~L~~~l~ 91 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANEAIRKGY-SVLFIT-----ASDLLDELK 91 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEE-----HHHHHHHHH
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHHhccCCc-ceeEee-----cCceecccc
Confidence 345789999999999999999999998654 677766 345666554
No 173
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=95.58 E-value=0.18 Score=66.77 Aligned_cols=154 Identities=10% Similarity=0.013 Sum_probs=92.9
Q ss_pred CCCEEEEECCCCCChhhh--hhhccccCceEEEeCCccCCCceeecHHHHhhc-ch---HHHHHHHHHcCCcceEeeeee
Q 001501 551 RFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAG-LA---QSLFERLVLLGLKPIRLQVQY 624 (1066)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~g-l~---~SLFeRL~~~g~~~i~L~~qY 624 (1066)
+-..|+|||+++.+..|. +-.|...+++|++++|.+|..+.. .. .... |. ..|.+-....+.+...+..+|
T Consensus 185 ~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~~~-~~--~~~~LF~~s~~~L~~la~~~~i~v~~~~~~~ 261 (1076)
T TIGR02774 185 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAYKS-SF--SEGNLYQASVKFLHDLAQKYQTKAEFISSTH 261 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCcccccc-CC--CcccchHHHHHHHHHHHHHcCCCcccCcccc
Confidence 567899999999998764 334445788999999998854200 00 0000 11 222222223356666666889
Q ss_pred ccCCCCCCccccccccCcccccccccccccCCCCCCC--CCC-CCCeEEEEecCceeecccCCCcCCHHHHHHHHHHHHH
Q 001501 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW--PVP-NRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTT 701 (1066)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~--p~~-~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~ 701 (1066)
|.+++|..+.+.++-...... .++ ... ...+.++.. ..-..|++.|...|.+
T Consensus 262 R~~~~L~~Le~~~~~~~~~~~-------------~~~~~~~~~~~~I~i~~a------------~n~~~Eve~va~~I~~ 316 (1076)
T TIGR02774 262 ESKDSFDKLSRLLEASHDFSE-------------LALDLDDKDKDNLTIWSC------------LTQKEEVEHVARSIRQ 316 (1076)
T ss_pred ccCHHHHHHHHHHhhcccCCc-------------ccccCCCCCCCceEEEEc------------CCHHHHHHHHHHHHHH
Confidence 998888777653321100000 000 000 011222221 1125799999999999
Q ss_pred HHHCCCCCCcEEEEecchhH-HHHHHHHHHhc
Q 001501 702 FLRSGVVPSQIGVITPYEGQ-RAYIVNYMSRN 732 (1066)
Q Consensus 702 Ll~~gv~~~dIgIITPY~aQ-v~~L~~~L~~~ 732 (1066)
|++.|+.++||+|+++...+ ...|...+.+.
T Consensus 317 lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~~~ 348 (1076)
T TIGR02774 317 KLYEGYRYKDILVLLGDVDSYQLQLGKIFDQY 348 (1076)
T ss_pred HHHcCCChhheEEEcCCHHHHHHHHHHHHhhc
Confidence 99889999999999998777 66777776653
No 174
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=95.58 E-value=0.021 Score=65.00 Aligned_cols=39 Identities=18% Similarity=0.318 Sum_probs=26.1
Q ss_pred CCEEEEECCCCCChhh--hhhhccccCceEEEeCCccCCCce
Q 001501 552 FRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPV 591 (1066)
Q Consensus 552 Fd~VIIDEAsQ~tE~e--~LIpL~~~~krlILVGD~~QLpPv 591 (1066)
=.+++|||.-..+..+ +++|.+ .+.-++|+|-.-.-|.+
T Consensus 223 kTilFiDEiHRFNksQQD~fLP~V-E~G~I~lIGATTENPSF 263 (554)
T KOG2028|consen 223 KTILFIDEIHRFNKSQQDTFLPHV-ENGDITLIGATTENPSF 263 (554)
T ss_pred eeEEEeHHhhhhhhhhhhccccee-ccCceEEEecccCCCcc
Confidence 3567899977766643 567765 35678888887664443
No 175
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.55 E-value=0.052 Score=65.72 Aligned_cols=37 Identities=30% Similarity=0.418 Sum_probs=29.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1066)
..+.+|.||.|+||||++..++..+...+ ..+|.+++
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 45788899999999999999998877653 34666554
No 176
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.55 E-value=0.04 Score=66.99 Aligned_cols=26 Identities=35% Similarity=0.492 Sum_probs=21.5
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..|+.||||||||+++..++..|...
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 35999999999999988887777643
No 177
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=95.55 E-value=0.0093 Score=73.11 Aligned_cols=58 Identities=24% Similarity=0.212 Sum_probs=45.0
Q ss_pred CCCCHHHHHHHHH----Hhc--CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH
Q 001501 389 PELNASQVFAVKS----VLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~----aL~--~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD 448 (1066)
..||++|+..... +.+ .+++. .|.+|||||+..-+++..+... ...++.+|.|+.|+-
T Consensus 116 ~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l~~t~~~~~~~~-g~~~~~v~~s~ia~~ 179 (540)
T KOG0987|consen 116 KKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYLLKTLIAALRSR-GKIVLNVASSGIAAL 179 (540)
T ss_pred hhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHHhcC-CceEEEeeecchhhh
Confidence 3699999976662 223 34555 8999999999999999888777 457888898888874
No 178
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.54 E-value=0.085 Score=63.32 Aligned_cols=35 Identities=31% Similarity=0.475 Sum_probs=28.4
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
...+|.||+|+|||+.+..+...+...+ .+|+.+.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~-~~v~yi~ 176 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESG-GKILYVR 176 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcC-CCEEEee
Confidence 4578999999999999998888887654 4676665
No 179
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.49 E-value=0.035 Score=63.71 Aligned_cols=55 Identities=31% Similarity=0.436 Sum_probs=39.2
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc-CcH--HHHHHHHHHHHhcCCeEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PSN--VAVDQLAEKISATGLKVV 462 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A-pSN--~AvD~L~eRL~~~gl~iv 462 (1066)
+.+|.||+|+|||||++.++..+...+. +|++++ .+. .|++++.......++.++
T Consensus 116 vi~lvGpnGsGKTTt~~kLA~~l~~~g~-~V~Li~~D~~r~~a~eql~~~a~~~~i~~~ 173 (318)
T PRK10416 116 VILVVGVNGVGKTTTIGKLAHKYKAQGK-KVLLAAGDTFRAAAIEQLQVWGERVGVPVI 173 (318)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHhcCC-eEEEEecCccchhhHHHHHHHHHHcCceEE
Confidence 5778999999999999999988876654 666654 443 356776655555555544
No 180
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=95.46 E-value=0.08 Score=55.44 Aligned_cols=38 Identities=24% Similarity=0.302 Sum_probs=32.5
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1066)
+++..|.+++|.|||+.+..++...+..+. +|+++=|-
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~-~v~ivQFl 42 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGK-KVGVIQFI 42 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEEe
Confidence 578899999999999999999998888776 88888543
No 181
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.41 E-value=0.023 Score=70.20 Aligned_cols=25 Identities=24% Similarity=0.361 Sum_probs=20.9
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
..+|+.||||||||+++..++..|.
T Consensus 38 HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 38 HAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhC
Confidence 3569999999999999888777664
No 182
>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=95.37 E-value=0.026 Score=63.05 Aligned_cols=50 Identities=22% Similarity=0.419 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
.+.+.|.+++..++. .++++|.||+|+||||++..++..+.. ...+|+.+
T Consensus 63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~-~~~~iiti 114 (264)
T cd01129 63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNT-PEKNIITV 114 (264)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCC-CCCeEEEE
Confidence 467889998887765 578999999999999999888877643 23355544
No 183
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=95.34 E-value=0.24 Score=64.33 Aligned_cols=71 Identities=25% Similarity=0.368 Sum_probs=55.0
Q ss_pred CCCHHHHHHHHHHhc---C-Cc--EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHH----HHHHHHhcCC
Q 001501 390 ELNASQVFAVKSVLQ---R-PI--SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ----LAEKISATGL 459 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~-~l--~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~----L~eRL~~~gl 459 (1066)
+-++.|..||..+.. + .+ -||+|--|=|||-++...+...+..+ ++|.|++||-.-|.+ +.+|.....+
T Consensus 594 eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~G-KQVAvLVPTTlLA~QHy~tFkeRF~~fPV 672 (1139)
T COG1197 594 EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDG-KQVAVLVPTTLLAQQHYETFKERFAGFPV 672 (1139)
T ss_pred cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCC-CeEEEEcccHHhHHHHHHHHHHHhcCCCe
Confidence 578999999998864 2 22 49999999999999888777666655 599999999999875 4555555544
Q ss_pred eE
Q 001501 460 KV 461 (1066)
Q Consensus 460 ~i 461 (1066)
+|
T Consensus 673 ~I 674 (1139)
T COG1197 673 RI 674 (1139)
T ss_pred eE
Confidence 44
No 184
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=95.33 E-value=0.07 Score=65.29 Aligned_cols=25 Identities=8% Similarity=-0.000 Sum_probs=15.8
Q ss_pred CCCCCCCCCCCCCCCCCCCCcCCCC
Q 001501 976 PSLENSNSQPSVGGPLTQPGFVNNM 1000 (1066)
Q Consensus 976 ~~~~~~~~~~~~~~~~~~~~~~~~~ 1000 (1066)
|-...|-+-+-+-.||+-.-...-+
T Consensus 611 P~gLkpKK~~k~e~~Mrr~nW~kI~ 635 (1102)
T KOG1924|consen 611 PFGLKPKKVYKPEVPMRRFNWSKIV 635 (1102)
T ss_pred CCCCCccccCCCCCccccCCccccC
Confidence 4344466667777888777665444
No 185
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=95.33 E-value=0.024 Score=62.13 Aligned_cols=54 Identities=24% Similarity=0.400 Sum_probs=42.5
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
..+++|.||||||||+.+..+++.-++.+. ++++++.. ...+++.+++...+.+
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~~~~~ge-~~lyvs~e-e~~~~i~~~~~~~g~~ 74 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE-PGIYVALE-EHPVQVRRNMAQFGWD 74 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCC-cEEEEEee-CCHHHHHHHHHHhCCC
Confidence 457999999999999999998887776654 88888854 5667788887766553
No 186
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=95.30 E-value=0.022 Score=60.77 Aligned_cols=37 Identities=32% Similarity=0.562 Sum_probs=28.9
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+++.+|.||+|+||||++..++..+......+|+..-
T Consensus 1 ~GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 4688999999999999999888877655444666544
No 187
>PRK08116 hypothetical protein; Validated
Probab=95.28 E-value=0.06 Score=60.30 Aligned_cols=34 Identities=32% Similarity=0.419 Sum_probs=28.7
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
..+|+|+||||||+++.+++..|.+.+ .+|+++.
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~-~~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKG-VPVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEEE
Confidence 478999999999999999999998874 3676665
No 188
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.26 E-value=0.15 Score=66.71 Aligned_cols=149 Identities=18% Similarity=0.274 Sum_probs=87.3
Q ss_pred CCCHHHHHHHHHHhc---CC-cEEEECCCCCcHhHHHHHHHHHHHHc--CCCeEEEEcCcHHHHHHHHHHHHhc--CCeE
Q 001501 390 ELNASQVFAVKSVLQ---RP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~-l~LIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AvD~L~eRL~~~--gl~i 461 (1066)
.|=+.|.++|+.++. ++ -.|+-=-.|.|||..+..++.+|... ..+++||++|.... .+-.+-+.+. .+++
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL-~nW~~Ei~kw~p~l~v 247 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTL-GNWMNEIRRFCPVLRA 247 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHH-HHHHHHHHHHCCCCce
Confidence 577899999988763 33 35666679999999988888877653 34589999997654 4444445443 1233
Q ss_pred EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccc
Q 001501 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVG 541 (1066)
Q Consensus 462 vRlg~~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~ 541 (1066)
+.+.....+ .... .. ........+|+++|...
T Consensus 248 ~~~~G~~~e-------------------------R~~~---------------------~~--~~~~~~~~dVvITSYe~ 279 (1033)
T PLN03142 248 VKFHGNPEE-------------------------RAHQ---------------------RE--ELLVAGKFDVCVTSFEM 279 (1033)
T ss_pred EEEeCCHHH-------------------------HHHH---------------------HH--HHhcccCCCcceecHHH
Confidence 322111000 0000 00 00001234566555443
Q ss_pred cCC--ccccCCCCCEEEEECCCCCChhhhhhh----ccccCceEEEeCCccC
Q 001501 542 AGD--PRLANFRFRQVLIDESTQATEPECLIP----LVLGAKQVVLVGDHCQ 587 (1066)
Q Consensus 542 a~~--~~L~~~~Fd~VIIDEAsQ~tE~e~LIp----L~~~~krlILVGD~~Q 587 (1066)
+.. ..+..+.|++||||||..+--....+. ......+++|-|=|-|
T Consensus 280 l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlq 331 (1033)
T PLN03142 280 AIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQ 331 (1033)
T ss_pred HHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCC
Confidence 322 235667899999999988766443221 1124568999999988
No 189
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.26 E-value=0.12 Score=65.72 Aligned_cols=61 Identities=18% Similarity=0.212 Sum_probs=42.6
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+-|..+.-..+. + .+....-|+|||.+.+..++..... ...++|+|||..-|.+..+.+..
T Consensus 81 ~vQl~~~~~l~~-G-~Iaem~TGeGKTL~a~lp~~l~al~-G~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 81 DVQLIGALVLHE-G-NIAEMQTGEGKTLTATMPLYLNALE-GKGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred hHHHHhHHHHcC-C-ceeeecCCCcchHHHHHHHHHHHHc-CCCeEEEeCCHHHHHHHHHHHHH
Confidence 455555443333 3 2899999999999876555433333 44899999999999888877654
No 190
>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=95.25 E-value=0.042 Score=56.83 Aligned_cols=34 Identities=38% Similarity=0.630 Sum_probs=27.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+.++.|+||+|||+++..++..+.+.+. +|+++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~-~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGK-KVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEE
Confidence 4688999999999999999988887754 665544
No 191
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.24 E-value=0.029 Score=69.82 Aligned_cols=26 Identities=23% Similarity=0.385 Sum_probs=21.5
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..|+.||+|+|||+++..++..|.-.
T Consensus 40 a~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 40 AYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhccc
Confidence 46999999999999988887776543
No 192
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.24 E-value=0.039 Score=68.74 Aligned_cols=26 Identities=35% Similarity=0.579 Sum_probs=21.9
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
+..|+.||||||||+++..++..|.-
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhcC
Confidence 34699999999999999888877754
No 193
>PRK05973 replicative DNA helicase; Provisional
Probab=95.22 E-value=0.032 Score=61.34 Aligned_cols=53 Identities=19% Similarity=0.327 Sum_probs=43.2
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl 459 (1066)
..+++|.|+||+|||+.+..++...++++ .++++.+.--. .+++.+|+...++
T Consensus 64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~G-e~vlyfSlEes-~~~i~~R~~s~g~ 116 (237)
T PRK05973 64 GDLVLLGARPGHGKTLLGLELAVEAMKSG-RTGVFFTLEYT-EQDVRDRLRALGA 116 (237)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEEEeCC-HHHHHHHHHHcCC
Confidence 56899999999999999999998888775 47888776554 5788888877654
No 194
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=95.22 E-value=0.12 Score=53.49 Aligned_cols=59 Identities=15% Similarity=0.204 Sum_probs=41.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcH----HHHHHHHHHHHhcCCeEEEecc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN----VAVDQLAEKISATGLKVVRLCA 466 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN----~AvD~L~eRL~~~gl~ivRlg~ 466 (1066)
.++..|..++|+|||+.+..+....+.++. +|+++=|-. ..=.++.+++ .++++.+.+.
T Consensus 2 ~G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~-~v~~vQFlKg~~~~gE~~~l~~l--~~v~~~~~g~ 64 (159)
T cd00561 2 KGLIQVYTGNGKGKTTAALGLALRALGHGY-RVGVVQFLKGGWKYGELKALERL--PNIEIHRMGR 64 (159)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEEEeCCCCccCHHHHHHhC--CCcEEEECCC
Confidence 367789999999999999999888888765 888844322 2233445555 2577777654
No 195
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=95.17 E-value=0.041 Score=67.82 Aligned_cols=26 Identities=31% Similarity=0.415 Sum_probs=21.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
..+|+.||+|||||+++..++..+.-
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~c 64 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVNC 64 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35788999999999998888776653
No 196
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.16 E-value=0.034 Score=68.90 Aligned_cols=25 Identities=28% Similarity=0.376 Sum_probs=21.3
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
.+|++||+|||||+++..++..|.-
T Consensus 40 a~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 40 AYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4699999999999998888877754
No 197
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.15 E-value=0.057 Score=66.12 Aligned_cols=24 Identities=25% Similarity=0.397 Sum_probs=19.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
..|+.||||+|||+++..++..|.
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 40 AYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 468999999999998877776664
No 198
>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=95.14 E-value=0.015 Score=56.37 Aligned_cols=22 Identities=45% Similarity=0.800 Sum_probs=19.2
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.||.||||||||+++..++..+
T Consensus 1 ill~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT
T ss_pred CEEECcCCCCeeHHHHHHHhhc
Confidence 4899999999999988887765
No 199
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.13 E-value=0.049 Score=61.99 Aligned_cols=58 Identities=28% Similarity=0.335 Sum_probs=44.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHH--HHHHHHHHHHhcCCeEEEe
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV--AVDQLAEKISATGLKVVRL 464 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~--AvD~L~eRL~~~gl~ivRl 464 (1066)
+.|+.|..|+|||||++.++++|.+++.+-+|+.+-|=. |+++|..--.+.+.+++.-
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~ 200 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISG 200 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEcc
Confidence 468899999999999999999999888744555555544 5677777666778887763
No 200
>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=95.08 E-value=0.036 Score=55.42 Aligned_cols=41 Identities=27% Similarity=0.524 Sum_probs=32.4
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD 448 (1066)
+++|.|+||||||+++..++..+...+ .+|++........+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~-~~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKG-GKVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcC-CEEEEEECCcchHH
Confidence 368999999999999999998887754 47888776555443
No 201
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.07 E-value=0.035 Score=60.74 Aligned_cols=53 Identities=21% Similarity=0.392 Sum_probs=39.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl 459 (1066)
..+++|.|+||||||+++..+++.+++.+. +++.++... ..+++.+.+.+.+.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~-~~~yi~~e~-~~~~~~~~~~~~g~ 76 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNGY-SVSYVSTQL-TTTEFIKQMMSLGY 76 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEeCCC-CHHHHHHHHHHhCC
Confidence 568999999999999999999888887764 777777544 34566665555443
No 202
>PRK09183 transposase/IS protein; Provisional
Probab=95.01 E-value=0.051 Score=60.54 Aligned_cols=53 Identities=23% Similarity=0.344 Sum_probs=39.3
Q ss_pred CCCCCHHHHHHHHHH---hcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 388 LPELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~a---L~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
.+.+|..|...+... -.....+|.||||||||+++..+...+...+. +|+.+.
T Consensus 82 ~~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~-~v~~~~ 137 (259)
T PRK09183 82 ATGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVRAGI-KVRFTT 137 (259)
T ss_pred CCCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCC-eEEEEe
Confidence 457888888777543 12456889999999999999988776666553 777664
No 203
>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=94.99 E-value=0.042 Score=59.47 Aligned_cols=54 Identities=20% Similarity=0.319 Sum_probs=44.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
..+++|.|+||+|||+.+..+++..++++ .+++.++... ..+++.+++...+..
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g-~~~~y~s~e~-~~~~l~~~~~~~~~~ 69 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNG-EKAMYISLEE-REERILGYAKSKGWD 69 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEECCC-CHHHHHHHHHHcCCC
Confidence 45789999999999999999988877775 4888888765 578888888776654
No 204
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=94.95 E-value=0.051 Score=56.10 Aligned_cols=41 Identities=24% Similarity=0.436 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhc------CCcEEEECCCCCcHhHHHHHHHHHHHHcC
Q 001501 393 ASQVFAVKSVLQ------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1066)
Q Consensus 393 ~sQ~~AV~~aL~------~~l~LIqGPPGTGKTtTla~iI~~Llk~~ 433 (1066)
++|.+.+...+. .+..+|.|++|+|||+++.++...+.+.+
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~ 52 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERG 52 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence 356666666661 46799999999999999999888887764
No 205
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=94.92 E-value=0.039 Score=70.81 Aligned_cols=78 Identities=21% Similarity=0.324 Sum_probs=60.2
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHc----------CCCeEEEEcCcHHHHHHHHH----H
Q 001501 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ----------GQGQVLVCAPSNVAVDQLAE----K 453 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~----------~~~rILV~ApSN~AvD~L~e----R 453 (1066)
..||..|-....+++. ....|+.||.|.|||-+++.-+.+-+.. .+.+|..+||....|+++.. |
T Consensus 308 ~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkR 387 (1674)
T KOG0951|consen 308 QSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKR 387 (1674)
T ss_pred hhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhh
Confidence 4599999988888876 6789999999999999887555444443 23489999999999988765 5
Q ss_pred HHhcCCeEEEecc
Q 001501 454 ISATGLKVVRLCA 466 (1066)
Q Consensus 454 L~~~gl~ivRlg~ 466 (1066)
+...|++|..+..
T Consensus 388 la~~GI~V~ElTg 400 (1674)
T KOG0951|consen 388 LAPLGITVLELTG 400 (1674)
T ss_pred ccccCcEEEEecc
Confidence 6667888776644
No 206
>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=94.91 E-value=0.037 Score=61.60 Aligned_cols=48 Identities=19% Similarity=0.277 Sum_probs=36.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL 454 (1066)
..+++|.|+||||||+.+..++.+.++++. +++.++.-. ..+.+.+++
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge-~vlyis~Ee-~~~~~~~~l 83 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGN-PVLFVTVES-PANFVYTSL 83 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCC-cEEEEEecC-CchHHHHHH
Confidence 568999999999999999999988877654 888888653 334444333
No 207
>PRK10867 signal recognition particle protein; Provisional
Probab=94.84 E-value=0.056 Score=64.42 Aligned_cols=56 Identities=25% Similarity=0.354 Sum_probs=39.1
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHH--HHHHHHHHHhcCCeEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVA--VDQLAEKISATGLKVV 462 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~A--vD~L~eRL~~~gl~iv 462 (1066)
+.++.|++|+|||||++.++.+|.+. +.+-.||.+-+..+ ++++.......+++++
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~ 160 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVF 160 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEE
Confidence 56789999999999999999998887 54334555555543 4566554444555544
No 208
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=94.83 E-value=0.055 Score=62.12 Aligned_cols=50 Identities=20% Similarity=0.401 Sum_probs=38.2
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEE
Q 001501 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLV 439 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV 439 (1066)
.+++.|.+.+..++. +...||.|++||||||++.+++..+... ...+|++
T Consensus 128 ~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 477888888887776 4567899999999999999988877654 2335544
No 209
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=94.82 E-value=0.057 Score=62.01 Aligned_cols=53 Identities=26% Similarity=0.324 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcC
Q 001501 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~Ap 442 (1066)
-+++.|.+.+..++. ....+|.|++||||||++..++..+... +..+|+++-.
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd 186 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIED 186 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcC
Confidence 367788888887665 6678999999999999999888776543 3346665443
No 210
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.81 E-value=0.019 Score=64.63 Aligned_cols=28 Identities=36% Similarity=0.673 Sum_probs=24.1
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
+++.|++||||||||+...+++..|.-+
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLSIR 204 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLSIR 204 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhheee
Confidence 7899999999999999988888777543
No 211
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=94.79 E-value=0.081 Score=67.41 Aligned_cols=47 Identities=17% Similarity=0.224 Sum_probs=35.5
Q ss_pred EEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+.+.+.|+|||.+.+.-++.-+..+ ..|+|+|||..-|.+..+.+..
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~al~G-~~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNAISG-RGVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred cccccCCCCchHHHHHHHHHHHhcC-CCEEEEcCCHHHHHHHHHHHHH
Confidence 4677999999998765554333334 4799999999999888887654
No 212
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.77 E-value=0.047 Score=61.19 Aligned_cols=35 Identities=34% Similarity=0.602 Sum_probs=29.8
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEE
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1066)
+++.||.||-|||||||++.+|.++-+.....||-
T Consensus 125 ~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlT 159 (353)
T COG2805 125 RGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILT 159 (353)
T ss_pred CceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEE
Confidence 78999999999999999999999887765544543
No 213
>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=94.77 E-value=0.15 Score=64.13 Aligned_cols=61 Identities=21% Similarity=0.203 Sum_probs=41.2
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+.|..+....+ .+. +.+...|+|||.+.+..++.....+ .+|+|+|||..-|.+..+.+..
T Consensus 59 ~vQlig~~~l~-~G~-Iaem~TGeGKTLva~lpa~l~aL~G-~~V~VvTpt~~LA~qdae~~~~ 119 (745)
T TIGR00963 59 DVQLIGGIALH-KGK-IAEMKTGEGKTLTATLPAYLNALTG-KGVHVVTVNDYLAQRDAEWMGQ 119 (745)
T ss_pred chHHhhhhhhc-CCc-eeeecCCCccHHHHHHHHHHHHHhC-CCEEEEcCCHHHHHHHHHHHHH
Confidence 34555544333 333 8899999999987654443222223 4799999999999888887654
No 214
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.77 E-value=0.062 Score=68.85 Aligned_cols=25 Identities=28% Similarity=0.468 Sum_probs=21.3
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
.+|+.||+|||||+++..++..|.-
T Consensus 39 a~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 39 AYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCc
Confidence 4789999999999998888877653
No 215
>PRK09694 helicase Cas3; Provisional
Probab=94.76 E-value=0.09 Score=67.72 Aligned_cols=67 Identities=19% Similarity=0.371 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
..++-|..+.......++++|.+|-|+|||..+...+..|+.. ...+|+++.||...++.|.+|+.+
T Consensus 286 ~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 286 QPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHH
Confidence 5688898775544457899999999999999988877777665 346899999999999999999875
No 216
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.73 E-value=0.1 Score=63.18 Aligned_cols=24 Identities=29% Similarity=0.436 Sum_probs=19.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
..|++||||||||+++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 37 SILLVGASGVGKTTCARIISLCLN 60 (491)
T ss_pred eEEEECCCCccHHHHHHHHHHHHc
Confidence 589999999999998777666554
No 217
>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=94.73 E-value=0.067 Score=62.05 Aligned_cols=27 Identities=22% Similarity=0.420 Sum_probs=22.8
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
+.+.+|.||||||||+++..++..|-.
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 468899999999999998888776644
No 218
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=94.72 E-value=0.13 Score=60.17 Aligned_cols=49 Identities=27% Similarity=0.363 Sum_probs=35.2
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHH-HcCCCeEEEEcC-c--HHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCAP-S--NVAVDQLAEK 453 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Ll-k~~~~rILV~Ap-S--N~AvD~L~eR 453 (1066)
.++..+.||-|-|||||++.+++... ..+..+|-+++- | =-|+.+|.-.
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Y 255 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTY 255 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHH
Confidence 57899999999999999999998887 445557766652 2 2355555443
No 219
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.71 E-value=0.057 Score=58.87 Aligned_cols=55 Identities=31% Similarity=0.497 Sum_probs=43.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeE
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKV 461 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~i 461 (1066)
..+++|.|+||||||+.+..+++..++++ .+++.++..+. .+.+.+++.+.++.+
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g-~~~~y~~~e~~-~~~~~~~~~~~g~~~ 79 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQG-KKVYVITTENT-SKSYLKQMESVKIDI 79 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCC-CEEEEEEcCCC-HHHHHHHHHHCCCCh
Confidence 56799999999999999999988877765 48888888654 467777777766543
No 220
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=94.64 E-value=0.49 Score=56.43 Aligned_cols=79 Identities=20% Similarity=0.245 Sum_probs=57.0
Q ss_pred CCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHh-HHHHHHHHHHHHcC----------CCeEEEEcCcHHHHHHHHHHHH
Q 001501 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKT-VTSAAIVYHMAKQG----------QGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 387 ~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT-tTla~iI~~Llk~~----------~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
+...-++-|+.||=..++++-.|-.+-.||||| -.+.-++.++...+ ...-+++|||...+.+|-+-..
T Consensus 264 ~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~ 343 (673)
T KOG0333|consen 264 GYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETN 343 (673)
T ss_pred CCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHH
Confidence 345667899999998888888888899999999 33444444444322 2367899999999999987655
Q ss_pred h----cCCeEEEec
Q 001501 456 A----TGLKVVRLC 465 (1066)
Q Consensus 456 ~----~gl~ivRlg 465 (1066)
+ .+++++++.
T Consensus 344 kf~~~lg~r~vsvi 357 (673)
T KOG0333|consen 344 KFGKPLGIRTVSVI 357 (673)
T ss_pred HhcccccceEEEEe
Confidence 4 356666663
No 221
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.63 E-value=0.11 Score=59.90 Aligned_cols=36 Identities=31% Similarity=0.412 Sum_probs=30.5
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
....++.||+|||||+++..++..++..+. +|+.++
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~-~V~y~t 218 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDRGK-SVIYRT 218 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHCCC-eEEEEE
Confidence 467899999999999999999999988765 777666
No 222
>PRK04328 hypothetical protein; Provisional
Probab=94.62 E-value=0.053 Score=59.97 Aligned_cols=54 Identities=24% Similarity=0.396 Sum_probs=41.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
..+++|.|+||||||+....+++.-++.+. ++++++.... .+.+.+++...+.+
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge-~~lyis~ee~-~~~i~~~~~~~g~d 76 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE-PGVYVALEEH-PVQVRRNMRQFGWD 76 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEEeeCC-HHHHHHHHHHcCCC
Confidence 567899999999999999999888777654 7888875554 44577777666553
No 223
>PRK06893 DNA replication initiation factor; Validated
Probab=94.62 E-value=0.099 Score=57.09 Aligned_cols=36 Identities=19% Similarity=0.263 Sum_probs=28.8
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
++..+|+||||||||+.+..+...+.+.+. +++.+.
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~-~~~y~~ 74 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQR-TAIYIP 74 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CeEEee
Confidence 456799999999999999999988887754 554444
No 224
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.61 E-value=0.052 Score=56.86 Aligned_cols=52 Identities=31% Similarity=0.520 Sum_probs=38.9
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHc---------CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+++|.||||+|||+.+..++..++.. .+.+||++..-+. ..++.+|+...
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~ 92 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRAL 92 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHH
Confidence 6789999999999999999999988862 3458999988777 55677777653
No 225
>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=94.59 E-value=0.068 Score=60.86 Aligned_cols=52 Identities=25% Similarity=0.365 Sum_probs=39.3
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEc
Q 001501 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1066)
.+++.|.+.+..++. +...+|.||+|+||||++..++..+... ...+|+++-
T Consensus 116 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiE 169 (299)
T TIGR02782 116 IMTAAQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIE 169 (299)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEEC
Confidence 366777777777765 5678999999999999999888777653 344666654
No 226
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.59 E-value=0.19 Score=57.97 Aligned_cols=56 Identities=30% Similarity=0.480 Sum_probs=45.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHH--HHHHHHHHHhcCCeE
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVA--VDQLAEKISATGLKV 461 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~A--vD~L~eRL~~~gl~i 461 (1066)
.+.++.|--|+|||||+..+++++-+++.+.-||||.|=.| -|+|..--.+.++.+
T Consensus 102 sVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ 159 (483)
T KOG0780|consen 102 SVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPF 159 (483)
T ss_pred cEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCee
Confidence 36778999999999999999999999988889999988764 577766555555544
No 227
>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=94.57 E-value=0.1 Score=64.72 Aligned_cols=48 Identities=25% Similarity=0.458 Sum_probs=41.3
Q ss_pred hcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 403 LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 403 L~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
|.-...||.|-+|+|||+.|..+...| .-||+..|..|+.||..+|..
T Consensus 57 lPF~~ylITGtAGaGKStsIq~L~~~l------dCviTGaT~vAaQNls~~L~~ 104 (818)
T PF02689_consen 57 LPFSVYLITGTAGAGKSTSIQTLAENL------DCVITGATVVAAQNLSSKLSR 104 (818)
T ss_pred cceEEEEEeccCCCCccchHHHHHhhh------CeEEecchhhhHhHHHHHhcc
Confidence 334568999999999999998777665 689999999999999999974
No 228
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=94.53 E-value=0.082 Score=61.53 Aligned_cols=26 Identities=27% Similarity=0.523 Sum_probs=22.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..||.||+|+|||+++-.++..|+..
T Consensus 47 a~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 47 ALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred eEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 58999999999999999888887763
No 229
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=94.52 E-value=0.11 Score=61.87 Aligned_cols=61 Identities=25% Similarity=0.287 Sum_probs=51.1
Q ss_pred HHHHHHHHHHhc-----CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 393 ASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 393 ~sQ~~AV~~aL~-----~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
-.|-+||+.... ...-.+.|.-|||||.|++.+|..+ +.+-||+|++...|.+|..-+++.
T Consensus 15 GDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~----~rPtLV~AhNKTLAaQLy~Efk~f 80 (663)
T COG0556 15 GDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV----QRPTLVLAHNKTLAAQLYSEFKEF 80 (663)
T ss_pred CCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh----CCCeEEEecchhHHHHHHHHHHHh
Confidence 468888887764 3467889999999999999888765 347999999999999999988875
No 230
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=94.51 E-value=0.17 Score=62.41 Aligned_cols=36 Identities=25% Similarity=0.133 Sum_probs=28.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1066)
+..+|+|++|||||+++..+...+.+. ...+|+.+.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit 351 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS 351 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence 347999999999999999998888764 344666655
No 231
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.51 E-value=0.077 Score=63.09 Aligned_cols=68 Identities=19% Similarity=0.259 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHH-HHHHHHHHHcC-----------CCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTl-a~iI~~Llk~~-----------~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..++-|+.+|..+....=.++.|+-|+|||..- .=++.++.+.+ ..++|++|||+..|+++.++..+.
T Consensus 96 ~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~ 175 (482)
T KOG0335|consen 96 KPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKF 175 (482)
T ss_pred CCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhh
Confidence 567889999988877666799999999999753 45666666552 247999999999999999987764
No 232
>PRK10436 hypothetical protein; Provisional
Probab=94.51 E-value=0.054 Score=65.18 Aligned_cols=41 Identities=29% Similarity=0.510 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
.+.+.|.+.+..++. +++.||.||.|+|||||+..++.++.
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~ 243 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLN 243 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhC
Confidence 467888888887764 78999999999999999988777654
No 233
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=94.50 E-value=0.064 Score=59.60 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=41.1
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
..+++|.|+||+|||+++..++.+++.....+|++++.-. ..+++..|+..
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~ 80 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLG 80 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHH
Confidence 5689999999999999999999888877345899988655 45667777654
No 234
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=94.49 E-value=0.11 Score=56.28 Aligned_cols=51 Identities=18% Similarity=0.208 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHhc----CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
.-|.....+++.... ....+|.||||||||+.+..+..++...+. ++.++.
T Consensus 23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~-~~~~i~ 77 (227)
T PRK08903 23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGR-NARYLD 77 (227)
T ss_pred CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEe
Confidence 456667677766543 357899999999999999988887766543 444433
No 235
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.49 E-value=0.29 Score=57.65 Aligned_cols=56 Identities=29% Similarity=0.469 Sum_probs=40.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcH--HHHHHHHHHHHhcCCeEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVV 462 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN--~AvD~L~eRL~~~gl~iv 462 (1066)
+.+..|-=|+|||||+..++.+|.+.+.+..||+|-+- .|.|+|..--.+.++++.
T Consensus 102 vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f 159 (451)
T COG0541 102 VILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFF 159 (451)
T ss_pred EEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCcee
Confidence 35678999999999999999999997665556666554 466777665555555543
No 236
>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=94.49 E-value=0.12 Score=55.70 Aligned_cols=50 Identities=18% Similarity=0.235 Sum_probs=34.6
Q ss_pred CCHHHHHHHHHHhc---CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 391 LNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~---~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
-|..-.++++..+. ....+|.||||||||+++..+...+...+. +++.+.
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~-~~~~i~ 73 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGK-SAIYLP 73 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCC-cEEEEe
Confidence 34445555555432 467899999999999999988877765443 555544
No 237
>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=94.41 E-value=0.048 Score=66.07 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
.+++.|.+.++.++. .++.+|.||.|||||||+..++..+.
T Consensus 225 g~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~ 267 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLN 267 (486)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccC
Confidence 468899999988775 57899999999999999988776653
No 238
>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=94.40 E-value=0.093 Score=62.53 Aligned_cols=57 Identities=32% Similarity=0.448 Sum_probs=38.5
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH-cCCCeEEEEcCcHH--HHHHHHHHHHhcCCeEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNV--AVDQLAEKISATGLKVVR 463 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~ApSN~--AvD~L~eRL~~~gl~ivR 463 (1066)
+.++.|++|+|||||++.++.++.. .+..-.||.+-+.. |.+++.......++++..
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~ 160 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFA 160 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEe
Confidence 5788999999999999999998864 44433455555554 455555544445555443
No 239
>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=94.39 E-value=0.07 Score=61.83 Aligned_cols=41 Identities=22% Similarity=0.347 Sum_probs=30.8
Q ss_pred CHHHHHHHHHHhc-------CCcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 392 N~sQ~~AV~~aL~-------~~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
-+.|.+.+...+. .+..+|.||||||||+++..++.++...
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~ 67 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEA 67 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHH
Confidence 3566666665543 2578999999999999999888877543
No 240
>PRK06851 hypothetical protein; Provisional
Probab=94.39 E-value=0.033 Score=64.92 Aligned_cols=48 Identities=27% Similarity=0.465 Sum_probs=40.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCC-eEEEEcCcHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG-QVLVCAPSNVAVDQLAE 452 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~-rILV~ApSN~AvD~L~e 452 (1066)
..+++|.|+||||||+++..++..+.+.+.. ..+.|+..|.++|-+.-
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvii 78 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVII 78 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEEe
Confidence 6789999999999999999999988876532 47889999989886543
No 241
>PF05729 NACHT: NACHT domain
Probab=94.38 E-value=0.038 Score=55.71 Aligned_cols=28 Identities=25% Similarity=0.501 Sum_probs=25.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcC
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~ 433 (1066)
++.+|.|+||+|||+++..++..+....
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 3679999999999999999999888874
No 242
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=94.37 E-value=0.38 Score=59.45 Aligned_cols=59 Identities=15% Similarity=0.090 Sum_probs=46.9
Q ss_pred HHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 399 VKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 399 V~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
+-....+..+++.-|==.|||.+++.+|..++.. ...+|+++|+..+.++.+.++|...
T Consensus 248 ~~~~fkqk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~ 307 (738)
T PHA03368 248 AVRHFRQRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGAR 307 (738)
T ss_pred HHHHhhccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHH
Confidence 3344557889999999999999998777656544 4569999999999999988887653
No 243
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.32 E-value=0.15 Score=62.36 Aligned_cols=59 Identities=19% Similarity=0.348 Sum_probs=44.0
Q ss_pred HHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 398 AVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 398 AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.+..+-++.+.+|.|.-|+||||=+-..++..--...++|.++=|-..||-.++.|+..
T Consensus 59 il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAe 117 (674)
T KOG0922|consen 59 ILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAE 117 (674)
T ss_pred HHHHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHH
Confidence 34444458999999999999999776544322112334699999999999999999975
No 244
>PRK08727 hypothetical protein; Validated
Probab=94.30 E-value=0.21 Score=54.71 Aligned_cols=35 Identities=26% Similarity=0.358 Sum_probs=29.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
...+|+||+|||||+.+..+...+.+.+. +++.+.
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~-~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQAGR-SSAYLP 76 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEEe
Confidence 46899999999999999999888877654 666665
No 245
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.28 E-value=0.12 Score=65.48 Aligned_cols=36 Identities=22% Similarity=0.445 Sum_probs=24.4
Q ss_pred CCCEEEEECCCCCChhh--hhhhccccCceEEEeCCccC
Q 001501 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQ 587 (1066)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e--~LIpL~~~~krlILVGD~~Q 587 (1066)
+..+|||||+...+..+ .|++.. ...+++++|+...
T Consensus 109 ~~~IL~IDEIh~Ln~~qQdaLL~~l-E~g~IiLI~aTTe 146 (725)
T PRK13341 109 KRTILFIDEVHRFNKAQQDALLPWV-ENGTITLIGATTE 146 (725)
T ss_pred CceEEEEeChhhCCHHHHHHHHHHh-cCceEEEEEecCC
Confidence 46789999998877632 455543 3467888887543
No 246
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.25 E-value=0.066 Score=64.00 Aligned_cols=43 Identities=26% Similarity=0.414 Sum_probs=36.7
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
.+++.|.+.+..++. .++.||.||-|||||||+-..+..+...
T Consensus 241 g~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~ 285 (500)
T COG2804 241 GMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTP 285 (500)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence 358899999999887 5789999999999999998888776544
No 247
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=94.25 E-value=0.062 Score=58.11 Aligned_cols=27 Identities=37% Similarity=0.645 Sum_probs=23.1
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
-+..+|.|||||||||.+..++..|+-
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 356899999999999999888887764
No 248
>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=94.24 E-value=0.062 Score=65.22 Aligned_cols=54 Identities=22% Similarity=0.311 Sum_probs=43.9
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
..++||.||||||||+.+...++..++++. +++++++ -...+++.++....|++
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~ge-~~~y~s~-eEs~~~i~~~~~~lg~~ 316 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACANKE-RAILFAY-EESRAQLLRNAYSWGID 316 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEEe-eCCHHHHHHHHHHcCCC
Confidence 457999999999999999999999988764 8888884 55667788887776653
No 249
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=94.22 E-value=0.094 Score=65.87 Aligned_cols=26 Identities=31% Similarity=0.432 Sum_probs=21.1
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
..+|+.||+|||||+++..++..|.-
T Consensus 41 HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 41 HAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 34689999999999998877766643
No 250
>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=94.22 E-value=0.063 Score=65.12 Aligned_cols=55 Identities=18% Similarity=0.237 Sum_probs=43.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
...+||.|+||||||+...++++.-+++...++|.+++- ...+++.+...+.+..
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~~G~~ 75 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARSFGWD 75 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHHcCCC
Confidence 567999999999999999999887666634478888875 5667788877776653
No 251
>PRK06921 hypothetical protein; Provisional
Probab=94.19 E-value=0.13 Score=57.54 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=30.5
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1066)
....+++|+||||||+++.+++..+++.....|+.++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence 35689999999999999999999988762346776663
No 252
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=94.18 E-value=0.1 Score=70.13 Aligned_cols=47 Identities=15% Similarity=0.345 Sum_probs=36.5
Q ss_pred EECCCCCcHhHHHHH-HHHHHHHc-----------CCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 410 IQGPPGTGKTVTSAA-IVYHMAKQ-----------GQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 410 IqGPPGTGKTtTla~-iI~~Llk~-----------~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
|.+|.|||||.+..- ++..+++. +..++|+++|+..-+.++.++|..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 578999999998754 66666653 134799999999999888887753
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=94.17 E-value=0.04 Score=53.18 Aligned_cols=23 Identities=30% Similarity=0.761 Sum_probs=19.5
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+.+|.|+|||||||++..+...+
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHH
Confidence 36899999999999988777655
No 254
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.13 E-value=0.2 Score=62.85 Aligned_cols=48 Identities=27% Similarity=0.333 Sum_probs=42.0
Q ss_pred EEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
++.+.+|+|||.+...++...+..++ ++||+.|.-.-+.++.+|+.+.
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~~Gk-~vLvLvPEi~lt~q~~~rl~~~ 211 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLRAGR-GALVVVPDQRDVDRLEAALRAL 211 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHHcCC-eEEEEecchhhHHHHHHHHHHH
Confidence 34455799999999999999998876 8999999999999999999864
No 255
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.11 E-value=0.07 Score=59.23 Aligned_cols=51 Identities=33% Similarity=0.586 Sum_probs=39.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..++||.|+||||||..+.+.+...++.+. +++.++..-.+.+ |.+.+...
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge-~vlyvs~~e~~~~-l~~~~~~~ 73 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREGE-PVLYVSTEESPEE-LLENARSF 73 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcCC-cEEEEEecCCHHH-HHHHHHHc
Confidence 678999999999999999999999998854 8888886555544 44444333
No 256
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=93.95 E-value=0.13 Score=60.83 Aligned_cols=26 Identities=31% Similarity=0.595 Sum_probs=21.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
-.|++||||+|||+++..++..|.-.
T Consensus 38 a~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 38 AWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 37899999999999998888776543
No 257
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=93.95 E-value=0.086 Score=56.23 Aligned_cols=39 Identities=33% Similarity=0.568 Sum_probs=31.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1066)
..+++|.||||||||+.+..++....+.+. +++.++..+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~-~v~yi~~e~ 50 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGK-KVVYIDTEG 50 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCC-eEEEEECCC
Confidence 567999999999999999999888887754 666665543
No 258
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=93.90 E-value=0.52 Score=50.21 Aligned_cols=40 Identities=15% Similarity=0.290 Sum_probs=34.5
Q ss_pred cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcH
Q 001501 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1066)
Q Consensus 404 ~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1066)
..+..+|.+++|+|||+.+..++...+..+. +|+++=|-.
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~-~V~ivQFlK 60 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGK-KVGVVQFIK 60 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEEec
Confidence 4789999999999999999999988888776 888887644
No 259
>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=93.89 E-value=0.12 Score=60.63 Aligned_cols=47 Identities=19% Similarity=0.333 Sum_probs=33.3
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEE
Q 001501 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLV 439 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV 439 (1066)
|.+...+.+.. .+++.||.||+||||||++..++.++.... ..+|+.
T Consensus 137 l~~~~~~~l~~--~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 137 IEPDLFNSLLP--AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred CCHHHHHHHHh--cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 34444444332 378999999999999999999998887653 335544
No 260
>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=93.89 E-value=0.1 Score=56.62 Aligned_cols=53 Identities=21% Similarity=0.409 Sum_probs=38.1
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl 459 (1066)
..+++|.|+||||||+.+..++...++.+. +++.++. ...++++.++....+.
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~-~~~~is~-e~~~~~i~~~~~~~g~ 72 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGD-PVIYVTT-EESRESIIRQAAQFGM 72 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhcCC-eEEEEEc-cCCHHHHHHHHHHhCC
Confidence 567899999999999999988877776554 6666664 3334666666555443
No 261
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.89 E-value=0.11 Score=60.80 Aligned_cols=56 Identities=23% Similarity=0.337 Sum_probs=41.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeE-EEEcCcH--HHHHHHHHHHHhcCCeE
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKV 461 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rI-LV~ApSN--~AvD~L~eRL~~~gl~i 461 (1066)
..+.+|.||.|+|||||++.+...+..++. +| +|.+-+- .|++++.......++.+
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~-~V~lItaDtyR~gAveQLk~yae~lgvpv 264 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNR-TVGFITTDTFRSGAVEQFQGYADKLDVEL 264 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCCccCccHHHHHHHHhhcCCCCE
Confidence 457889999999999999999988877665 55 5566555 35778777665555443
No 262
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=93.86 E-value=0.21 Score=62.44 Aligned_cols=47 Identities=30% Similarity=0.324 Sum_probs=35.1
Q ss_pred EEEECCC-----CCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHH
Q 001501 408 SLIQGPP-----GTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 408 ~LIqGPP-----GTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
.|.+|-= |.|||.|++..++..+..+ ..|-|+|+|.--|..=++.+.
T Consensus 89 ~Ll~G~VaEM~TGEGKTLvA~l~a~l~AL~G-~~VhvvT~NdyLA~RDae~m~ 140 (764)
T PRK12326 89 RLLAGDVIEMATGEGKTLAGAIAAAGYALQG-RRVHVITVNDYLARRDAEWMG 140 (764)
T ss_pred HHhCCCcccccCCCCHHHHHHHHHHHHHHcC-CCeEEEcCCHHHHHHHHHHHH
Confidence 4556766 9999999887776555444 489999999988876666554
No 263
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.86 E-value=0.18 Score=62.54 Aligned_cols=37 Identities=19% Similarity=0.258 Sum_probs=26.0
Q ss_pred HHHHHHHHhc----CCcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 395 QVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 395 Q~~AV~~aL~----~~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
..+.+..++. ...+|+.||+|||||+++..++..|.-
T Consensus 24 v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 24 VSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 3344444443 234689999999999999887777653
No 264
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=93.82 E-value=0.1 Score=56.85 Aligned_cols=50 Identities=24% Similarity=0.284 Sum_probs=39.7
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
..+++|.|+||+|||+.+..++.+++.....++|.++.-..+. ++.+|+.
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~~ 62 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRLL 62 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHHH
Confidence 4589999999999999999999999887445899988766444 4555553
No 265
>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=93.76 E-value=0.089 Score=65.04 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+.+.|.+.+..++. +++.||.||.|+|||||+..++..+
T Consensus 299 g~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 467888888888765 6899999999999999998877765
No 266
>PLN03025 replication factor C subunit; Provisional
Probab=93.76 E-value=0.081 Score=60.60 Aligned_cols=40 Identities=30% Similarity=0.532 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHhcC---CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 392 N~sQ~~AV~~aL~~---~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
|+...+.++.++.. +..+++||||||||+++..++..+..
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~ 60 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG 60 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhc
Confidence 34444555554432 45789999999999999888877753
No 267
>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=93.74 E-value=0.08 Score=52.58 Aligned_cols=22 Identities=41% Similarity=0.732 Sum_probs=19.5
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
++|.||||||||+++..+...+
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL 23 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999988887766
No 268
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=93.67 E-value=0.14 Score=60.13 Aligned_cols=41 Identities=32% Similarity=0.432 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhc-------CCcEEEECCCCCcHhHHHHHHHHHHHHcC
Q 001501 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1066)
Q Consensus 393 ~sQ~~AV~~aL~-------~~l~LIqGPPGTGKTtTla~iI~~Llk~~ 433 (1066)
+.|.+.+...+. .+..+|.||||||||+++..++..+....
T Consensus 36 e~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 36 EEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 445555555542 24589999999999999999988876553
No 269
>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=93.61 E-value=0.088 Score=56.58 Aligned_cols=36 Identities=33% Similarity=0.546 Sum_probs=30.1
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
..+++|.|+||||||+.+..++..+.+.+. ++++++
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~-~v~yi~ 54 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGK-KVAYID 54 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEEE
Confidence 457899999999999999999988887654 776664
No 270
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=93.60 E-value=0.18 Score=61.58 Aligned_cols=26 Identities=23% Similarity=0.345 Sum_probs=22.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..|+.||||||||+++..++..|...
T Consensus 38 ayLf~Gp~G~GKTt~Ar~LAk~L~c~ 63 (535)
T PRK08451 38 AYLFSGLRGSGKTSSARIFARALVCE 63 (535)
T ss_pred eEEEECCCCCcHHHHHHHHHHHhcCC
Confidence 46999999999999998888877643
No 271
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.60 E-value=0.17 Score=59.92 Aligned_cols=36 Identities=22% Similarity=0.326 Sum_probs=27.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
.+.+|.||+|+|||||++.++..+......+|++++
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit 259 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYT 259 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEec
Confidence 457899999999999999999876433334665554
No 272
>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=93.58 E-value=0.06 Score=59.83 Aligned_cols=26 Identities=27% Similarity=0.408 Sum_probs=21.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
...++.||||||||+++..+...+..
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 34789999999999998887776644
No 273
>KOG4284 consensus DEAD box protein [Transcription]
Probab=93.56 E-value=0.076 Score=64.20 Aligned_cols=68 Identities=18% Similarity=0.277 Sum_probs=50.7
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHH-HHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcCC
Q 001501 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV-YHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (1066)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI-~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~gl 459 (1066)
++-|..||-.++..==.+||+-.|||||-+-+.++ ..|.-+ ..-.++|++||..-+-++.+-+.+.+.
T Consensus 49 tkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~ 118 (980)
T KOG4284|consen 49 TKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAP 118 (980)
T ss_pred CchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcc
Confidence 56788999888776667999999999997654443 333322 345799999999988888887766543
No 274
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=93.53 E-value=0.64 Score=58.55 Aligned_cols=67 Identities=19% Similarity=0.237 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHh---c--CCcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL---~--~~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.+++.|.+|+.... . ....+|++.=|=|||..+--.++.+.+.. ..+|+|+|||-.+++.|.+-+.+
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 57888988877643 2 44889999999999998864444444443 45999999999999999886643
No 275
>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=93.47 E-value=0.086 Score=58.78 Aligned_cols=25 Identities=28% Similarity=0.416 Sum_probs=20.8
Q ss_pred cCCcEEEECCCCCcHhHHHHHHHHH
Q 001501 404 QRPISLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 404 ~~~l~LIqGPPGTGKTtTla~iI~~ 428 (1066)
.+...+|.||||||||+++..+...
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~~ 44 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVARK 44 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 3667899999999999998777653
No 276
>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=93.44 E-value=0.1 Score=59.87 Aligned_cols=40 Identities=20% Similarity=0.259 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.++++-..+|...+. ++..+|.||||||||+++..++..|
T Consensus 48 ~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 48 LFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 467777777777664 6779999999999999988777665
No 277
>PRK05642 DNA replication initiation factor; Validated
Probab=93.39 E-value=0.24 Score=54.35 Aligned_cols=35 Identities=14% Similarity=0.317 Sum_probs=27.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+..+|+||+|||||+.+..+..++...+. +++.+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~-~v~y~~ 80 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGE-PAVYLP 80 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEee
Confidence 46789999999999998888777765543 666655
No 278
>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=93.35 E-value=0.054 Score=53.76 Aligned_cols=22 Identities=27% Similarity=0.691 Sum_probs=18.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~ 428 (1066)
+.++.|||||||||.+..+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~ 22 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKR 22 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999987766544
No 279
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=93.34 E-value=0.36 Score=59.41 Aligned_cols=11 Identities=36% Similarity=0.428 Sum_probs=6.3
Q ss_pred CCCCceeeech
Q 001501 776 NDPRRLNVALT 786 (1066)
Q Consensus 776 ~d~RRLNVALT 786 (1066)
..+.||++-+|
T Consensus 447 ~yr~~l~id~~ 457 (1102)
T KOG1924|consen 447 KYRFRLDIDLT 457 (1102)
T ss_pred chhhcccCcHH
Confidence 34556666655
No 280
>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=93.32 E-value=0.083 Score=61.28 Aligned_cols=37 Identities=30% Similarity=0.617 Sum_probs=29.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
.++.+|.||+|+||||++..++..+.+....+|+.+-
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiE 158 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIE 158 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEc
Confidence 6899999999999999999888776544344666543
No 281
>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=93.29 E-value=0.11 Score=54.74 Aligned_cols=40 Identities=25% Similarity=0.300 Sum_probs=33.0
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+++.|.+.+..++. ....+|.||+|+||||++..++..+
T Consensus 9 ~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i 49 (186)
T cd01130 9 TFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFI 49 (186)
T ss_pred CCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence 467889999988876 5678999999999999997766543
No 282
>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=93.25 E-value=0.14 Score=46.29 Aligned_cols=33 Identities=33% Similarity=0.561 Sum_probs=28.1
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
.++.|.+|+|||+++..++..|.+.+. +++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~-~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGK-RVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEC
Confidence 578899999999999999998887554 787776
No 283
>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=93.23 E-value=0.35 Score=57.24 Aligned_cols=29 Identities=24% Similarity=0.267 Sum_probs=22.4
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHH-HHHcC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYH-MAKQG 433 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~-Llk~~ 433 (1066)
+-..++.||+|||||++..++-.+ .+..+
T Consensus 209 ~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 209 NYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred CCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 456788999999999999887665 44443
No 284
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=93.17 E-value=0.12 Score=55.95 Aligned_cols=38 Identities=34% Similarity=0.569 Sum_probs=30.8
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1066)
..+++|.|+||||||+.+..++...++.+. +++.+..-
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~-~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGK-KVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEECC
Confidence 458999999999999999999988887654 66665544
No 285
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.17 E-value=0.39 Score=56.83 Aligned_cols=44 Identities=32% Similarity=0.395 Sum_probs=34.3
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc---CcHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA---PSNVAVDQLAE 452 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A---pSN~AvD~L~e 452 (1066)
..+.|..|-||+|.++.|.++|+.++- +||+.| |---|+++|+-
T Consensus 381 i~fvGVNGVGKSTNLAKIayWLlqNkf-rVLIAACDTFRsGAvEQLrt 427 (587)
T KOG0781|consen 381 ISFVGVNGVGKSTNLAKIAYWLLQNKF-RVLIAACDTFRSGAVEQLRT 427 (587)
T ss_pred EEEEeecCccccchHHHHHHHHHhCCc-eEEEEeccchhhhHHHHHHH
Confidence 456899999999999999999988765 888876 33446666643
No 286
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=93.10 E-value=0.21 Score=57.57 Aligned_cols=27 Identities=22% Similarity=0.421 Sum_probs=22.9
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
...|+.||+|+|||+++..++..|+-.
T Consensus 23 ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 23 HAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred eeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 357899999999999999988887654
No 287
>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=93.10 E-value=0.064 Score=58.32 Aligned_cols=33 Identities=21% Similarity=0.418 Sum_probs=20.5
Q ss_pred CCEEEEECCCCCChh--hhhhhccccCceE-EEeCCc
Q 001501 552 FRQVLIDESTQATEP--ECLIPLVLGAKQV-VLVGDH 585 (1066)
Q Consensus 552 Fd~VIIDEAsQ~tE~--e~LIpL~~~~krl-ILVGD~ 585 (1066)
-++++|||....+.. +.|.|..- ..++ |++|--
T Consensus 102 ~~ILFIDEIHRlnk~~qe~LlpamE-d~~idiiiG~g 137 (233)
T PF05496_consen 102 GDILFIDEIHRLNKAQQEILLPAME-DGKIDIIIGKG 137 (233)
T ss_dssp T-EEEECTCCC--HHHHHHHHHHHH-CSEEEEEBSSS
T ss_pred CcEEEEechhhccHHHHHHHHHHhc-cCeEEEEeccc
Confidence 468899999998874 46667654 3445 677754
No 288
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=93.04 E-value=0.29 Score=57.37 Aligned_cols=26 Identities=27% Similarity=0.414 Sum_probs=23.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..|+.||+|+|||+++..++..|+-.
T Consensus 43 A~Lf~Gp~G~GK~~lA~~~A~~Llc~ 68 (365)
T PRK07471 43 AWLIGGPQGIGKATLAYRMARFLLAT 68 (365)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHhCC
Confidence 47899999999999999999888754
No 289
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=92.89 E-value=0.19 Score=52.65 Aligned_cols=57 Identities=30% Similarity=0.440 Sum_probs=35.4
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcC--cHHHHHHHHHHHHhcCCeEEEecc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP--SNVAVDQLAEKISATGLKVVRLCA 466 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap--SN~AvD~L~eRL~~~gl~ivRlg~ 466 (1066)
|+++|.|..|+||||++..++. ......++.|+.. -...+| .+.+.+.+..++.+.+
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~--~~~~~~~~~vI~ne~g~~~iD--~~~l~~~~~~v~~l~~ 59 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK--RNRQGERVAVIVNEFGEVNID--AELLQEDGVPVVELNN 59 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH--HHTTTS-EEEEECSTTSTHHH--HHHHHTTT-EEEEECT
T ss_pred CEEEEEcCCCCCHHHHHHHHHH--HhcCCceeEEEEccccccccc--hhhhcccceEEEEecC
Confidence 5789999999999999998887 3334457766652 222233 2334455666766644
No 290
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.81 E-value=0.88 Score=51.15 Aligned_cols=54 Identities=24% Similarity=0.392 Sum_probs=37.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcC-cH--HHHHHHHHHHHhcCCe
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP-SN--VAVDQLAEKISATGLK 460 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap-SN--~AvD~L~eRL~~~gl~ 460 (1066)
...++.|++|+|||+++..+...+...+. ++.+++. +. .+++++.......++.
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~-~v~~i~~D~~ri~~~~ql~~~~~~~~~~ 132 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQFHGKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFE 132 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEEecCCCCHHHHHHHHHHhhhcCce
Confidence 57899999999999999998888766544 5554443 43 3666666654444433
No 291
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=92.75 E-value=0.34 Score=55.69 Aligned_cols=44 Identities=14% Similarity=0.205 Sum_probs=31.1
Q ss_pred CCCEEEEECCCCCChhh--hhhhccc---cCceEEEeCC-ccCCCceeec
Q 001501 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGD-HCQLGPVIMC 594 (1066)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e--~LIpL~~---~~krlILVGD-~~QLpPvv~s 594 (1066)
.+++||||||..+++.. .|+..+- ....+||+.+ +.+|.|++.|
T Consensus 113 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS 162 (319)
T PRK08769 113 IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRS 162 (319)
T ss_pred CcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHh
Confidence 57899999999998743 3444331 2346888887 5678888765
No 292
>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=92.74 E-value=0.16 Score=50.45 Aligned_cols=29 Identities=41% Similarity=0.666 Sum_probs=23.9
Q ss_pred CCcEE-EECCCCCcHhHHHHHHHHHHHHcC
Q 001501 405 RPISL-IQGPPGTGKTVTSAAIVYHMAKQG 433 (1066)
Q Consensus 405 ~~l~L-IqGPPGTGKTtTla~iI~~Llk~~ 433 (1066)
++++| ..|+||||||.+...|+.+|.+.+
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 44443 799999999999999999988764
No 293
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=92.73 E-value=0.15 Score=58.30 Aligned_cols=41 Identities=29% Similarity=0.497 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHhcC---CcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 392 N~sQ~~AV~~aL~~---~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
++...+.+..++.. +..+|.||||||||+++..++..+...
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 34455555555543 268999999999999998888777543
No 294
>PHA00350 putative assembly protein
Probab=92.73 E-value=0.18 Score=59.40 Aligned_cols=32 Identities=25% Similarity=0.394 Sum_probs=23.6
Q ss_pred cEEEECCCCCcHhHHHHH-HHHHHHHcCCCeEEEE
Q 001501 407 ISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~-iI~~Llk~~~~rILV~ 440 (1066)
+.+|+|.||||||..++. .|...++.+ |++++
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk~G--R~V~T 35 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALKDG--RKVIT 35 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHHCC--CEEEE
Confidence 679999999999988876 455556655 44444
No 295
>PRK11823 DNA repair protein RadA; Provisional
Probab=92.72 E-value=0.18 Score=60.51 Aligned_cols=53 Identities=28% Similarity=0.486 Sum_probs=40.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl 459 (1066)
..+++|.|+||+|||+.+..++..+.+.+ .++|.++.-. ..+++..|..+.+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g-~~vlYvs~Ee-s~~qi~~ra~rlg~ 132 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAG-GKVLYVSGEE-SASQIKLRAERLGL 132 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEEccc-cHHHHHHHHHHcCC
Confidence 55899999999999999999998887654 4888887544 45667776655543
No 296
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=92.67 E-value=0.018 Score=72.81 Aligned_cols=64 Identities=33% Similarity=0.435 Sum_probs=53.3
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc---------CCCeEEEEcCcHHHHHHHHH
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAE 452 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AvD~L~e 452 (1066)
+.-++.|..|...++...++++.|+||||||++++.++..+++. ...+|..++++++++....+
T Consensus 200 ~~~~~~r~~a~~~~~~~~~~~~~~G~~t~~~~~i~kl~~~l~~~~~~~~~~~~~~~~i~l~~~~~k~~~~~~e 272 (696)
T COG0507 200 PGNSPERIRAAALALLEEFSLISGGPGTGKTTTIAKLLLKLLEQPEIEVLKSGLAQRISLLAPTGKAALRLTE 272 (696)
T ss_pred CCCChHHHHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHHhccchhhhhHhhhHHHHHhcccchHHHHhhcc
Confidence 45678999999999889999999999999999999999888873 23478888888877766665
No 297
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=92.67 E-value=0.064 Score=63.07 Aligned_cols=23 Identities=43% Similarity=0.616 Sum_probs=20.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
=+|+.||||||||+.|++++.+|
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred cceeeCCCCCCHHHHHHHHHhhc
Confidence 47999999999999999998776
No 298
>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=92.66 E-value=0.14 Score=53.46 Aligned_cols=46 Identities=26% Similarity=0.338 Sum_probs=35.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+++|.||||||||+.+..++.. ...+++.++-....-+++.+|+.+
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~----~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE----LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh----cCCCeEEEEccCcCCHHHHHHHHH
Confidence 4799999999999998877654 334777777666556678888765
No 299
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=92.66 E-value=0.5 Score=51.35 Aligned_cols=50 Identities=28% Similarity=0.301 Sum_probs=34.3
Q ss_pred CHHHHHHHHHHhcC-----CcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEc
Q 001501 392 NASQVFAVKSVLQR-----PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1066)
Q Consensus 392 N~sQ~~AV~~aL~~-----~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1066)
|..=..|+..+... ...+|+||+|+|||+.+.++...+.+. +..+|+.+.
T Consensus 16 N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 16 NELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp THHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred HHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 44444444444331 357899999999999999998888775 445676665
No 300
>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=92.65 E-value=0.12 Score=57.63 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=32.4
Q ss_pred HHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
...+.+..++. ....+|.|++||||||++..++..+-.. ..+|+++-
T Consensus 115 ~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~-~~~iv~iE 162 (270)
T PF00437_consen 115 EIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE-DERIVTIE 162 (270)
T ss_dssp HHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT-TSEEEEEE
T ss_pred HHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc-ccceEEec
Confidence 33444444332 6789999999999999998887655443 34666654
No 301
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=92.63 E-value=0.42 Score=55.20 Aligned_cols=27 Identities=26% Similarity=0.295 Sum_probs=22.7
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
...|+.||+|+|||+++..++..++-.
T Consensus 29 ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 29 HAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 357999999999999998888877644
No 302
>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=92.61 E-value=0.2 Score=58.74 Aligned_cols=52 Identities=29% Similarity=0.502 Sum_probs=40.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
..+++|.|+||+|||+++..++..+.+.+ .+||.++... ..+++..|..+.+
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g-~~VlYvs~EE-s~~qi~~Ra~rlg 133 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRG-GKVLYVSGEE-SPEQIKLRADRLG 133 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEECCc-CHHHHHHHHHHcC
Confidence 56899999999999999999998888765 4888887653 3466776665544
No 303
>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=92.59 E-value=0.1 Score=50.37 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=19.4
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+|.|+|||||||++.++...+
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 3799999999999998888776
No 304
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.59 E-value=0.17 Score=61.78 Aligned_cols=54 Identities=26% Similarity=0.409 Sum_probs=43.7
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
..+++|.|+||||||+.+..++...++.+. +++++++... .+++.+++...+++
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~-~~~yis~e~~-~~~i~~~~~~~g~~ 326 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGE-RCLLFAFEES-RAQLIRNARSWGID 326 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCC-cEEEEEecCC-HHHHHHHHHHcCCC
Confidence 567899999999999999999988887765 8888887654 66788877766554
No 305
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.56 E-value=0.35 Score=60.02 Aligned_cols=26 Identities=27% Similarity=0.409 Sum_probs=21.6
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
+..|++||||||||+++..++..|.-
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhccc
Confidence 45788999999999998888877653
No 306
>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=92.53 E-value=0.11 Score=58.79 Aligned_cols=26 Identities=27% Similarity=0.400 Sum_probs=21.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..++.||||||||+++..+...+.+.
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~ 85 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRL 85 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 57899999999999988777776654
No 307
>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=92.52 E-value=0.15 Score=57.57 Aligned_cols=24 Identities=42% Similarity=0.627 Sum_probs=19.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+..+|.||||||||+++..+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 348999999999999888766543
No 308
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.50 E-value=0.18 Score=61.39 Aligned_cols=53 Identities=23% Similarity=0.424 Sum_probs=39.7
Q ss_pred cCCcEEEECCCCCcHhHHHHHHHHHH-HHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 404 QRPISLIQGPPGTGKTVTSAAIVYHM-AKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 404 ~~~l~LIqGPPGTGKTtTla~iI~~L-lk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.+.+.+|.|-+|+||||-|=..++.- ...++++|-++-|-..||-.++.|+.+
T Consensus 279 e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~ 332 (902)
T KOG0923|consen 279 EHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAE 332 (902)
T ss_pred hCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHH
Confidence 37889999999999999765433221 112344588888999999999999875
No 309
>PRK08939 primosomal protein DnaI; Reviewed
Probab=92.48 E-value=0.14 Score=58.63 Aligned_cols=34 Identities=29% Similarity=0.299 Sum_probs=28.4
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
-.+|.||||||||+.+.+++..+.+.+. +++++.
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~g~-~v~~~~ 191 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKKGV-SSTLLH 191 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEEE
Confidence 4789999999999999999999997765 555554
No 310
>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=92.47 E-value=0.22 Score=57.27 Aligned_cols=41 Identities=22% Similarity=0.261 Sum_probs=32.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVA 446 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~A 446 (1066)
..+++|.||||||||+++..++....+.+. +++.+..-+..
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~-~v~yId~E~~~ 95 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGG-TAAFIDAEHAL 95 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEEcccchh
Confidence 358999999999999999999988887754 66666554433
No 311
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=92.38 E-value=0.4 Score=57.69 Aligned_cols=37 Identities=24% Similarity=0.227 Sum_probs=29.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEcC
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~Ap 442 (1066)
+..+|.||||||||+++..+...+.+.. ..+|+.+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 4579999999999999999988887763 345666543
No 312
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=92.29 E-value=0.47 Score=60.45 Aligned_cols=68 Identities=19% Similarity=0.330 Sum_probs=56.8
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHH-HHHHHHHHcC-C-----CeEEEEcCcHHHHHHHHHHHHh
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG-Q-----GQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla-~iI~~Llk~~-~-----~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.++++-|+.|+..+....-+||.+|-|||||-++. -++..|++.+ . -.+|.++|=..-...|..||..
T Consensus 21 ~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~ 95 (814)
T COG1201 21 TSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE 95 (814)
T ss_pred CCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 47899999999999998999999999999998874 5566677762 1 2589999999988888888864
No 313
>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=92.24 E-value=0.25 Score=57.65 Aligned_cols=29 Identities=38% Similarity=0.578 Sum_probs=25.5
Q ss_pred cCCcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 404 ~~~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..++++|.||.|+||||++..++..+...
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~ 161 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEA 161 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence 37899999999999999999988877654
No 314
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.09 E-value=0.2 Score=61.11 Aligned_cols=55 Identities=16% Similarity=0.257 Sum_probs=43.2
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCe
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ 460 (1066)
..++||.|+||||||+.+..+++..+++...++|.++... ..+++.+++...+.+
T Consensus 31 Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee-~~~~i~~~~~~~g~d 85 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE-SPEDIIRNVASFGWD 85 (509)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC-CHHHHHHHHHHcCCC
Confidence 5678999999999999999998887776345888887655 566777777776654
No 315
>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=92.08 E-value=0.33 Score=55.84 Aligned_cols=40 Identities=25% Similarity=0.293 Sum_probs=32.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~ 445 (1066)
..++.|.||||||||+++..+++...+.+. +++.+..-+.
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~~g~-~~vyId~E~~ 94 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQKLGG-TVAFIDAEHA 94 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEECcccc
Confidence 458999999999999999999988887754 6676665443
No 316
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.08 E-value=0.23 Score=59.32 Aligned_cols=40 Identities=25% Similarity=0.527 Sum_probs=28.8
Q ss_pred CCHHHHHHHHHHh-cCCcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 391 LNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 391 LN~sQ~~AV~~aL-~~~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
..+...+.+..++ ..+..++.||||||||+++..+...+.
T Consensus 179 i~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 179 IPETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred CCHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 3455555555555 477889999999999998877665553
No 317
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=92.07 E-value=1.7 Score=54.88 Aligned_cols=55 Identities=22% Similarity=0.424 Sum_probs=42.7
Q ss_pred HhcCCcEEEECCCCCcHhHHHHHHHH-HHHHcC---CCeEEEEcCcHHHHHHHHHHHHh
Q 001501 402 VLQRPISLIQGPPGTGKTVTSAAIVY-HMAKQG---QGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 402 aL~~~l~LIqGPPGTGKTtTla~iI~-~Llk~~---~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
...+++++|-|--|+|||+-++.-|. .++... ...+.+|-|+...+-.|++|...
T Consensus 390 v~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~ 448 (1282)
T KOG0921|consen 390 VAENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVAN 448 (1282)
T ss_pred HhcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHH
Confidence 33489999999999999998875544 444442 24689999999999999998864
No 318
>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=92.07 E-value=0.24 Score=43.69 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=19.4
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
..|.|+||+|||+++..+...|
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999998888777
No 319
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.05 E-value=1 Score=53.29 Aligned_cols=68 Identities=16% Similarity=0.299 Sum_probs=51.9
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHH-Hc----CCC--eEEEEcCcHHHHHHHHHHHH
Q 001501 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMA-KQ----GQG--QVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Ll-k~----~~~--rILV~ApSN~AvD~L~eRL~ 455 (1066)
+...++-|..+|-..+.+.=+++.++-|||||-.-+.=+..++ ++ .+. --||++||...+-+|.+-+.
T Consensus 26 F~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~ 100 (567)
T KOG0345|consen 26 FEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQ 100 (567)
T ss_pred CcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHH
Confidence 4578999999999999988899999999999976543333333 33 222 36999999999888877654
No 320
>PRK04195 replication factor C large subunit; Provisional
Probab=92.03 E-value=0.17 Score=61.34 Aligned_cols=39 Identities=26% Similarity=0.405 Sum_probs=27.8
Q ss_pred CCHHHHHHHHHHhc-------CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 391 LNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.++.+.+.+...+. .+..||.||||||||+++..++..+
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 34555555555443 4578999999999999987776654
No 321
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=91.97 E-value=0.57 Score=53.81 Aligned_cols=27 Identities=26% Similarity=0.576 Sum_probs=23.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
+..|+.||+|+||++++..++..|+-.
T Consensus 27 ha~Lf~G~~G~Gk~~~A~~~a~~llc~ 53 (314)
T PRK07399 27 PAYLFAGPEGVGRKLAALCFIEGLLSQ 53 (314)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 568999999999999999888887654
No 322
>PRK06851 hypothetical protein; Provisional
Probab=91.90 E-value=0.19 Score=58.62 Aligned_cols=44 Identities=25% Similarity=0.432 Sum_probs=32.9
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCC-eEEEEcCcHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG-QVLVCAPSNVAVD 448 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~-rILV~ApSN~AvD 448 (1066)
....+|.|+||||||+++..++..+.+++.. -+.-|+.-+...|
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdslD 258 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSLD 258 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCcc
Confidence 6789999999999999999999999887652 2334444444444
No 323
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=91.83 E-value=0.35 Score=56.68 Aligned_cols=64 Identities=23% Similarity=0.272 Sum_probs=42.8
Q ss_pred HHHHHHHHHHhc-------CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCe--EEEEcCcHHHHHHHHHHHHh
Q 001501 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQ--VLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 393 ~sQ~~AV~~aL~-------~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~r--ILV~ApSN~AvD~L~eRL~~ 456 (1066)
++|.+.+..++. ....+|.|+||||||.|+..+..++....... +-|=|..+..-.++..+|..
T Consensus 23 e~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 23 EEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred HHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence 567777766553 12378999999999999999998887663322 44555555555555555543
No 324
>PRK13768 GTPase; Provisional
Probab=91.81 E-value=0.2 Score=55.64 Aligned_cols=34 Identities=29% Similarity=0.488 Sum_probs=28.2
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+.+|.|++|+||||++..+...+...+. +|+++.
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~-~v~~i~ 37 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGY-DVAIVN 37 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCC-ceEEEE
Confidence 5789999999999999999988877654 777764
No 325
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.80 E-value=0.28 Score=62.05 Aligned_cols=55 Identities=27% Similarity=0.346 Sum_probs=38.4
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHH-cCCCeEEEEc-CcHH--HHHHHHHHHHhcCCe
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCA-PSNV--AVDQLAEKISATGLK 460 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~A-pSN~--AvD~L~eRL~~~gl~ 460 (1066)
.++++.||.|+|||||++.+...+.. .+.++|++++ .+-. |++++.......++.
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvp 244 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVP 244 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCC
Confidence 47889999999999999999988754 3444775554 4444 667776654444443
No 326
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=91.77 E-value=0.23 Score=63.05 Aligned_cols=39 Identities=31% Similarity=0.492 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhc--------CCcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 393 ASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 393 ~sQ~~AV~~aL~--------~~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
+.|.+.|..+|. ..+.+|.|+||||||.|+..++..|..
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 566666666553 123469999999999999998877654
No 327
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.72 E-value=0.51 Score=57.11 Aligned_cols=69 Identities=20% Similarity=0.152 Sum_probs=51.4
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHH-HHHHHHHHH-c------CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAK-Q------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTl-a~iI~~Llk-~------~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+++-|.+..-.++...=.+..+--|||||..= .=+|.+|.+ + ....+||++||...|.++.+-..+.
T Consensus 112 ~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 112 EKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 4567888888888888777788899999999542 233444544 1 2336999999999999998876654
No 328
>PF12846 AAA_10: AAA-like domain
Probab=91.72 E-value=0.22 Score=55.28 Aligned_cols=57 Identities=25% Similarity=0.423 Sum_probs=42.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~ 466 (1066)
++.++|.|++|+|||+++..++.+++..+. .|++.=+...-.+ +++. .+.+++.+..
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~g~-~~~i~D~~g~~~~-~~~~---~~~~~i~~~~ 57 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRRGP-RVVIFDPKGDYSP-LARA---LGGQYIDIDP 57 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHcCC-CEEEEcCCchHHH-HHHh---cCceEEEeec
Confidence 356899999999999999999999988875 8888877755554 2222 4556665543
No 329
>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=91.70 E-value=0.29 Score=59.02 Aligned_cols=52 Identities=25% Similarity=0.415 Sum_probs=39.9
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
..+++|.|+||+|||+++..++..+.+.+. +||.++.-. ..+++..|..+.+
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~-kvlYvs~EE-s~~qi~~ra~rlg 145 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQM-KVLYVSGEE-SLQQIKMRAIRLG 145 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEECcC-CHHHHHHHHHHcC
Confidence 568999999999999999999988887654 788877643 3456766655443
No 330
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=91.69 E-value=1.2 Score=46.29 Aligned_cols=24 Identities=29% Similarity=0.520 Sum_probs=20.1
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
...+|.|-||+||||++......+
T Consensus 5 kvvvitGVpGvGKTTVl~~~~~~l 28 (189)
T COG2019 5 KVVVITGVPGVGKTTVLKIALKEL 28 (189)
T ss_pred eEEEEEcCCCCChHHHHHHHHHHH
Confidence 467899999999999987776655
No 331
>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=91.66 E-value=0.18 Score=52.60 Aligned_cols=25 Identities=36% Similarity=0.689 Sum_probs=20.9
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
.+|+|+||+||||++..++..|.+.
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~ 26 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKK 26 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHT
T ss_pred EEEECcCCCCHHHHHHHHHHHhhcc
Confidence 5899999999999999988877654
No 332
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=91.62 E-value=0.38 Score=54.66 Aligned_cols=39 Identities=31% Similarity=0.453 Sum_probs=27.1
Q ss_pred CCHHHHHHHHHHhcC----CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 391 LNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~----~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.++...+.+...+.+ .+.++.||||||||+++..+...+
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV 67 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence 455555666555542 356679999999999987776554
No 333
>PHA00729 NTP-binding motif containing protein
Probab=91.59 E-value=0.15 Score=55.62 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=20.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
..+|.|+||||||+++..+...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 478999999999999988887664
No 334
>CHL00181 cbbX CbbX; Provisional
Probab=91.58 E-value=0.16 Score=57.43 Aligned_cols=26 Identities=31% Similarity=0.394 Sum_probs=21.4
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..++.||||||||+++..+...+...
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 37899999999999988887766554
No 335
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=91.51 E-value=0.66 Score=55.05 Aligned_cols=70 Identities=20% Similarity=0.238 Sum_probs=52.5
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHH-HHHHHHHHHc-----CCCeEEEEcCcHHHHHHHHHHHH
Q 001501 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKIS 455 (1066)
Q Consensus 386 ~~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTl-a~iI~~Llk~-----~~~rILV~ApSN~AvD~L~eRL~ 455 (1066)
..+..+++-|...+.-+|...=+|..+--|||||..- .-.+..+++. +.-.+|||+||..-|-++..-+.
T Consensus 100 ~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak 175 (543)
T KOG0342|consen 100 MGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAK 175 (543)
T ss_pred cCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHH
Confidence 3456789999999988888778899999999999753 3344444443 23369999999998877766543
No 336
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.49 E-value=0.23 Score=60.03 Aligned_cols=36 Identities=28% Similarity=0.468 Sum_probs=28.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1066)
.+.++.||.|+|||||++.+...+... +..+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 478899999999999999999887544 444676554
No 337
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=91.47 E-value=0.26 Score=49.87 Aligned_cols=35 Identities=26% Similarity=0.528 Sum_probs=27.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
++..|.|+.||||||++..++..|.+++. ++.++-
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~-~v~~ik 35 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGY-RVAVIK 35 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEE
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCC-ceEEEE
Confidence 45789999999999999999999988765 555443
No 338
>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=91.40 E-value=0.15 Score=52.98 Aligned_cols=23 Identities=35% Similarity=0.647 Sum_probs=18.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+.+|.|||||||||....+...+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 46899999999999888776544
No 339
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.40 E-value=4.3 Score=48.61 Aligned_cols=76 Identities=22% Similarity=0.312 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHH-HHHHHHHc-----CCCe-EEEEcCcHHHHHHHHHHHHh----cC
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-----GQGQ-VLVCAPSNVAVDQLAEKISA----TG 458 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~-iI~~Llk~-----~~~r-ILV~ApSN~AvD~L~eRL~~----~g 458 (1066)
+-++.|.+||-.++...-++=.+--|+|||-..+- .+.++..+ +..+ -|+|+||..-+-++..-..+ .+
T Consensus 245 kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~K~yg 324 (731)
T KOG0339|consen 245 KPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFGKAYG 324 (731)
T ss_pred cCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhhhhcc
Confidence 34667888888888776666678889999976652 33344332 3334 57899999998888665443 46
Q ss_pred CeEEEec
Q 001501 459 LKVVRLC 465 (1066)
Q Consensus 459 l~ivRlg 465 (1066)
+.+|-+.
T Consensus 325 l~~v~~y 331 (731)
T KOG0339|consen 325 LRVVAVY 331 (731)
T ss_pred ceEEEee
Confidence 6666554
No 340
>PRK13531 regulatory ATPase RavA; Provisional
Probab=91.32 E-value=0.27 Score=59.24 Aligned_cols=32 Identities=19% Similarity=0.469 Sum_probs=25.2
Q ss_pred HHHHhcCCcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 399 VKSVLQRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 399 V~~aL~~~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
+..++.+..+||.||||||||+++..+...+.
T Consensus 33 l~aalag~hVLL~GpPGTGKT~LAraLa~~~~ 64 (498)
T PRK13531 33 LLAALSGESVFLLGPPGIAKSLIARRLKFAFQ 64 (498)
T ss_pred HHHHccCCCEEEECCCChhHHHHHHHHHHHhc
Confidence 34455688999999999999998877766543
No 341
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=91.31 E-value=0.25 Score=56.82 Aligned_cols=24 Identities=42% Similarity=0.649 Sum_probs=20.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+..+|.||||||||+++..+...+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 468999999999999988766554
No 342
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=91.29 E-value=0.8 Score=50.58 Aligned_cols=69 Identities=20% Similarity=0.243 Sum_probs=42.3
Q ss_pred HHHHHHHHHHh-------cCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcH-HHHHHHHHHHHhcCCeEE
Q 001501 393 ASQVFAVKSVL-------QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN-VAVDQLAEKISATGLKVV 462 (1066)
Q Consensus 393 ~sQ~~AV~~aL-------~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN-~AvD~L~eRL~~~gl~iv 462 (1066)
+.|++++..-. ....+|++|..|||||+++..++..+...+- |++=+.... .....|.+.|.....+.+
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GL-RlIev~k~~L~~l~~l~~~l~~~~~kFI 109 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGL-RLIEVSKEDLGDLPELLDLLRDRPYKFI 109 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCc-eEEEECHHHhccHHHHHHHHhcCCCCEE
Confidence 35665554422 1346899999999999999988887777653 544444333 233455555554444433
No 343
>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=91.26 E-value=0.17 Score=52.61 Aligned_cols=25 Identities=36% Similarity=0.509 Sum_probs=21.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.++.+|.|||||||||++..++..+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4678999999999999988777654
No 344
>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=91.23 E-value=0.19 Score=48.26 Aligned_cols=24 Identities=33% Similarity=0.657 Sum_probs=21.0
Q ss_pred EEECCCCCcHhHHHHHHHHHHHHc
Q 001501 409 LIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
.|.|+||+|||+++..++..|++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKH 25 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHH
Confidence 689999999999999888877764
No 345
>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=91.21 E-value=0.38 Score=57.03 Aligned_cols=36 Identities=25% Similarity=0.251 Sum_probs=28.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcC-CCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1066)
...+|.||||||||+++..+...+.+.. ..+|+.+.
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 3578999999999999998888887763 34666664
No 346
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=91.12 E-value=0.27 Score=55.95 Aligned_cols=36 Identities=31% Similarity=0.425 Sum_probs=29.4
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
..+..|.|+||+|||+++..++..+.+.+. +|.+++
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~~~-~v~~i~ 69 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELRRRGL-KVAVIA 69 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEe
Confidence 456788999999999999999988877654 777655
No 347
>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=91.02 E-value=0.23 Score=55.04 Aligned_cols=33 Identities=36% Similarity=0.633 Sum_probs=25.2
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
.=|+||||.||+|.+.+++..+.+.+. +|-|+|
T Consensus 32 iGiTG~PGaGKSTli~~l~~~~~~~g~-~VaVlA 64 (266)
T PF03308_consen 32 IGITGPPGAGKSTLIDALIRELRERGK-RVAVLA 64 (266)
T ss_dssp EEEEE-TTSSHHHHHHHHHHHHHHTT---EEEEE
T ss_pred EEeeCCCCCcHHHHHHHHHHHHhhcCC-ceEEEE
Confidence 448999999999999999999988754 666555
No 348
>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=91.00 E-value=0.33 Score=49.45 Aligned_cols=33 Identities=33% Similarity=0.509 Sum_probs=27.3
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
..+.|++|+|||+++..+...+...+. +++++.
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~-~v~ii~ 34 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGK-RVAVLA 34 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCC-EEEEEE
Confidence 467899999999999999888877654 777765
No 349
>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=90.87 E-value=0.34 Score=49.80 Aligned_cols=35 Identities=26% Similarity=0.324 Sum_probs=28.8
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1066)
..|.|++|||||+++..++..|..++ .+|.++-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G-~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARG-YRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEecc
Confidence 56889999999999999999887664 378777654
No 350
>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=90.86 E-value=0.28 Score=52.77 Aligned_cols=35 Identities=29% Similarity=0.359 Sum_probs=22.6
Q ss_pred HHHHHHHHHHh-cCCcEEEECCCCCcHhHHHHHHHH
Q 001501 393 ASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVY 427 (1066)
Q Consensus 393 ~sQ~~AV~~aL-~~~l~LIqGPPGTGKTtTla~iI~ 427 (1066)
+.-+.|+.-+. ...-.||.||||||||+++..+..
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPS 44 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHH
Confidence 34556665544 456789999999999997665553
No 351
>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=90.84 E-value=0.32 Score=53.27 Aligned_cols=50 Identities=22% Similarity=0.385 Sum_probs=36.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH-----------cCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK-----------QGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk-----------~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
+.+|.||||||||+.+..++..+.. ..+.+||+++-=.. .+++.+|+...
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~-~~~i~~Rl~~i 63 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDP-REEIHRRLEAI 63 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCC-HHHHHHHHHHH
Confidence 6799999999999999998877653 13457888885443 34677777654
No 352
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=90.80 E-value=0.25 Score=43.05 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=22.2
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
++++|.|+.|+||||++-++...|.-
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 48999999999999999888776653
No 353
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=90.72 E-value=0.29 Score=59.80 Aligned_cols=25 Identities=36% Similarity=0.650 Sum_probs=20.8
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
..+.|+.||||||||+|+..+...|
T Consensus 45 ~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 45 KRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999999999987766655
No 354
>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=90.67 E-value=0.34 Score=52.15 Aligned_cols=40 Identities=25% Similarity=0.331 Sum_probs=30.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcC-----CCeEEEEcCcH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN 444 (1066)
..++.|.||||+|||+++..++......+ ..+++.++.-+
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 56899999999999999999888776554 14666655433
No 355
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=90.66 E-value=0.28 Score=57.34 Aligned_cols=22 Identities=45% Similarity=0.783 Sum_probs=18.5
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.||.||||||||+++..+...+
T Consensus 159 vLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 159 VLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred EEEECCCCCCHHHHHHHHHHhC
Confidence 7899999999999887776543
No 356
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=90.60 E-value=0.19 Score=51.78 Aligned_cols=22 Identities=36% Similarity=0.650 Sum_probs=18.6
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
..|.|||||||||+...+..++
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999988777665
No 357
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=90.58 E-value=2.1 Score=51.28 Aligned_cols=64 Identities=20% Similarity=0.348 Sum_probs=43.8
Q ss_pred CCHHHHHH---HHHHhc-CCcEEEECCCCCcHhHHHHHHH-HHHHHc--CCCeEEEEcCcHHHHHHHHHHH
Q 001501 391 LNASQVFA---VKSVLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQ--GQGQVLVCAPSNVAVDQLAEKI 454 (1066)
Q Consensus 391 LN~sQ~~A---V~~aL~-~~l~LIqGPPGTGKTtTla~iI-~~Llk~--~~~rILV~ApSN~AvD~L~eRL 454 (1066)
.=++|.+- ++.+|. ++..|+-=|.|||||..+..++ .+.+.. ...|++.|+.|-.-++...+.|
T Consensus 17 iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El 87 (755)
T KOG1131|consen 17 IYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEEL 87 (755)
T ss_pred cCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHH
Confidence 34567554 455565 7899999999999999886554 334443 3458999999976555444433
No 358
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=90.58 E-value=0.81 Score=57.03 Aligned_cols=151 Identities=21% Similarity=0.257 Sum_probs=89.1
Q ss_pred CCCHHHHHHHHHHh---cCCcEEEEC-CCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001501 390 ELNASQVFAVKSVL---QRPISLIQG-PPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL---~~~l~LIqG-PPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRl 464 (1066)
.|-+.|.--|+-.+ ..++.-|.| -=|=|||--+++.++.|.+. .+++-||++|+-.-=+ -..-+.+....+ ++
T Consensus 399 ~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleN-WlrEf~kwCPsl-~V 476 (941)
T KOG0389|consen 399 QLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLEN-WLREFAKWCPSL-KV 476 (941)
T ss_pred cccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhHHH-HHHHHHHhCCce-EE
Confidence 47788888777643 355544544 67999998888777777766 4567899999865433 333344432211 11
Q ss_pred ccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCC
Q 001501 465 CAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGD 544 (1066)
Q Consensus 465 g~~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~ 544 (1066)
.. ++ -+..+.+. ++.... .--..++|+++|-..+..
T Consensus 477 e~--------------Yy--------------------------GSq~ER~~---lR~~i~-~~~~~ydVllTTY~la~~ 512 (941)
T KOG0389|consen 477 EP--------------YY--------------------------GSQDERRE---LRERIK-KNKDDYDVLLTTYNLAAS 512 (941)
T ss_pred Ee--------------cc--------------------------CcHHHHHH---HHHHHh-ccCCCccEEEEEeecccC
Confidence 00 00 00000000 111111 111267899988765553
Q ss_pred c-----cccCCCCCEEEEECCCCCCh-----hhhhhhccccCceEEEeCCccC
Q 001501 545 P-----RLANFRFRQVLIDESTQATE-----PECLIPLVLGAKQVVLVGDHCQ 587 (1066)
Q Consensus 545 ~-----~L~~~~Fd~VIIDEAsQ~tE-----~e~LIpL~~~~krlILVGD~~Q 587 (1066)
. .+++.+|++||.||+-+.-- ..-|+.+. ...|++|-|=|-|
T Consensus 513 ~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~-An~RlLLTGTPLQ 564 (941)
T KOG0389|consen 513 SKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSIN-ANFRLLLTGTPLQ 564 (941)
T ss_pred ChHHHHHHHhccccEEEecchhhhhccchHHHHHhcccc-ccceEEeeCCccc
Confidence 2 37788999999999987643 12244432 4569999999999
No 359
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=90.46 E-value=0.91 Score=52.38 Aligned_cols=44 Identities=23% Similarity=0.259 Sum_probs=30.3
Q ss_pred CCCEEEEECCCCCChhh--hhhhccc---cCceEEEeCC-ccCCCceeec
Q 001501 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGD-HCQLGPVIMC 594 (1066)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e--~LIpL~~---~~krlILVGD-~~QLpPvv~s 594 (1066)
.++++|||||..+++.. .|+..+- ...-+||+-+ +.+|.|++.|
T Consensus 107 ~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~S 156 (325)
T PRK06871 107 GNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYS 156 (325)
T ss_pred CceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHh
Confidence 68899999999998743 3444431 2345667666 5689999865
No 360
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=90.41 E-value=0.66 Score=60.24 Aligned_cols=66 Identities=24% Similarity=0.300 Sum_probs=58.0
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+|++.|++|+..+....-++|.+|-|+|||.+.-..|+.-++.++ ++..++|...-.++....+..
T Consensus 119 ~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~q-rviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 119 ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRDGQ-RVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHcCC-ceEeccchhhhhhhHHHHHHH
Confidence 799999999999888888999999999999999888887777776 799999998888877776654
No 361
>PRK09354 recA recombinase A; Provisional
Probab=90.41 E-value=0.59 Score=54.31 Aligned_cols=40 Identities=23% Similarity=0.284 Sum_probs=31.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~ 445 (1066)
..+++|.||||||||+++..++....+.+. +++.+..-+.
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~-~~~yId~E~s 99 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGG-TAAFIDAEHA 99 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEECCccc
Confidence 448999999999999999999888877654 6666665443
No 362
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=90.39 E-value=0.34 Score=57.20 Aligned_cols=23 Identities=43% Similarity=0.684 Sum_probs=18.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
-.|+.||||||||+++..+...+
T Consensus 167 gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred ceEEECCCCCChHHHHHHHHHHh
Confidence 37899999999999887776543
No 363
>PRK13342 recombination factor protein RarA; Reviewed
Probab=90.36 E-value=0.4 Score=57.06 Aligned_cols=23 Identities=39% Similarity=0.595 Sum_probs=18.6
Q ss_pred CcEEEECCCCCcHhHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~ 428 (1066)
+..+|+||||||||+++..+...
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~ 59 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGA 59 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 35788999999999988776554
No 364
>PRK08233 hypothetical protein; Provisional
Probab=90.34 E-value=0.2 Score=51.88 Aligned_cols=24 Identities=25% Similarity=0.343 Sum_probs=19.9
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+..|.|+|||||||++..++..|
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 457889999999999988777655
No 365
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=90.34 E-value=0.26 Score=51.44 Aligned_cols=47 Identities=26% Similarity=0.340 Sum_probs=33.4
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..+|.||||||||+.+..++..+ + .+++.++.....-+++.+|+..+
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~-~~~~~iat~~~~~~e~~~ri~~h 49 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---G-LQVLYIATAQPFDDEMAARIAHH 49 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---C-CCcEeCcCCCCChHHHHHHHHHH
Confidence 57999999999999987776543 2 35666665455566788887543
No 366
>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=90.32 E-value=0.31 Score=53.73 Aligned_cols=40 Identities=25% Similarity=0.560 Sum_probs=31.4
Q ss_pred HhcCCc-EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcC
Q 001501 402 VLQRPI-SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1066)
Q Consensus 402 aL~~~l-~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1066)
++..++ .+|.|++|||||+++..+++.+.+.- ..|.++++
T Consensus 9 l~~~~fr~viIG~sGSGKT~li~~lL~~~~~~f-~~I~l~t~ 49 (241)
T PF04665_consen 9 LLKDPFRMVIIGKSGSGKTTLIKSLLYYLRHKF-DHIFLITP 49 (241)
T ss_pred hcCCCceEEEECCCCCCHHHHHHHHHHhhcccC-CEEEEEec
Confidence 344554 57999999999999999998876654 47888876
No 367
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=90.29 E-value=0.36 Score=55.76 Aligned_cols=34 Identities=38% Similarity=0.502 Sum_probs=27.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+.-|.|+||+||||++..++..+...+. +|.|++
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~-~v~vi~ 91 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQGH-KVAVLA 91 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEE
Confidence 4668999999999999999988876644 676665
No 368
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=90.26 E-value=0.39 Score=54.36 Aligned_cols=38 Identities=37% Similarity=0.556 Sum_probs=27.8
Q ss_pred HHHHHHHHHHhcC---CcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 393 ASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 393 ~sQ~~AV~~aL~~---~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
+.+.+.+...+.. +..+|+||||||||+++..+...+.
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~ 63 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY 63 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence 3455555555542 3579999999999999988877764
No 369
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=90.25 E-value=1.1 Score=55.87 Aligned_cols=147 Identities=22% Similarity=0.296 Sum_probs=88.3
Q ss_pred CCCHHHHHHHHHHhc---CCcEEE-ECCCCCcHhHHHHHHHHHHHH-c-CCCeEEEEcCcHHHHHHHHHHHHhc--CCeE
Q 001501 390 ELNASQVFAVKSVLQ---RPISLI-QGPPGTGKTVTSAAIVYHMAK-Q-GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~l~LI-qGPPGTGKTtTla~iI~~Llk-~-~~~rILV~ApSN~AvD~L~eRL~~~--gl~i 461 (1066)
.|-+.|.+-+.-..+ +++-.| ---=|=|||.-...++.+|.. . -+++.||++|--. .++-...+.+. .+++
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~St-L~NW~~Ef~rf~P~l~~ 245 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKST-LDNWMNEFKRFTPSLNV 245 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhh-HHHHHHHHHHhCCCcce
Confidence 577788887776554 555444 446799999766666666654 2 3568999998654 34444445543 3444
Q ss_pred EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHh--ccccccccc
Q 001501 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQ--SADVICCTC 539 (1066)
Q Consensus 462 vRlg~~sre~i~~~~~~l~l~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~--~a~VI~~T~ 539 (1066)
+.+..... .|. ...++++. ..+|+++|-
T Consensus 246 ~~~~Gdk~---------------------------------------------eR~-----~~~r~~~~~~~fdV~iTsY 275 (971)
T KOG0385|consen 246 VVYHGDKE---------------------------------------------ERA-----ALRRDIMLPGRFDVCITSY 275 (971)
T ss_pred EEEeCCHH---------------------------------------------HHH-----HHHHHhhccCCCceEeehH
Confidence 44322110 000 00111111 356666665
Q ss_pred cccCC--ccccCCCCCEEEEECCCCCChhhhhhh-cc---ccCceEEEeCCccC
Q 001501 540 VGAGD--PRLANFRFRQVLIDESTQATEPECLIP-LV---LGAKQVVLVGDHCQ 587 (1066)
Q Consensus 540 ~~a~~--~~L~~~~Fd~VIIDEAsQ~tE~e~LIp-L~---~~~krlILVGD~~Q 587 (1066)
..+.. ..|..+.+.|+|||||..+--..+++. ++ ....++.|.|=|-|
T Consensus 276 Ei~i~dk~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQ 329 (971)
T KOG0385|consen 276 EIAIKDKSFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQ 329 (971)
T ss_pred HHHHhhHHHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCccc
Confidence 44433 347778999999999999876555433 22 24579999999999
No 370
>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=90.14 E-value=0.35 Score=58.91 Aligned_cols=24 Identities=42% Similarity=0.707 Sum_probs=20.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
-.|+.||||||||+++..++..|.
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhhc
Confidence 379999999999998877776663
No 371
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=90.11 E-value=1 Score=57.54 Aligned_cols=47 Identities=23% Similarity=0.251 Sum_probs=34.0
Q ss_pred EEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+.+-.-|+|||.+++..++.....+ ..|-|+|||..-|.+-.+.+..
T Consensus 98 Iaem~TGeGKTLva~lpa~l~aL~G-~~V~IvTpn~yLA~rd~e~~~~ 144 (830)
T PRK12904 98 IAEMKTGEGKTLVATLPAYLNALTG-KGVHVVTVNDYLAKRDAEWMGP 144 (830)
T ss_pred hhhhhcCCCcHHHHHHHHHHHHHcC-CCEEEEecCHHHHHHHHHHHHH
Confidence 5566899999998765554222234 3789999999988887776654
No 372
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=90.09 E-value=0.38 Score=52.34 Aligned_cols=37 Identities=27% Similarity=0.334 Sum_probs=28.0
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHc----CCCeEEEEcCcH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQ----GQGQVLVCAPSN 444 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~----~~~rILV~ApSN 444 (1066)
+||.||||+||||.+..++..+... .++||.++--++
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 7999999999999999888766544 344666665444
No 373
>PRK12608 transcription termination factor Rho; Provisional
Probab=90.08 E-value=0.4 Score=56.06 Aligned_cols=50 Identities=26% Similarity=0.326 Sum_probs=37.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCC---eEEEEcCcHHHHHHHHHHHHh
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQG---QVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~---rILV~ApSN~AvD~L~eRL~~ 456 (1066)
-.+|.||||||||+++..++..+..+.+. -++++.....-+.++.+.+..
T Consensus 135 R~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~ 187 (380)
T PRK12608 135 RGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKG 187 (380)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhh
Confidence 46999999999999999998888775322 355666666677777777654
No 374
>PRK05541 adenylylsulfate kinase; Provisional
Probab=90.06 E-value=0.4 Score=49.74 Aligned_cols=29 Identities=24% Similarity=0.307 Sum_probs=23.7
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCC
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~ 434 (1066)
.+.+|.|+||+||||++..+...|.....
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l~~~~~ 36 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLKLKYS 36 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 46789999999999999888887765544
No 375
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=90.03 E-value=1.2 Score=57.19 Aligned_cols=43 Identities=23% Similarity=0.217 Sum_probs=30.6
Q ss_pred CCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.-|.|||.+++..++..+. ....|-|+|+|..-|..=.+.+..
T Consensus 103 ~TGEGKTLvA~l~a~l~al-~G~~VhvvT~ndyLA~RD~e~m~~ 145 (913)
T PRK13103 103 RTGEGKTLVGTLAVYLNAL-SGKGVHVVTVNDYLARRDANWMRP 145 (913)
T ss_pred cCCCCChHHHHHHHHHHHH-cCCCEEEEeCCHHHHHHHHHHHHH
Confidence 6899999976655443333 445899999999887766665543
No 376
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=89.96 E-value=0.5 Score=54.69 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=28.5
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEE
Q 001501 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1066)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1066)
+.+..++. ....+|.|++||||||++..++..+-. ..+|++
T Consensus 151 ~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~ip~--~~ri~t 192 (332)
T PRK13900 151 EFLEHAVISKKNIIISGGTSTGKTTFTNAALREIPA--IERLIT 192 (332)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhCCC--CCeEEE
Confidence 34444433 677999999999999999887765522 335554
No 377
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=89.92 E-value=1.3 Score=52.27 Aligned_cols=51 Identities=22% Similarity=0.312 Sum_probs=32.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCC-CeEEEEc--CcHHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCA--PSNVAVDQLAEKIS 455 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~-~rILV~A--pSN~AvD~L~eRL~ 455 (1066)
....+|.||||+|||+++..+...+..... ..+.|+. ....-+.+|.+.+.
T Consensus 168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIl 221 (415)
T TIGR00767 168 GQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVK 221 (415)
T ss_pred CCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHhh
Confidence 457899999999999987776665544421 1232222 22245666666654
No 378
>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=89.84 E-value=0.25 Score=49.78 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=18.3
Q ss_pred cEEEECCCCCcHhHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~ 428 (1066)
+.+|.|+||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4689999999999988776654
No 379
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=89.83 E-value=0.4 Score=57.38 Aligned_cols=23 Identities=39% Similarity=0.678 Sum_probs=18.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
-.|+.||||||||+++..+...+
T Consensus 219 gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 219 GVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 47899999999999887776543
No 380
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.82 E-value=0.32 Score=58.86 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=20.0
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
.|++||||||||+++..++..+..
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcc
Confidence 689999999999998877766643
No 381
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.82 E-value=0.9 Score=54.44 Aligned_cols=69 Identities=22% Similarity=0.257 Sum_probs=52.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHH-HHHHHHHHcCC-------CeEEEEcCcHHHHHHHHHHHHhc
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQGQ-------GQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla-~iI~~Llk~~~-------~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
..++.-|++||=.+|...=+||.+.-|||||-.=. -+|..|....+ .=-||++||...+-++.+-+.+.
T Consensus 158 ~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKL 234 (708)
T KOG0348|consen 158 SAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKL 234 (708)
T ss_pred CccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHH
Confidence 35678899999999998889999999999997543 45555555422 13799999999998887766543
No 382
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=89.82 E-value=0.16 Score=56.23 Aligned_cols=68 Identities=28% Similarity=0.287 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcC--CCeEEEEcCcHHHHHHHHHHHHhcC
Q 001501 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISATG 458 (1066)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~--~~rILV~ApSN~AvD~L~eRL~~~g 458 (1066)
-+.-|+.||..++...-++.|+-.|||||.+.+.-+.+.+... ..++|+++||...+-++.+-+...|
T Consensus 50 PS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg 119 (400)
T KOG0328|consen 50 PSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALG 119 (400)
T ss_pred chHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhc
Confidence 3567999999999988899999999999988765554444432 2479999999999999988887654
No 383
>PRK08118 topology modulation protein; Reviewed
Probab=89.77 E-value=0.27 Score=51.08 Aligned_cols=22 Identities=18% Similarity=0.394 Sum_probs=17.4
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+|.||||+||||++..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5899999999998776665443
No 384
>PRK13764 ATPase; Provisional
Probab=89.71 E-value=0.37 Score=59.66 Aligned_cols=27 Identities=33% Similarity=0.461 Sum_probs=23.5
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
....||.|||||||||++..++.++..
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~ 283 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYAD 283 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 567899999999999999998877754
No 385
>PHA02244 ATPase-like protein
Probab=89.69 E-value=0.46 Score=55.42 Aligned_cols=32 Identities=16% Similarity=0.302 Sum_probs=23.6
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHH
Q 001501 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~ 428 (1066)
..+..++. ....+|.||||||||+.+..+...
T Consensus 110 ~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 110 ADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 34444444 556889999999999998877665
No 386
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=89.67 E-value=0.38 Score=55.29 Aligned_cols=19 Identities=53% Similarity=0.948 Sum_probs=15.6
Q ss_pred EEEECCCCCcHhHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIV 426 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI 426 (1066)
+|+.||||||||..+.+.+
T Consensus 188 VLLYGPPGTGKTLLAkAVA 206 (406)
T COG1222 188 VLLYGPPGTGKTLLAKAVA 206 (406)
T ss_pred eEeeCCCCCcHHHHHHHHH
Confidence 7999999999998665444
No 387
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.58 E-value=0.36 Score=56.49 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=20.3
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
..|+.||||||||+++..++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 368999999999999888777664
No 388
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=89.57 E-value=0.54 Score=46.03 Aligned_cols=45 Identities=33% Similarity=0.505 Sum_probs=31.9
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
.+++|.+|+|||++...+...+.+.+. +|+++---. +.+.+++..
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~-~V~~id~D~---~~~~~~~~~ 46 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGK-PVLAIDADP---DDLPERLSV 46 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEECCc---hhhHHHHhh
Confidence 578999999999999999888877655 565444222 555555543
No 389
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=89.49 E-value=1.3 Score=56.82 Aligned_cols=47 Identities=26% Similarity=0.242 Sum_probs=34.2
Q ss_pred EEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
+.+-.-|+|||.+++..++.-+..+ ..|.|+|+|.--|....+.+..
T Consensus 99 IaEm~TGEGKTL~a~lp~~l~al~g-~~VhIvT~ndyLA~RD~e~m~~ 145 (908)
T PRK13107 99 IAEMRTGEGKTLTATLPAYLNALTG-KGVHVITVNDYLARRDAENNRP 145 (908)
T ss_pred cccccCCCCchHHHHHHHHHHHhcC-CCEEEEeCCHHHHHHHHHHHHH
Confidence 4556899999998775554333334 4699999999888877776644
No 390
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=89.49 E-value=0.27 Score=50.41 Aligned_cols=21 Identities=38% Similarity=0.515 Sum_probs=15.9
Q ss_pred EEEECCCCCcHhHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1066)
.+|.|+|||||||++..+..+
T Consensus 2 I~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHc
Confidence 479999999999998777655
No 391
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=89.42 E-value=0.5 Score=50.75 Aligned_cols=32 Identities=34% Similarity=0.469 Sum_probs=27.5
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
..|.|..|+||||+.+.++..|.+.+. |||++
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~-rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGK-KVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCC-cEEEE
Confidence 345599999999999999999998766 78877
No 392
>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=89.41 E-value=0.26 Score=54.28 Aligned_cols=29 Identities=28% Similarity=0.593 Sum_probs=20.2
Q ss_pred EECCCCCcHhHHHHHHHHHHHHcCCCeEEE
Q 001501 410 IQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1066)
Q Consensus 410 IqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1066)
|.||||+||||.+..+..++...+. ++.+
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~-~~~~ 29 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGR-DVYI 29 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S--EEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccC-CceE
Confidence 6899999999998888877755433 4444
No 393
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=89.28 E-value=0.45 Score=51.55 Aligned_cols=40 Identities=20% Similarity=0.239 Sum_probs=29.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcC-----CCeEEEEcCcH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN 444 (1066)
..++.|.||||||||+.+..++....... ..+++.+..-+
T Consensus 19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~ 63 (235)
T cd01123 19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG 63 (235)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence 56789999999999999998887654332 24555555433
No 394
>PRK14530 adenylate kinase; Provisional
Probab=89.25 E-value=0.33 Score=52.27 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=20.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+..+|.||||+||||.+..+...+
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHh
Confidence 3457899999999999888776554
No 395
>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=89.23 E-value=0.21 Score=49.80 Aligned_cols=37 Identities=24% Similarity=0.363 Sum_probs=22.8
Q ss_pred CEEEEECCCCCCh-hh-hhhhccccCceEEEeCCccCCCc
Q 001501 553 RQVLIDESTQATE-PE-CLIPLVLGAKQVVLVGDHCQLGP 590 (1066)
Q Consensus 553 d~VIIDEAsQ~tE-~e-~LIpL~~~~krlILVGD~~QLpP 590 (1066)
.+|++||...++. .+ .|+-+ ...+++-+-|....||.
T Consensus 64 ~ill~DEiNrappktQsAlLea-m~Er~Vt~~g~~~~lp~ 102 (131)
T PF07726_consen 64 NILLADEINRAPPKTQSALLEA-MEERQVTIDGQTYPLPD 102 (131)
T ss_dssp SEEEEETGGGS-HHHHHHHHHH-HHHSEEEETTEEEE--S
T ss_pred ceeeecccccCCHHHHHHHHHH-HHcCeEEeCCEEEECCC
Confidence 5899999988886 22 22222 23577888888888776
No 396
>PTZ00301 uridine kinase; Provisional
Probab=89.22 E-value=0.52 Score=50.98 Aligned_cols=27 Identities=30% Similarity=0.457 Sum_probs=22.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
-+..|.||||+||||++..++..|...
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~~ 30 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMAH 30 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence 457799999999999998888777654
No 397
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.21 E-value=0.51 Score=48.79 Aligned_cols=26 Identities=35% Similarity=0.590 Sum_probs=22.3
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcC
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~ 433 (1066)
..|+|+||+||||.+..++..|...+
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g 33 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKG 33 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcC
Confidence 57999999999999998887777664
No 398
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=89.17 E-value=1.4 Score=56.17 Aligned_cols=45 Identities=27% Similarity=0.308 Sum_probs=32.6
Q ss_pred EEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHH
Q 001501 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL 454 (1066)
+.+=.-|.|||.+++..++..+..+. .|-|+|+|..-|.+=.+.+
T Consensus 97 iaEm~TGEGKTLvA~l~a~l~al~G~-~v~vvT~neyLA~Rd~e~~ 141 (796)
T PRK12906 97 IAEMKTGEGKTLTATLPVYLNALTGK-GVHVVTVNEYLSSRDATEM 141 (796)
T ss_pred cccccCCCCCcHHHHHHHHHHHHcCC-CeEEEeccHHHHHhhHHHH
Confidence 34447899999997766655555554 8999999998776555544
No 399
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=89.16 E-value=0.28 Score=58.95 Aligned_cols=27 Identities=33% Similarity=0.577 Sum_probs=22.4
Q ss_pred hcCCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 403 LQRPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 403 L~~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+...+.||+||+|+|||||+..+...|
T Consensus 108 l~~~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 108 LGSRILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred CCceEEEEeCCCCCCchhHHHHHHHhh
Confidence 446799999999999999997766554
No 400
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=89.11 E-value=4.6 Score=52.31 Aligned_cols=56 Identities=27% Similarity=0.504 Sum_probs=45.0
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH---HHHHHHHhcC---CeEEEe
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATG---LKVVRL 464 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD---~L~eRL~~~g---l~ivRl 464 (1066)
-+|-|-.|||||+.+..-+...++.+ ++|..++|+-..-. ++++++...| +.|.|+
T Consensus 4 ~~lyg~~gtgkT~~l~~e~~~~~~~g-kpviyIvP~q~sFe~E~~~L~~~~~~g~~~i~V~~F 65 (1108)
T COG3857 4 QLLYGRAGTGKTEILTEEIQEELEKG-KPVIYIVPSQMSFEKEKEILERLRQGGSFRIQVTRF 65 (1108)
T ss_pred eeehhhccccHHHHHHHHHHHHHHcC-CcEEEEcccchhHHHHHHHHhCcccCCeeeEEEEEH
Confidence 47889999999999999999988888 59999999887664 6777776666 445554
No 401
>PRK03839 putative kinase; Provisional
Probab=89.10 E-value=0.33 Score=50.59 Aligned_cols=22 Identities=36% Similarity=0.582 Sum_probs=17.9
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+|.|+||+||||+...+...+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999877666554
No 402
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=89.09 E-value=1 Score=50.99 Aligned_cols=72 Identities=19% Similarity=0.239 Sum_probs=43.8
Q ss_pred CHHHHHHHHHHhc-C--CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001501 392 NASQVFAVKSVLQ-R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1066)
Q Consensus 392 N~sQ~~AV~~aL~-~--~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~ 466 (1066)
|+...+..+..+. . .+.-|.|+||+||||++..++..|... .++.|+.---... +=.+||...+..++.+..
T Consensus 88 n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~--~~~~VI~gD~~t~-~Da~rI~~~g~pvvqi~t 162 (290)
T PRK10463 88 NNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS--VPCAVIEGDQQTV-NDAARIRATGTPAIQVNT 162 (290)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC--CCEEEECCCcCcH-HHHHHHHhcCCcEEEecC
Confidence 4444444444443 2 245589999999999999998877543 2555554211111 125567777887776643
No 403
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=89.07 E-value=0.48 Score=50.14 Aligned_cols=32 Identities=31% Similarity=0.547 Sum_probs=23.2
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+..|.||+|+||||++..+...+ ...++.++.
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l---~~~~~~v~~ 32 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL---GNPKVVIIS 32 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh---CCCCeEEEE
Confidence 35799999999999998777655 223455544
No 404
>PRK00889 adenylylsulfate kinase; Provisional
Probab=89.05 E-value=0.57 Score=48.59 Aligned_cols=34 Identities=26% Similarity=0.318 Sum_probs=26.2
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
.+.+|.|+||+||||++..+...+...+ .+++++
T Consensus 5 ~~i~~~G~~GsGKST~a~~la~~l~~~g-~~v~~i 38 (175)
T PRK00889 5 VTVWFTGLSGAGKTTIARALAEKLREAG-YPVEVL 38 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEE
Confidence 4678999999999999988888775544 355554
No 405
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=89.05 E-value=0.53 Score=54.22 Aligned_cols=46 Identities=28% Similarity=0.494 Sum_probs=32.0
Q ss_pred HHhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH
Q 001501 401 SVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1066)
Q Consensus 401 ~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD 448 (1066)
..+..+..++.||||||||+.+..++..+- .+-..+-|++.-.+.|
T Consensus 39 a~~~~~~vll~G~PG~gKT~la~~lA~~l~--~~~~~i~~t~~l~p~d 84 (329)
T COG0714 39 ALLAGGHVLLEGPPGVGKTLLARALARALG--LPFVRIQCTPDLLPSD 84 (329)
T ss_pred HHHcCCCEEEECCCCccHHHHHHHHHHHhC--CCeEEEecCCCCCHHH
Confidence 334588999999999999998887776653 2234555555555555
No 406
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.00 E-value=0.36 Score=51.70 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=23.4
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcC
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~ 433 (1066)
++.+++|+||+|||+.+.+++..|-+..
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i 29 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEI 29 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence 4678999999999999998887776553
No 407
>PRK06762 hypothetical protein; Provisional
Probab=88.99 E-value=0.35 Score=49.61 Aligned_cols=40 Identities=23% Similarity=0.485 Sum_probs=27.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL 454 (1066)
.+.+|.|+|||||||.+..+...+ +. .+.++. .|.+...+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l---~~-~~~~i~-----~D~~r~~l 42 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL---GR-GTLLVS-----QDVVRRDM 42 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh---CC-CeEEec-----HHHHHHHh
Confidence 367899999999999888777665 22 344443 36665543
No 408
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=88.95 E-value=1.5 Score=55.37 Aligned_cols=64 Identities=23% Similarity=0.296 Sum_probs=52.0
Q ss_pred CCCHHHHHHHHHHhc---C--CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 390 ELNASQVFAVKSVLQ---R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~--~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
.|+..|..++..... + ...+|.|.+|+|||.+++.++..+ +.++||++++...|+++.+.|...
T Consensus 12 ~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~~----~r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 12 KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIARL----QRPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHHh----CCCEEEEECCHHHHHHHHHHHHHh
Confidence 688999999887653 2 246799999999999988755432 358999999999999999998765
No 409
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=88.95 E-value=1.1 Score=56.56 Aligned_cols=62 Identities=23% Similarity=0.292 Sum_probs=50.3
Q ss_pred CHHHHHHHHHHhc---C--CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 392 NASQVFAVKSVLQ---R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 392 N~sQ~~AV~~aL~---~--~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
...|-.|+..... + ...+|.|..|||||.|++.++..+ +.++||+|++...|.+|.+-|...
T Consensus 11 ~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~----~~p~Lvi~~n~~~A~ql~~el~~f 77 (655)
T TIGR00631 11 AGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV----NRPTLVIAHNKTLAAQLYNEFKEF 77 (655)
T ss_pred ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh----CCCEEEEECCHHHHHHHHHHHHHh
Confidence 5678888887643 2 256799999999999999877653 348999999999999999998765
No 410
>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=88.94 E-value=0.52 Score=51.98 Aligned_cols=33 Identities=21% Similarity=0.518 Sum_probs=25.2
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
+.+|.|+|||||||.+..+..++-..+. ++.++
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l~~~~~-~v~~i 33 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKLSEKNI-DVIIL 33 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCC-ceEEE
Confidence 4689999999999999988887765443 44444
No 411
>PRK00131 aroK shikimate kinase; Reviewed
Probab=88.92 E-value=0.37 Score=49.22 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.8
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
....+|.|+||||||++...+...|
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 3467899999999999988777665
No 412
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=88.87 E-value=0.63 Score=55.65 Aligned_cols=51 Identities=20% Similarity=0.226 Sum_probs=39.9
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
..+++|.|+||+|||+.+..++.+++.....+||+++.-.. .+++.+|+..
T Consensus 195 G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~-~~~i~~R~~~ 245 (434)
T TIGR00665 195 SDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMS-AEQLAMRMLS 245 (434)
T ss_pred CeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCC-HHHHHHHHHH
Confidence 45899999999999999999999887654458988876554 4456667654
No 413
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=88.84 E-value=2 Score=54.51 Aligned_cols=56 Identities=25% Similarity=0.396 Sum_probs=43.7
Q ss_pred CCCHHHHHHHHHHhcC--------C--cEEEECCCCCcHhHHHHHHHHHHHHc-CC-----CeEEEEcCcHH
Q 001501 390 ELNASQVFAVKSVLQR--------P--ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQ-----GQVLVCAPSNV 445 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--------~--l~LIqGPPGTGKTtTla~iI~~Llk~-~~-----~rILV~ApSN~ 445 (1066)
.|=+.|++.++....+ . =.++.=-||+|||...+.+++.++++ +. .+.||+||+--
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sL 309 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSL 309 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHH
Confidence 5778999999876431 1 14566679999999999999999988 44 58999999753
No 414
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=88.82 E-value=0.62 Score=48.98 Aligned_cols=33 Identities=27% Similarity=0.439 Sum_probs=24.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
+..|.|+|||||||++..++..|...+. ++.++
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~-~~~~i 33 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGI-GPVVI 33 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEE
Confidence 3679999999999999888877765443 44443
No 415
>PRK14531 adenylate kinase; Provisional
Probab=88.79 E-value=0.36 Score=50.71 Aligned_cols=23 Identities=35% Similarity=0.551 Sum_probs=18.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
-.+|.|||||||||....+...+
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 46899999999999877666543
No 416
>PRK06620 hypothetical protein; Validated
Probab=88.75 E-value=0.34 Score=52.52 Aligned_cols=19 Identities=37% Similarity=0.522 Sum_probs=16.3
Q ss_pred CcEEEECCCCCcHhHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAA 424 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~ 424 (1066)
+..+|+||||||||+.+..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3479999999999998764
No 417
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=88.71 E-value=0.49 Score=56.54 Aligned_cols=25 Identities=40% Similarity=0.695 Sum_probs=21.2
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
+.|.|||||||||++..++..+.+.
T Consensus 72 vavvGPpGtGKsTLirSlVrr~tk~ 96 (1077)
T COG5192 72 VAVVGPPGTGKSTLIRSLVRRFTKQ 96 (1077)
T ss_pred EEeecCCCCChhHHHHHHHHHHHHh
Confidence 4489999999999999998877654
No 418
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=88.71 E-value=0.37 Score=52.40 Aligned_cols=32 Identities=28% Similarity=0.600 Sum_probs=23.1
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
-+|.||||+||||-....-..|...+. ++.++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr-~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGR-PVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCC-ceEEE
Confidence 479999999999988777665555544 44443
No 419
>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=88.70 E-value=0.36 Score=50.18 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=19.9
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+.+|.||+|+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 367899999999999998766554
No 420
>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=88.68 E-value=0.34 Score=50.70 Aligned_cols=21 Identities=33% Similarity=0.697 Sum_probs=17.4
Q ss_pred EEEECCCCCcHhHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1066)
.+|.|||||||||++..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988766554
No 421
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=88.65 E-value=0.66 Score=46.65 Aligned_cols=25 Identities=24% Similarity=0.466 Sum_probs=21.8
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
..+.++.|+.|+|||+.+..++..|
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 4588999999999999998888765
No 422
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=88.63 E-value=0.41 Score=62.03 Aligned_cols=75 Identities=23% Similarity=0.360 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh-----cCCeEEE
Q 001501 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA-----TGLKVVR 463 (1066)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~-----~gl~ivR 463 (1066)
+.|+-|.+.+....+ ++.++|-+|.|||||.++-.++.. .....++..++|...-++.+..-..+ .|+.+++
T Consensus 1143 ~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~--~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~~~~ 1220 (1674)
T KOG0951|consen 1143 DFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR--PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLGLRIVK 1220 (1674)
T ss_pred ccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC--CccceEEEEecchHHHHHHHHHHHHHhhccccCceEEe
Confidence 457888777776655 778999999999999876544433 33556899999999999888776543 3667777
Q ss_pred ecc
Q 001501 464 LCA 466 (1066)
Q Consensus 464 lg~ 466 (1066)
++.
T Consensus 1221 l~g 1223 (1674)
T KOG0951|consen 1221 LTG 1223 (1674)
T ss_pred cCC
Confidence 765
No 423
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=88.52 E-value=0.48 Score=53.39 Aligned_cols=34 Identities=32% Similarity=0.490 Sum_probs=28.7
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+.=|+|+||.||+|++-.++..|.+.+. +|-|+|
T Consensus 53 viGITG~PGaGKSTli~~L~~~l~~~G~-rVaVlA 86 (323)
T COG1703 53 VIGITGVPGAGKSTLIEALGRELRERGH-RVAVLA 86 (323)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHHCCc-EEEEEE
Confidence 4559999999999999999999988776 766665
No 424
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=88.45 E-value=0.48 Score=50.41 Aligned_cols=52 Identities=19% Similarity=0.358 Sum_probs=36.7
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcC---cHHHHHHHHHHHHh-cCCeEEEec
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP---SNVAVDQLAEKISA-TGLKVVRLC 465 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap---SN~AvD~L~eRL~~-~gl~ivRlg 465 (1066)
.-|-||||+|||+++..++..|.++ -++.|++. |+.=++ ++.+ .+.+++.+.
T Consensus 16 i~v~Gp~GSGKTaLie~~~~~L~~~--~~~aVI~~Di~t~~Da~----~l~~~~g~~i~~v~ 71 (202)
T COG0378 16 IGVGGPPGSGKTALIEKTLRALKDE--YKIAVITGDIYTKEDAD----RLRKLPGEPIIGVE 71 (202)
T ss_pred EEecCCCCcCHHHHHHHHHHHHHhh--CCeEEEeceeechhhHH----HHHhCCCCeeEEec
Confidence 4478999999999999999988776 36777763 444444 4444 666666553
No 425
>PRK04040 adenylate kinase; Provisional
Probab=88.36 E-value=0.38 Score=51.06 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=19.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+.+|.|+|||||||++..+...|
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHh
Confidence 57899999999999988777665
No 426
>PRK14532 adenylate kinase; Provisional
Probab=88.35 E-value=0.35 Score=50.68 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=17.4
Q ss_pred EEEECCCCCcHhHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1066)
.+|.|||||||||....++..
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999987766543
No 427
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=88.26 E-value=1.1 Score=51.97 Aligned_cols=44 Identities=18% Similarity=0.209 Sum_probs=30.2
Q ss_pred CCCEEEEECCCCCChhh--hhhhccc---cCceEEEeCCc-cCCCceeec
Q 001501 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGDH-CQLGPVIMC 594 (1066)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e--~LIpL~~---~~krlILVGD~-~QLpPvv~s 594 (1066)
.++++|||||..+++.. .|+..+- ....+||+... .+|.|++.|
T Consensus 132 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~S 181 (342)
T PRK06964 132 GARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILS 181 (342)
T ss_pred CceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHh
Confidence 68899999999998743 3443331 23456776655 778888765
No 428
>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=88.22 E-value=0.32 Score=49.69 Aligned_cols=21 Identities=24% Similarity=0.575 Sum_probs=17.2
Q ss_pred EEECCCCCcHhHHHHHHHHHH
Q 001501 409 LIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L 429 (1066)
+|.|||||||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 688999999998877766554
No 429
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=88.19 E-value=0.49 Score=54.99 Aligned_cols=45 Identities=22% Similarity=0.363 Sum_probs=30.2
Q ss_pred HHHHHHHHHhc-CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
...+.+..+.. +...+|.||.||||||++..++..+- ...+|+.+
T Consensus 150 ~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~--~~~rivti 195 (344)
T PRK13851 150 DLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIP--PQERLITI 195 (344)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccC--CCCCEEEE
Confidence 33444444443 67799999999999999988776542 23355543
No 430
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=88.14 E-value=0.61 Score=53.38 Aligned_cols=42 Identities=21% Similarity=0.334 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHhc-----------CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 388 LPELNASQVFAVKSVLQ-----------RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-----------~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+.+|+++|++++..++. ....+|.|+||||||++...+...|
T Consensus 105 l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 105 LEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred HhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 35799999988887663 3568899999999999887766544
No 431
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=88.13 E-value=1.6 Score=53.83 Aligned_cols=23 Identities=35% Similarity=0.354 Sum_probs=18.7
Q ss_pred CCcEEEECCCCCcHhHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVY 427 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~ 427 (1066)
..-.+|.|++|+|||+.+.++.-
T Consensus 419 G~~llI~G~SG~GKTsLlRaiaG 441 (604)
T COG4178 419 GERLLITGESGAGKTSLLRALAG 441 (604)
T ss_pred CCEEEEECCCCCCHHHHHHHHhc
Confidence 34579999999999998776653
No 432
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=88.09 E-value=0.72 Score=46.91 Aligned_cols=27 Identities=22% Similarity=0.479 Sum_probs=22.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcC
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~ 433 (1066)
+.+|.|+||||||+.+..+...+...+
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g 27 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRG 27 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 368999999999999888887776544
No 433
>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=88.01 E-value=0.66 Score=50.49 Aligned_cols=34 Identities=18% Similarity=0.209 Sum_probs=23.6
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1066)
.-|.||+|+||||++..++..|... ...+|.++.
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~ 36 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELIT 36 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEe
Confidence 5688999999999988777655431 223555544
No 434
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=87.99 E-value=1.2 Score=53.93 Aligned_cols=78 Identities=28% Similarity=0.365 Sum_probs=56.3
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHhHHHH-HHHHHHHHcCCCeEEEEcCcHH----HHHHHHHHHHhcCCeE
Q 001501 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNV----AVDQLAEKISATGLKV 461 (1066)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKTtTla-~iI~~Llk~~~~rILV~ApSN~----AvD~L~eRL~~~gl~i 461 (1066)
..+|-+-|..||+.-|- ..-.+|.-+-+||||-+.- +=|..++..+ +|.|.+.|--. --+++.+|..+.++++
T Consensus 214 ~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g-~KmlfLvPLVALANQKy~dF~~rYs~Lglkv 292 (830)
T COG1202 214 IEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGG-KKMLFLVPLVALANQKYEDFKERYSKLGLKV 292 (830)
T ss_pred cceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCC-CeEEEEehhHHhhcchHHHHHHHhhcccceE
Confidence 45788999999998765 4456777789999998753 2345555544 48888777544 4467888888888887
Q ss_pred -EEecc
Q 001501 462 -VRLCA 466 (1066)
Q Consensus 462 -vRlg~ 466 (1066)
+|+|.
T Consensus 293 airVG~ 298 (830)
T COG1202 293 AIRVGM 298 (830)
T ss_pred EEEech
Confidence 77765
No 435
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=87.98 E-value=0.47 Score=49.33 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.4
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
..+.++.|+||+||||++..+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 3578999999999999887776543
No 436
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=87.96 E-value=0.52 Score=57.48 Aligned_cols=26 Identities=27% Similarity=0.280 Sum_probs=21.8
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
...|++||||||||+++..++..|.-
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 45899999999999998888777643
No 437
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=87.90 E-value=0.72 Score=52.91 Aligned_cols=52 Identities=15% Similarity=0.268 Sum_probs=34.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcC-----CCeEEEEcCcH-HHHHHHHHHHHh
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN-VAVDQLAEKISA 456 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN-~AvD~L~eRL~~ 456 (1066)
..+++|.|+||||||+++..++....... ..+++.+..-+ --.+.|.+.+..
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~ 159 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEA 159 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHH
Confidence 56799999999999999999887665421 12555555433 234555554433
No 438
>PRK06696 uridine kinase; Validated
Probab=87.90 E-value=0.7 Score=50.13 Aligned_cols=33 Identities=24% Similarity=0.378 Sum_probs=24.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
+..|.|++||||||++..++..|-..+. +++++
T Consensus 24 iI~I~G~sgsGKSTlA~~L~~~l~~~g~-~v~~~ 56 (223)
T PRK06696 24 RVAIDGITASGKTTFADELAEEIKKRGR-PVIRA 56 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEe
Confidence 5779999999999999888877754432 44443
No 439
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=87.89 E-value=0.94 Score=47.58 Aligned_cols=34 Identities=26% Similarity=0.404 Sum_probs=26.4
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
.+.+|.|++|+||||.+..+..+|-..+. +++++
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~-~v~~~ 37 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGY-DVLFT 37 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 46789999999999999988887766554 45444
No 440
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=87.88 E-value=0.83 Score=54.48 Aligned_cols=51 Identities=25% Similarity=0.344 Sum_probs=40.2
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
..+++|-|+||+|||+.+..++.++......+|++++.= -..+++..|+..
T Consensus 194 g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlE-m~~~~l~~Rl~~ 244 (421)
T TIGR03600 194 GDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLE-MSAEQLGERLLA 244 (421)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC-CCHHHHHHHHHH
Confidence 568999999999999999999988874444588888744 366677777754
No 441
>PLN02200 adenylate kinase family protein
Probab=87.84 E-value=0.42 Score=52.49 Aligned_cols=24 Identities=33% Similarity=0.560 Sum_probs=19.4
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+.+|.|||||||||.+..++..+
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999888776543
No 442
>PRK02496 adk adenylate kinase; Provisional
Probab=87.80 E-value=0.45 Score=49.78 Aligned_cols=22 Identities=32% Similarity=0.729 Sum_probs=18.2
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999887776544
No 443
>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=87.77 E-value=0.48 Score=47.03 Aligned_cols=23 Identities=30% Similarity=0.631 Sum_probs=19.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+.+|.|+||||||+++..+...+
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35799999999999988777654
No 444
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=87.76 E-value=0.88 Score=49.93 Aligned_cols=59 Identities=19% Similarity=0.237 Sum_probs=40.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH---HHHHHHHhcCCeEEEecc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATGLKVVRLCA 466 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD---~L~eRL~~~gl~ivRlg~ 466 (1066)
+.-|.|++|+||||++..++..|..++. +|.++-+++.-.| .=..|+.+.|..++-+..
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G~-~V~viK~~~~~~d~~~~Dt~r~~~aGA~~v~~~~ 64 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERGY-RVATAKHTHHEFDKPDTDTYRFKKAGAEVVVVST 64 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCCC-eEEEEEecccCCCCCCchHHHHHHcCCcEEEEec
Confidence 4578999999999999999998877654 8888865554332 223355556665555433
No 445
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=87.72 E-value=1 Score=46.55 Aligned_cols=59 Identities=19% Similarity=0.246 Sum_probs=37.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH-----HHHHHHHhcCCeEEEecc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCA 466 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD-----~L~eRL~~~gl~ivRlg~ 466 (1066)
+..|.|++|||||+++..++..|...+. +|-++-+.+.-.+ .=..|+.+.|...+.+..
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~~g~-~V~~iK~~~~~~~~d~~g~Ds~~~~~aGa~~v~~~~ 66 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSARGL-RVAVIKHDHHDFDIDTPGKDSYRHREAGAEEVLVSS 66 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEEEecCCcccccCccchHHHHHHcCCCEEEEec
Confidence 5679999999999999999988766543 5666554333222 123345556665555443
No 446
>PRK07667 uridine kinase; Provisional
Probab=87.69 E-value=0.82 Score=48.56 Aligned_cols=35 Identities=26% Similarity=0.260 Sum_probs=26.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcC
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1066)
+..|.|+||+||||++..+...|-+.+. ++.++..
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~-~~~~i~~ 53 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGI-PFHIFHI 53 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEEc
Confidence 5679999999999999888877755444 5555443
No 447
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=87.68 E-value=0.74 Score=48.35 Aligned_cols=39 Identities=21% Similarity=0.257 Sum_probs=29.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1066)
.++..|.|+.||||||++..++..|...+. +|-++-++.
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g~-~vg~Ik~~~ 44 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARGI-RPGLIKHTH 44 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcCC-eEEEEEEcC
Confidence 457789999999999999999988765443 566655433
No 448
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=87.65 E-value=0.68 Score=52.14 Aligned_cols=35 Identities=26% Similarity=0.280 Sum_probs=28.8
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1066)
+..|.|++||||||++..++..|.+++ +|.++=..
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G--~V~~IKhd 37 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG--RVGTVKHM 37 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC--CEEEEEEc
Confidence 467899999999999999999998876 56665543
No 449
>PRK14527 adenylate kinase; Provisional
Probab=87.64 E-value=0.46 Score=50.13 Aligned_cols=25 Identities=24% Similarity=0.622 Sum_probs=20.1
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
..+.+|.||||+||||.+..+...+
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999999999887765543
No 450
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=87.63 E-value=1.2 Score=50.08 Aligned_cols=25 Identities=28% Similarity=0.367 Sum_probs=20.4
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
...+|.||+|+||||++..++..+.
T Consensus 112 ~~~~i~g~~g~GKttl~~~l~~~~~ 136 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLRDLARILS 136 (270)
T ss_pred eEEEEEcCCCCCHHHHHHHHhCccC
Confidence 3579999999999999887775543
No 451
>PRK05480 uridine/cytidine kinase; Provisional
Probab=87.63 E-value=0.67 Score=49.57 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=20.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+..|.|++||||||++..+...+
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 367899999999999887777655
No 452
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=87.63 E-value=0.38 Score=56.97 Aligned_cols=22 Identities=50% Similarity=0.806 Sum_probs=18.1
Q ss_pred cEEEECCCCCcHhHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~ 428 (1066)
-.|+.||||||||+++..++..
T Consensus 181 gvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 181 GVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred eEEEECCCCCCHHHHHHHHHHh
Confidence 4789999999999988766543
No 453
>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=87.46 E-value=0.42 Score=48.34 Aligned_cols=20 Identities=35% Similarity=0.705 Sum_probs=16.9
Q ss_pred EECCCCCcHhHHHHHHHHHH
Q 001501 410 IQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 410 IqGPPGTGKTtTla~iI~~L 429 (1066)
|.||||+||||....+...+
T Consensus 1 i~G~PgsGK~t~~~~la~~~ 20 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRY 20 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHHhc
Confidence 68999999999988777654
No 454
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=87.45 E-value=0.67 Score=51.48 Aligned_cols=34 Identities=38% Similarity=0.561 Sum_probs=29.5
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+.++.|.+|+|||++.+.+...+.+.+. +||++.
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~-~vLlvd 35 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGK-KVLLVS 35 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCC-CceEEe
Confidence 5788999999999999999999888775 777765
No 455
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=87.29 E-value=1.4 Score=51.60 Aligned_cols=61 Identities=21% Similarity=0.325 Sum_probs=46.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHH-----HHHHHHHhcCCeEEEeccc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCAK 467 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD-----~L~eRL~~~gl~ivRlg~~ 467 (1066)
++.-|.|++||||||++..++..|.+++. +|.++-++....| .=..|+.+.|...+-+...
T Consensus 206 ~~~~~~g~~~~GKtt~~~~l~~~l~~~g~-~v~~iKh~~h~~~~d~~g~Ds~r~~~aGa~~v~~~~~ 271 (366)
T PRK14489 206 PLLGVVGYSGTGKTTLLEKLIPELIARGY-RIGLIKHSHHRVDIDKPGKDSHRLRAAGANPTMIVCP 271 (366)
T ss_pred cEEEEecCCCCCHHHHHHHHHHHHHHcCC-EEEEEEECCcccCCCCCCChhHHHHhCCCceEEEEcC
Confidence 46789999999999999999998877665 8888888776543 1255677777776665443
No 456
>PRK14528 adenylate kinase; Provisional
Probab=87.29 E-value=0.5 Score=49.89 Aligned_cols=23 Identities=26% Similarity=0.570 Sum_probs=18.3
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
..+|.||||+||||++..+...+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36899999999999887665443
No 457
>COG3911 Predicted ATPase [General function prediction only]
Probab=87.28 E-value=0.48 Score=48.29 Aligned_cols=21 Identities=38% Similarity=0.575 Sum_probs=17.9
Q ss_pred CcEEEECCCCCcHhHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIV 426 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI 426 (1066)
.+++|.|+||.||||.++++.
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa 30 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALA 30 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHH
Confidence 478999999999999877554
No 458
>PRK07261 topology modulation protein; Provisional
Probab=87.26 E-value=0.49 Score=49.31 Aligned_cols=20 Identities=25% Similarity=0.356 Sum_probs=17.0
Q ss_pred EEEECCCCCcHhHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVY 427 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~ 427 (1066)
.+|.|+||+||||.+..+..
T Consensus 3 i~i~G~~GsGKSTla~~l~~ 22 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQ 22 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 58999999999998877643
No 459
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=87.12 E-value=0.51 Score=49.99 Aligned_cols=27 Identities=37% Similarity=0.596 Sum_probs=21.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcC
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~ 433 (1066)
+.-|.||+|+||||++..+...|-+.+
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~L~~~~ 27 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQILNKRG 27 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTTCT
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCccC
Confidence 356999999999999988887775543
No 460
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=87.07 E-value=0.78 Score=47.33 Aligned_cols=33 Identities=27% Similarity=0.480 Sum_probs=27.9
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
+.+..+-+|+||||+.+.+...+.+.+. +||++
T Consensus 2 i~v~s~kgG~GKTt~a~~LA~~la~~g~-~vllv 34 (169)
T cd02037 2 IAVMSGKGGVGKSTVAVNLALALAKLGY-KVGLL 34 (169)
T ss_pred EEEecCCCcCChhHHHHHHHHHHHHcCC-cEEEE
Confidence 4677899999999999999998888765 77774
No 461
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=87.05 E-value=0.73 Score=50.97 Aligned_cols=32 Identities=28% Similarity=0.579 Sum_probs=27.4
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
++++ |..|+||||+.+.++..|.+.+. |||++
T Consensus 4 iav~-~KGGvGKTT~~~nLA~~La~~G~-kVlli 35 (270)
T cd02040 4 IAIY-GKGGIGKSTTTQNLSAALAEMGK-KVMIV 35 (270)
T ss_pred EEEE-eCCcCCHHHHHHHHHHHHHhCCC-eEEEE
Confidence 4555 89999999999999999988665 88887
No 462
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=87.04 E-value=0.46 Score=49.64 Aligned_cols=19 Identities=37% Similarity=0.672 Sum_probs=15.5
Q ss_pred cEEEECCCCCcHhHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAI 425 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~i 425 (1066)
..+|+|.|||||||+...+
T Consensus 2 ~I~ITGTPGvGKTT~~~~L 20 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLL 20 (180)
T ss_pred eEEEeCCCCCchHHHHHHH
Confidence 4689999999999976543
No 463
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=87.03 E-value=0.8 Score=52.24 Aligned_cols=51 Identities=16% Similarity=0.242 Sum_probs=32.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHc-----CCCeEEEEcCcH-HHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSN-VAVDQLAEKIS 455 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~-----~~~rILV~ApSN-~AvD~L~eRL~ 455 (1066)
..+++|.|+||||||+.+..++...... ...+++.+..-. --.+.|.+.+.
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~ 151 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAE 151 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHH
Confidence 4578999999999999999887665421 122555555433 13444444433
No 464
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=87.02 E-value=0.46 Score=55.32 Aligned_cols=24 Identities=29% Similarity=0.332 Sum_probs=19.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
...+|+||||||||..+..++..+
T Consensus 149 lgllL~GPPGcGKTllAraiA~el 172 (413)
T PLN00020 149 LILGIWGGKGQGKSFQCELVFKKM 172 (413)
T ss_pred eEEEeeCCCCCCHHHHHHHHHHHc
Confidence 357899999999999877666554
No 465
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=86.95 E-value=0.8 Score=52.37 Aligned_cols=45 Identities=31% Similarity=0.553 Sum_probs=34.0
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc--CcHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA--PSNVAVDQLA 451 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A--pSN~AvD~L~ 451 (1066)
++.++.|.-|+||||+.+..+.++.+.+. ++|+++ |.+...|-+-
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~-rtLlvS~Dpa~~L~d~l~ 48 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGK-RTLLVSTDPAHSLSDVLG 48 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS--EEEEESSTTTHHHHHHT
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCC-CeeEeecCCCccHHHHhC
Confidence 46789999999999999999999998765 788874 3444444443
No 466
>PRK00279 adk adenylate kinase; Reviewed
Probab=86.91 E-value=0.53 Score=50.73 Aligned_cols=22 Identities=32% Similarity=0.604 Sum_probs=17.7
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+|.||||+||||+...+...+
T Consensus 3 I~v~G~pGsGKsT~a~~la~~~ 24 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEKY 24 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999877665443
No 467
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=86.89 E-value=1.6 Score=54.50 Aligned_cols=67 Identities=22% Similarity=0.428 Sum_probs=48.8
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHHc-----CCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~-----~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
|-+-++| +.+..+-.+++++|.|--|+||||-+=..++..=-. .++=|-|+-|-..||-.|++|...
T Consensus 256 PI~aeEq-~IMEaIn~n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~ 327 (1172)
T KOG0926|consen 256 PIVAEEQ-RIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAF 327 (1172)
T ss_pred chhHHHH-HHHHHhhcCCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHH
Confidence 3455666 344555558999999999999999887766543111 133588999999999999999753
No 468
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=86.87 E-value=0.96 Score=47.06 Aligned_cols=34 Identities=32% Similarity=0.585 Sum_probs=27.4
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
++++.+-.|+|||++.+.++..|.+.+. +||++=
T Consensus 1 I~v~~~kGG~GKTt~a~~la~~la~~g~-~VlliD 34 (195)
T PF01656_consen 1 IAVTSGKGGVGKTTIAANLAQALARKGK-KVLLID 34 (195)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS--EEEEE
T ss_pred CEEEcCCCCccHHHHHHHHHhccccccc-cccccc
Confidence 4678899999999999999999998665 666654
No 469
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=86.76 E-value=0.41 Score=58.22 Aligned_cols=22 Identities=45% Similarity=0.779 Sum_probs=19.3
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+|++||||||||..+-+++.+|
T Consensus 226 vLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 226 VLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred eeeeCCCCccHHHHHHHHhhhc
Confidence 7999999999999888877665
No 470
>PRK06547 hypothetical protein; Provisional
Probab=86.73 E-value=0.79 Score=48.02 Aligned_cols=23 Identities=35% Similarity=0.511 Sum_probs=18.6
Q ss_pred CcEEEECCCCCcHhHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~ 428 (1066)
.+.+|.|++|||||++...+...
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 35678899999999998776654
No 471
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=86.72 E-value=1.1 Score=53.95 Aligned_cols=125 Identities=22% Similarity=0.374 Sum_probs=79.9
Q ss_pred HhcCCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhH
Q 001501 402 VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTL 481 (1066)
Q Consensus 402 aL~~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l 481 (1066)
++.+.+.+=.||--+|||+-+...... .++=+.|.|-.-.|-++.+|+.+.|+..--+..+.+....
T Consensus 188 ~~~RkIi~H~GPTNSGKTy~ALqrl~~-----aksGvycGPLrLLA~EV~~r~na~gipCdL~TGeE~~~~~-------- 254 (700)
T KOG0953|consen 188 KIRRKIIMHVGPTNSGKTYRALQRLKS-----AKSGVYCGPLRLLAHEVYDRLNALGIPCDLLTGEERRFVL-------- 254 (700)
T ss_pred hhhheEEEEeCCCCCchhHHHHHHHhh-----hccceecchHHHHHHHHHHHhhhcCCCccccccceeeecC--------
Confidence 344677888999999999966554432 1355899999999999999999887753222211110000
Q ss_pred HHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCC
Q 001501 482 HYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDEST 561 (1066)
Q Consensus 482 ~~~i~~~~~~~~~~L~kl~~lk~~~~~ls~~~~kr~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAs 561 (1066)
. + -..|..+.||..... ....||+.||||.|
T Consensus 255 -------~---------------~-----------------------~~~a~hvScTVEM~s----v~~~yeVAViDEIQ 285 (700)
T KOG0953|consen 255 -------D---------------N-----------------------GNPAQHVSCTVEMVS----VNTPYEVAVIDEIQ 285 (700)
T ss_pred -------C---------------C-----------------------CCcccceEEEEEEee----cCCceEEEEehhHH
Confidence 0 0 013566777765433 23479999999999
Q ss_pred CCChhhh---hhhcc--ccCceEEEeCCccCC
Q 001501 562 QATEPEC---LIPLV--LGAKQVVLVGDHCQL 588 (1066)
Q Consensus 562 Q~tE~e~---LIpL~--~~~krlILVGD~~QL 588 (1066)
|+..++- |--.. +.++-+=|.||+.-|
T Consensus 286 mm~Dp~RGwAWTrALLGl~AdEiHLCGepsvl 317 (700)
T KOG0953|consen 286 MMRDPSRGWAWTRALLGLAADEIHLCGEPSVL 317 (700)
T ss_pred hhcCcccchHHHHHHHhhhhhhhhccCCchHH
Confidence 9888651 22111 245678888888654
No 472
>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=86.67 E-value=0.84 Score=52.64 Aligned_cols=40 Identities=25% Similarity=0.357 Sum_probs=28.1
Q ss_pred CHHHHHHHHHHhcC----CcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 392 NASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 392 N~sQ~~AV~~aL~~----~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
++...+.+...+.+ ...|+.||||+|||+++..++..|..
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34455555554432 35789999999999998887777653
No 473
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.61 E-value=0.67 Score=56.99 Aligned_cols=25 Identities=24% Similarity=0.315 Sum_probs=21.1
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
..|++||||||||+++..++..|..
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4789999999999998888877653
No 474
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=86.46 E-value=0.94 Score=56.62 Aligned_cols=43 Identities=21% Similarity=0.349 Sum_probs=28.7
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~Av 447 (1066)
....++.||||||||+++..++..|-...-..++++..++...
T Consensus 37 ~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~ 79 (608)
T TIGR00764 37 KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPN 79 (608)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCc
Confidence 5688999999999999988877655332213455555443333
No 475
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=86.46 E-value=0.7 Score=53.71 Aligned_cols=26 Identities=46% Similarity=0.690 Sum_probs=20.5
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
....||.||||||||-++..+...|-
T Consensus 50 Gr~iLiaGppGtGKTAlA~~ia~eLG 75 (398)
T PF06068_consen 50 GRAILIAGPPGTGKTALAMAIAKELG 75 (398)
T ss_dssp T-EEEEEE-TTSSHHHHHHHHHHHCT
T ss_pred CcEEEEeCCCCCCchHHHHHHHHHhC
Confidence 46789999999999999888877663
No 476
>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=86.40 E-value=0.49 Score=57.65 Aligned_cols=21 Identities=48% Similarity=0.805 Sum_probs=18.2
Q ss_pred EEEECCCCCcHhHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1066)
.|+.||||||||+++..++..
T Consensus 91 iLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 91 VLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 789999999999998877654
No 477
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=86.39 E-value=1.4 Score=48.72 Aligned_cols=51 Identities=27% Similarity=0.361 Sum_probs=39.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
..+++|-|.||.|||+.+..++.+++.....+||+++.=.. .+++..|+..
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~-~~~l~~R~la 69 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMS-EEELAARLLA 69 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC-HHHHHHHHHH
Confidence 45899999999999999999999999875569999986443 3356666543
No 478
>PRK05748 replicative DNA helicase; Provisional
Probab=86.39 E-value=1.1 Score=54.03 Aligned_cols=51 Identities=16% Similarity=0.257 Sum_probs=39.6
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCcHHHHHHHHHHHHh
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AvD~L~eRL~~ 456 (1066)
..+++|-|.||+|||+.+..++.+++.....+|++.+.-.. .++|..|+..
T Consensus 203 G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms-~~~l~~R~l~ 253 (448)
T PRK05748 203 NDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMG-AESLVMRMLC 253 (448)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCC-HHHHHHHHHH
Confidence 46899999999999999999999887654458888875443 4467777643
No 479
>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=86.35 E-value=0.55 Score=50.40 Aligned_cols=21 Identities=33% Similarity=0.661 Sum_probs=17.1
Q ss_pred EEEECCCCCcHhHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYH 428 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1066)
.+|.||||+||||.+..+...
T Consensus 2 I~i~G~pGsGKsT~a~~La~~ 22 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEK 22 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999987766543
No 480
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=86.32 E-value=0.86 Score=51.24 Aligned_cols=35 Identities=23% Similarity=0.513 Sum_probs=22.5
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
++.+|.|.||+|||+.+..+...+...+ .+|.++.
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~~~~~~-~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKYLEEKG-KEVVIIS 36 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHHHHHTT---EEEE-
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHHHhcC-CEEEEEc
Confidence 5789999999999988888877766633 3555544
No 481
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=86.31 E-value=0.83 Score=52.54 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=41.1
Q ss_pred CCCCHHHHHHHHHHhcCC-cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEcCc
Q 001501 389 PELNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1066)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~-l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1066)
..++..|.+.+..+.... -.||.|+-||||||++.++....-. ..+|+.+=-|
T Consensus 156 gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i~~--~eRvItiEDt 209 (355)
T COG4962 156 GTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFIDS--DERVITIEDT 209 (355)
T ss_pred CCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcCCC--cccEEEEeeh
Confidence 368899999999888755 6899999999999999877765433 2377776543
No 482
>PHA02624 large T antigen; Provisional
Probab=86.31 E-value=0.73 Score=56.73 Aligned_cols=36 Identities=28% Similarity=0.341 Sum_probs=27.4
Q ss_pred HHHHHHHHHhc----CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 394 SQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 394 sQ~~AV~~aL~----~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.=..|++..+. +...++.||||||||+.+..++..|
T Consensus 416 ~~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 416 VIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 33455555544 5689999999999999998888765
No 483
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=86.26 E-value=4.2 Score=53.58 Aligned_cols=51 Identities=20% Similarity=0.184 Sum_probs=43.0
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEcCcHHHHHHHHHHHHhc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AvD~L~eRL~~~ 457 (1066)
--+||=--|||||-|+..++..|++. ...+|++++--+.--+++.+-+...
T Consensus 275 ~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~ 326 (962)
T COG0610 275 GGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSF 326 (962)
T ss_pred ceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHH
Confidence 48999999999999999998888877 3458999999998888888866543
No 484
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=86.26 E-value=1.2 Score=46.28 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=25.7
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
+.+|.|++|+||||.+..+..+|-..+. ++.++
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~-~v~~~ 34 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGY-EVVLT 34 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 4688999999999999988888765444 45444
No 485
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=86.22 E-value=1 Score=50.56 Aligned_cols=24 Identities=38% Similarity=0.609 Sum_probs=18.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+.+|+.||||.||||.+.-++..|
T Consensus 53 DHvLl~GPPGlGKTTLA~IIA~Em 76 (332)
T COG2255 53 DHVLLFGPPGLGKTTLAHIIANEL 76 (332)
T ss_pred CeEEeeCCCCCcHHHHHHHHHHHh
Confidence 468999999999998655444443
No 486
>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=86.21 E-value=0.6 Score=51.98 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=26.9
Q ss_pred HHHHHHHHHhc-----CCcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 394 SQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 394 sQ~~AV~~aL~-----~~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
...+.|...|. ..+..|+|++|+|||+++..++....
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~ 44 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLR 44 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHH
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccc
Confidence 34455554443 35789999999999999988886644
No 487
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=86.18 E-value=0.57 Score=48.75 Aligned_cols=26 Identities=35% Similarity=0.641 Sum_probs=22.0
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Ll 430 (1066)
.++++|.||-|||||+++-++.+.|-
T Consensus 19 ~g~~vi~G~Ng~GKStil~ai~~~L~ 44 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTILEAIRYALG 44 (202)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHc
Confidence 68999999999999999977665553
No 488
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=86.11 E-value=1.1 Score=50.65 Aligned_cols=26 Identities=35% Similarity=0.586 Sum_probs=23.1
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~ 432 (1066)
..|+.||||||||+++..++..|.-.
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 48999999999999999999888755
No 489
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=86.10 E-value=0.5 Score=59.40 Aligned_cols=19 Identities=58% Similarity=0.968 Sum_probs=16.1
Q ss_pred EEEECCCCCcHhHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIV 426 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI 426 (1066)
+|+.||||||||-.+.+++
T Consensus 347 vLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 347 VLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred eEEECCCCCcHHHHHHHHh
Confidence 6999999999998766555
No 490
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=85.90 E-value=1.5 Score=52.42 Aligned_cols=63 Identities=22% Similarity=0.183 Sum_probs=38.1
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHhHHHH-HHHHHHHHcC----CCeEEEEcCcHHHHHHHHHHH
Q 001501 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG----QGQVLVCAPSNVAVDQLAEKI 454 (1066)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla-~iI~~Llk~~----~~rILV~ApSN~AvD~L~eRL 454 (1066)
++-|..-|=-+|...=.+-.+.-|||||-.-+ -++-.|+-++ ..||||+.||...+-++..-.
T Consensus 205 TpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~ 272 (691)
T KOG0338|consen 205 TPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVT 272 (691)
T ss_pred CchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHH
Confidence 34555555444433323445678999986533 3444555443 348999999998776665543
No 491
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=85.86 E-value=0.96 Score=51.49 Aligned_cols=32 Identities=31% Similarity=0.533 Sum_probs=26.8
Q ss_pred EEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEEc
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1066)
+++ |-.|+|||+|.+.+...|.+++. |||++=
T Consensus 4 av~-gKGGvGKTT~a~nLA~~La~~g~-rVLlID 35 (296)
T TIGR02016 4 AIY-GKGGSGKSFTTTNLSHMMAEMGK-RVLQLG 35 (296)
T ss_pred EEE-CCCCCCHHHHHHHHHHHHHHCCC-eEEEEE
Confidence 445 99999999999999999998765 777764
No 492
>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=85.83 E-value=0.93 Score=48.26 Aligned_cols=39 Identities=26% Similarity=0.458 Sum_probs=27.5
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHHHHc---CCCeEEEEcCc
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPS 443 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApS 443 (1066)
.+..+|.|.+|+|||+++..++..|+.. ..-+|.++-+.
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k 79 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPK 79 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCC
Confidence 4578999999999999999999999874 33355565554
No 493
>PRK05439 pantothenate kinase; Provisional
Probab=85.81 E-value=0.98 Score=51.77 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=24.2
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHc-CCCeEEEEc
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1066)
+..|.|+||+||||++..+...|-+. ...+|.+++
T Consensus 88 iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 88 IIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 45689999999999988776655433 223555554
No 494
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=85.79 E-value=0.85 Score=57.11 Aligned_cols=25 Identities=32% Similarity=0.577 Sum_probs=21.3
Q ss_pred CCcEEEECCCCCcHhHHHHHHHHHH
Q 001501 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
....+|.||||||||+++..+...|
T Consensus 50 ~~~~l~~G~~G~GKttla~~l~~~l 74 (637)
T PRK13765 50 RRHVMMIGSPGTGKSMLAKAMAELL 74 (637)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHc
Confidence 6789999999999999988776554
No 495
>CHL00195 ycf46 Ycf46; Provisional
Probab=85.72 E-value=0.61 Score=56.69 Aligned_cols=23 Identities=39% Similarity=0.471 Sum_probs=18.6
Q ss_pred cEEEECCCCCcHhHHHHHHHHHH
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
-.|+.||||||||.++..++..+
T Consensus 261 GILL~GPpGTGKTllAkaiA~e~ 283 (489)
T CHL00195 261 GLLLVGIQGTGKSLTAKAIANDW 283 (489)
T ss_pred eEEEECCCCCcHHHHHHHHHHHh
Confidence 47899999999998887666543
No 496
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=85.68 E-value=0.97 Score=52.36 Aligned_cols=24 Identities=29% Similarity=0.360 Sum_probs=19.3
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
+-+|+.|+||||||+++..+...|
T Consensus 30 ~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHHC
Confidence 569999999999999876665443
No 497
>PRK13947 shikimate kinase; Provisional
Probab=85.65 E-value=0.69 Score=47.55 Aligned_cols=22 Identities=27% Similarity=0.394 Sum_probs=18.2
Q ss_pred EEEECCCCCcHhHHHHHHHHHH
Q 001501 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1066)
.+|.|+||||||++...+...|
T Consensus 4 I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 5889999999999887766554
No 498
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=85.64 E-value=0.57 Score=52.93 Aligned_cols=24 Identities=46% Similarity=0.688 Sum_probs=18.7
Q ss_pred CcEEEECCCCCcHhHHHHHHHHHH
Q 001501 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1066)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1066)
...+|+||||||||...-.+...+
T Consensus 167 kg~ll~GppGtGKTlla~~Vaa~m 190 (388)
T KOG0651|consen 167 KGLLLYGPPGTGKTLLARAVAATM 190 (388)
T ss_pred ceeEEeCCCCCchhHHHHHHHHhc
Confidence 357999999999998766655544
No 499
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=85.61 E-value=0.96 Score=50.55 Aligned_cols=32 Identities=31% Similarity=0.577 Sum_probs=27.7
Q ss_pred cEEEECCCCCcHhHHHHHHHHHHHHcCCCeEEEE
Q 001501 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1066)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1066)
+++. |--|+|||||.+.+.+.|.+.+. |||++
T Consensus 4 iav~-~KGGVGKTT~~~nLA~~La~~G~-rVLlI 35 (274)
T PRK13235 4 VAIY-GKGGIGKSTTTQNTVAGLAEMGK-KVMVV 35 (274)
T ss_pred EEEe-CCCCccHHHHHHHHHHHHHHCCC-cEEEE
Confidence 4555 89999999999999999998776 88887
No 500
>PHA00547 hypothetical protein
Probab=85.60 E-value=1.2 Score=49.25 Aligned_cols=38 Identities=29% Similarity=0.364 Sum_probs=29.7
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCcHhHHHHHHHHHHHH
Q 001501 394 SQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1066)
Q Consensus 394 sQ~~AV~~aL~~~l~LIqGPPGTGKTtTla~iI~~Llk 431 (1066)
+|.+-|+.+-++|+++|+||=|||||..++.++.+.-.
T Consensus 64 ~~~k~VK~ik~spis~i~G~LGsGKTlLMT~LA~~~K~ 101 (337)
T PHA00547 64 NAFRLVNFIWDNPLSVIIGKLGTGKTLLLTYLSQTMKL 101 (337)
T ss_pred HHHHHHHHHhcCCceEEeccCCCchhHHHHHHHHHHHh
Confidence 44555566667999999999999999988877765543
Done!