Query 001347
Match_columns 1095
No_of_seqs 613 out of 2643
Neff 6.1
Searched_HMMs 46136
Date Thu Mar 28 22:27:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001347.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001347hhsearch_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-179 7E-184 1520.2 61.9 790 118-919 38-933 (935)
2 TIGR00376 DNA helicase, putati 100.0 1.3E-79 2.9E-84 747.7 51.7 551 244-825 26-636 (637)
3 KOG1803 DNA helicase [Replicat 100.0 3.7E-79 7.9E-84 702.7 32.4 554 256-824 53-633 (649)
4 KOG1805 DNA replication helica 100.0 1.4E-62 3.1E-67 584.5 25.3 389 388-821 667-1077(1100)
5 KOG1807 Helicases [Replication 100.0 2.7E-51 5.8E-56 476.2 25.2 283 526-822 693-979 (1025)
6 COG1112 Superfamily I DNA and 100.0 3.3E-45 7.1E-50 458.3 36.4 487 326-824 207-754 (767)
7 PF09416 UPF1_Zn_bind: RNA hel 100.0 1.7E-46 3.7E-51 371.5 6.6 95 143-239 1-95 (152)
8 KOG1801 tRNA-splicing endonucl 100.0 3.1E-35 6.8E-40 366.9 25.7 292 531-824 514-814 (827)
9 KOG1804 RNA helicase [RNA proc 100.0 1.5E-36 3.3E-41 366.6 11.3 373 405-824 326-724 (775)
10 PF13087 AAA_12: AAA domain; P 100.0 2.7E-34 5.9E-39 302.5 8.0 195 602-799 1-200 (200)
11 PF13086 AAA_11: AAA domain; P 100.0 9.5E-31 2.1E-35 279.0 17.2 204 390-594 1-235 (236)
12 TIGR01075 uvrD DNA helicase II 100.0 1.6E-29 3.5E-34 314.9 19.0 311 389-729 3-362 (715)
13 PRK11773 uvrD DNA-dependent he 100.0 1.5E-29 3.2E-34 315.2 18.3 307 389-729 8-367 (721)
14 PRK10875 recD exonuclease V su 100.0 3.3E-29 7.1E-34 303.4 18.8 237 348-637 112-377 (615)
15 TIGR01447 recD exodeoxyribonuc 100.0 8.2E-30 1.8E-34 308.2 11.9 194 393-637 148-366 (586)
16 TIGR01073 pcrA ATP-dependent D 100.0 9.3E-29 2E-33 308.7 20.3 309 389-729 3-364 (726)
17 PRK10919 ATP-dependent DNA hel 100.0 2.1E-28 4.6E-33 302.0 23.0 241 390-641 2-294 (672)
18 PRK11054 helD DNA helicase IV; 100.0 1.9E-28 4.1E-33 300.9 21.9 368 389-798 195-663 (684)
19 KOG1806 DEAD box containing he 99.9 6.1E-28 1.3E-32 288.3 11.7 417 390-813 738-1262(1320)
20 TIGR01448 recD_rel helicase, p 99.9 1.7E-26 3.7E-31 286.3 20.7 300 389-802 322-702 (720)
21 TIGR01074 rep ATP-dependent DN 99.9 2.4E-26 5.2E-31 284.7 17.9 242 390-640 1-292 (664)
22 COG0210 UvrD Superfamily I DNA 99.9 5.2E-24 1.1E-28 263.6 19.6 312 390-731 2-371 (655)
23 TIGR02768 TraA_Ti Ti-type conj 99.9 1E-22 2.2E-27 253.6 23.0 298 389-809 351-721 (744)
24 TIGR00609 recB exodeoxyribonuc 99.9 1E-22 2.2E-27 263.0 19.9 173 550-733 295-493 (1087)
25 TIGR02785 addA_Gpos recombinat 99.9 2.7E-22 5.8E-27 261.9 21.8 65 390-456 1-67 (1232)
26 COG1074 RecB ATP-dependent exo 99.9 1.4E-22 2.9E-27 262.5 16.9 173 550-732 377-577 (1139)
27 PRK13889 conjugal transfer rel 99.9 1.4E-21 3E-26 246.1 21.3 169 389-643 345-517 (988)
28 PRK13826 Dtr system oriT relax 99.9 2.7E-21 5.8E-26 244.2 23.2 308 389-820 380-783 (1102)
29 PRK13909 putative recombinatio 99.9 3.1E-21 6.8E-26 245.9 20.3 156 550-732 327-494 (910)
30 PRK10876 recB exonuclease V su 99.8 1.1E-20 2.5E-25 244.9 18.9 173 550-733 376-575 (1181)
31 TIGR02784 addA_alphas double-s 99.8 2.1E-19 4.5E-24 234.6 24.3 172 550-731 390-607 (1141)
32 PF13604 AAA_30: AAA domain; P 99.8 3.7E-19 8E-24 188.8 9.8 173 390-643 1-178 (196)
33 PRK13709 conjugal transfer nic 99.8 9.8E-18 2.1E-22 220.0 20.6 173 389-643 966-1147(1747)
34 PRK14712 conjugal transfer nic 99.8 1.2E-17 2.6E-22 216.4 20.9 167 389-636 834-1009(1623)
35 COG3973 Superfamily I DNA and 99.7 1.3E-16 2.8E-21 185.6 14.9 208 549-797 526-745 (747)
36 TIGR02760 TraI_TIGR conjugativ 99.7 6E-16 1.3E-20 208.3 18.7 171 389-642 1018-1198(1960)
37 PF01443 Viral_helicase1: Vira 99.7 1.1E-16 2.4E-21 172.6 8.9 168 551-795 62-233 (234)
38 PF00580 UvrD-helicase: UvrD/R 99.6 2.6E-15 5.7E-20 167.8 7.7 64 391-456 1-67 (315)
39 COG0507 RecD ATP-dependent exo 99.5 1.9E-14 4E-19 180.0 11.6 133 389-595 318-453 (696)
40 TIGR02760 TraI_TIGR conjugativ 99.5 3.1E-13 6.8E-18 182.4 22.9 167 390-630 429-601 (1960)
41 PF09848 DUF2075: Uncharacteri 99.5 6.1E-14 1.3E-18 161.8 9.7 164 406-642 2-183 (352)
42 COG3972 Superfamily I DNA and 99.4 1.5E-13 3.3E-18 157.0 9.4 359 389-796 161-574 (660)
43 PF05970 PIF1: PIF1-like helic 99.3 2.9E-12 6.2E-17 148.6 6.3 60 390-450 1-66 (364)
44 PF13361 UvrD_C: UvrD-like hel 99.2 4.4E-12 9.5E-17 143.3 4.6 96 618-733 1-101 (351)
45 PF13245 AAA_19: Part of AAA d 99.2 2.3E-11 5E-16 110.1 7.5 58 397-454 1-62 (76)
46 PF02562 PhoH: PhoH-like prote 98.9 1.5E-09 3.3E-14 115.9 6.2 58 389-446 3-61 (205)
47 PRK10536 hypothetical protein; 98.9 5.6E-09 1.2E-13 114.5 10.7 58 386-443 55-113 (262)
48 TIGR02773 addB_Gpos ATP-depend 98.8 6.1E-08 1.3E-12 128.1 19.0 159 551-732 196-360 (1158)
49 smart00487 DEXDc DEAD-like hel 98.8 7E-08 1.5E-12 99.1 12.7 69 389-457 7-77 (201)
50 KOG1804 RNA helicase [RNA proc 98.7 4.6E-09 1E-13 129.2 0.9 390 389-827 119-550 (775)
51 cd00046 DEXDc DEAD-like helica 98.5 4E-07 8.7E-12 88.0 10.1 51 407-457 2-53 (144)
52 PRK10590 ATP-dependent RNA hel 98.5 1.4E-05 3.1E-10 95.7 25.5 70 388-457 21-98 (456)
53 PF13538 UvrD_C_2: UvrD-like h 98.5 2E-08 4.2E-13 95.3 0.0 50 742-795 55-104 (104)
54 PF00270 DEAD: DEAD/DEAH box h 98.4 2.1E-06 4.5E-11 87.7 11.6 66 392-457 1-67 (169)
55 KOG2108 3'-5' DNA helicase [Re 98.3 3.3E-07 7.2E-12 112.3 4.0 66 389-456 12-80 (853)
56 PRK04537 ATP-dependent RNA hel 98.3 0.00036 7.8E-09 86.2 30.2 70 388-457 29-107 (572)
57 cd00268 DEADc DEAD-box helicas 98.3 6.4E-06 1.4E-10 87.2 12.6 69 389-457 20-92 (203)
58 PRK11634 ATP-dependent RNA hel 98.3 2E-05 4.4E-10 97.9 18.5 69 388-456 26-96 (629)
59 PHA02558 uvsW UvsW helicase; P 98.2 7.1E-06 1.5E-10 99.6 12.1 69 389-457 113-181 (501)
60 TIGR00580 mfd transcription-re 98.2 3E-05 6.5E-10 99.7 17.6 66 390-456 451-522 (926)
61 PRK11192 ATP-dependent RNA hel 98.2 8.7E-06 1.9E-10 96.8 11.7 68 389-456 22-95 (434)
62 PRK05580 primosome assembly pr 98.1 3E-05 6.5E-10 97.3 14.9 75 389-464 143-221 (679)
63 PRK10689 transcription-repair 98.1 4.8E-05 1E-09 99.9 17.3 66 390-456 600-671 (1147)
64 PTZ00424 helicase 45; Provisio 98.0 2.6E-05 5.5E-10 91.5 12.1 70 388-457 48-119 (401)
65 PRK11776 ATP-dependent RNA hel 98.0 3.4E-05 7.3E-10 92.6 13.1 70 388-457 24-95 (460)
66 PRK10917 ATP-dependent DNA hel 98.0 5.2E-05 1.1E-09 95.3 13.5 67 390-457 261-333 (681)
67 TIGR00643 recG ATP-dependent D 98.0 5.1E-05 1.1E-09 94.6 13.1 67 390-457 235-307 (630)
68 PRK02362 ski2-like helicase; P 98.0 1.4E-05 3.1E-10 101.3 8.3 70 387-457 20-90 (737)
69 PRK00254 ski2-like helicase; P 97.9 3.2E-05 7E-10 97.9 10.9 68 388-456 21-90 (720)
70 PRK04837 ATP-dependent RNA hel 97.9 4.5E-05 9.7E-10 90.6 10.0 69 388-456 28-105 (423)
71 PF04851 ResIII: Type III rest 97.8 3.5E-05 7.6E-10 79.3 7.1 64 390-457 3-73 (184)
72 PRK01172 ski2-like helicase; P 97.8 8.4E-05 1.8E-09 93.5 11.8 66 390-456 22-87 (674)
73 PF07652 Flavi_DEAD: Flaviviru 97.8 5E-05 1.1E-09 76.8 7.6 53 405-458 4-57 (148)
74 COG1061 SSL2 DNA or RNA helica 97.8 7.6E-05 1.7E-09 89.3 10.0 65 389-457 35-103 (442)
75 PTZ00110 helicase; Provisional 97.8 0.00024 5.3E-09 87.2 14.0 70 388-457 150-226 (545)
76 COG1875 NYN ribonuclease and A 97.7 8.9E-05 1.9E-09 84.3 9.1 56 388-443 226-285 (436)
77 PRK13766 Hef nuclease; Provisi 97.7 0.00022 4.8E-09 91.1 12.9 67 390-457 15-81 (773)
78 COG1702 PhoH Phosphate starvat 97.7 0.0002 4.4E-09 81.2 10.3 55 388-442 126-181 (348)
79 PRK11448 hsdR type I restricti 97.7 0.00018 3.9E-09 94.4 11.3 68 390-457 413-486 (1123)
80 TIGR03817 DECH_helic helicase/ 97.7 0.00028 6.1E-09 89.5 12.7 71 388-458 34-105 (742)
81 PRK01297 ATP-dependent RNA hel 97.6 0.00027 5.9E-09 85.3 11.8 70 388-457 107-185 (475)
82 TIGR01054 rgy reverse gyrase. 97.6 0.00027 5.8E-09 93.3 11.4 67 390-457 78-144 (1171)
83 TIGR00614 recQ_fam ATP-depende 97.6 0.0007 1.5E-08 81.7 14.1 74 388-465 9-82 (470)
84 PRK09401 reverse gyrase; Revie 97.6 0.00035 7.5E-09 92.2 12.2 67 390-457 80-146 (1176)
85 COG1204 Superfamily II helicas 97.6 0.00023 5E-09 90.0 10.1 77 388-464 29-109 (766)
86 PRK08181 transposase; Validate 97.6 0.00059 1.3E-08 76.5 12.2 53 388-441 85-141 (269)
87 TIGR00603 rad25 DNA repair hel 97.5 0.00048 1E-08 86.2 12.3 65 389-457 254-321 (732)
88 PLN00206 DEAD-box ATP-dependen 97.5 0.00062 1.3E-08 83.2 12.1 68 389-456 142-218 (518)
89 TIGR03117 cas_csf4 CRISPR-asso 97.5 0.00093 2E-08 82.7 13.3 58 398-455 8-67 (636)
90 PHA02653 RNA helicase NPH-II; 97.5 0.00098 2.1E-08 83.4 13.5 75 382-456 155-244 (675)
91 smart00488 DEXDc2 DEAD-like he 97.4 0.0015 3.3E-08 74.0 13.8 65 392-456 10-83 (289)
92 smart00489 DEXDc3 DEAD-like he 97.4 0.0015 3.3E-08 74.0 13.8 65 392-456 10-83 (289)
93 PRK14712 conjugal transfer nic 97.4 0.00085 1.8E-08 89.7 12.8 64 389-453 280-346 (1623)
94 PF13401 AAA_22: AAA domain; P 97.4 0.00017 3.6E-09 70.7 4.7 51 405-455 4-59 (131)
95 PRK06526 transposase; Provisio 97.4 0.00086 1.9E-08 74.6 10.8 51 388-439 78-131 (254)
96 TIGR00348 hsdR type I site-spe 97.4 0.0008 1.7E-08 84.6 11.5 68 391-458 239-317 (667)
97 PRK14974 cell division protein 97.4 0.0015 3.4E-08 75.3 12.9 56 406-462 141-199 (336)
98 PRK04296 thymidine kinase; Pro 97.4 0.0004 8.6E-09 73.8 7.3 36 406-442 3-38 (190)
99 PRK14701 reverse gyrase; Provi 97.4 0.0012 2.7E-08 89.3 13.5 67 390-457 79-145 (1638)
100 TIGR01389 recQ ATP-dependent D 97.3 0.0022 4.7E-08 79.7 14.5 74 388-465 11-84 (591)
101 PRK13767 ATP-dependent helicas 97.3 0.0011 2.4E-08 85.8 12.2 68 389-456 31-106 (876)
102 TIGR00595 priA primosomal prot 97.3 0.00096 2.1E-08 81.2 11.0 53 409-462 1-54 (505)
103 COG4098 comFA Superfamily II D 97.3 0.00089 1.9E-08 75.5 9.6 76 390-466 97-178 (441)
104 PF05127 Helicase_RecD: Helica 97.3 3.4E-05 7.4E-10 80.9 -1.4 46 409-454 1-46 (177)
105 TIGR01970 DEAH_box_HrpB ATP-de 97.3 0.0011 2.5E-08 84.6 11.2 61 395-456 6-67 (819)
106 PRK11057 ATP-dependent DNA hel 97.3 0.0024 5.2E-08 79.6 13.8 72 389-464 24-95 (607)
107 PRK11664 ATP-dependent RNA hel 97.3 0.001 2.2E-08 85.1 10.7 61 395-456 9-70 (812)
108 TIGR00604 rad3 DNA repair heli 97.2 0.0013 2.9E-08 83.2 11.5 65 392-456 12-82 (705)
109 KOG2108 3'-5' DNA helicase [Re 97.2 0.00025 5.4E-09 87.8 4.0 53 743-795 675-740 (853)
110 PF00448 SRP54: SRP54-type pro 97.2 0.0021 4.6E-08 68.8 10.7 56 407-463 3-61 (196)
111 COG1110 Reverse gyrase [DNA re 97.2 0.0014 3E-08 82.5 10.1 68 390-458 82-149 (1187)
112 COG1198 PriA Primosomal protei 97.2 0.0018 3.9E-08 81.1 11.0 68 388-456 196-267 (730)
113 TIGR01587 cas3_core CRISPR-ass 97.2 0.0018 4E-08 74.9 10.5 50 408-457 2-52 (358)
114 KOG0952 DNA/RNA helicase MER3/ 97.2 0.0023 5E-08 80.6 11.7 69 388-456 108-186 (1230)
115 PF00176 SNF2_N: SNF2 family N 97.1 0.00084 1.8E-08 74.9 6.6 62 395-457 2-80 (299)
116 COG4096 HsdR Type I site-speci 97.1 0.0015 3.2E-08 81.1 8.9 68 390-457 165-238 (875)
117 PRK07246 bifunctional ATP-depe 97.1 0.0033 7.1E-08 80.8 12.6 62 390-453 245-310 (820)
118 TIGR01967 DEAH_box_HrpA ATP-de 97.1 0.0015 3.2E-08 86.1 9.3 62 395-456 71-133 (1283)
119 KOG0354 DEAD-box like helicase 97.0 0.0018 4E-08 80.1 9.1 72 386-458 58-130 (746)
120 PRK08084 DNA replication initi 97.0 0.0057 1.2E-07 67.2 12.1 52 390-442 27-81 (235)
121 PRK13709 conjugal transfer nic 97.0 0.006 1.3E-07 82.9 14.1 62 391-453 414-478 (1747)
122 COG1200 RecG RecG-like helicas 97.0 0.017 3.7E-07 71.0 16.6 66 390-456 262-333 (677)
123 PF02399 Herpes_ori_bp: Origin 96.9 0.0017 3.7E-08 81.0 7.7 55 405-459 49-103 (824)
124 PF13173 AAA_14: AAA domain 96.9 0.0036 7.8E-08 62.0 8.4 41 405-447 2-42 (128)
125 TIGR01407 dinG_rel DnaQ family 96.9 0.0035 7.7E-08 81.0 10.5 62 391-453 246-311 (850)
126 PRK14722 flhF flagellar biosyn 96.8 0.0054 1.2E-07 71.8 10.5 55 405-459 137-195 (374)
127 PRK08074 bifunctional ATP-depe 96.8 0.0078 1.7E-07 78.5 12.9 63 391-453 258-324 (928)
128 PRK12899 secA preprotein trans 96.8 0.013 2.9E-07 74.6 13.9 66 390-456 92-157 (970)
129 TIGR03499 FlhF flagellar biosy 96.7 0.007 1.5E-07 68.4 10.3 36 407-442 196-232 (282)
130 PRK12723 flagellar biosynthesi 96.7 0.0072 1.6E-07 71.2 10.7 56 406-461 175-236 (388)
131 cd00009 AAA The AAA+ (ATPases 96.7 0.0047 1E-07 60.0 7.8 55 393-448 4-61 (151)
132 PRK00771 signal recognition pa 96.7 0.0092 2E-07 71.3 11.4 53 407-460 97-152 (437)
133 TIGR02621 cas3_GSU0051 CRISPR- 96.7 0.0048 1E-07 78.3 9.3 67 391-457 16-85 (844)
134 TIGR03158 cas3_cyano CRISPR-as 96.7 0.011 2.4E-07 69.0 11.7 59 395-457 2-62 (357)
135 PRK12377 putative replication 96.7 0.0078 1.7E-07 66.8 9.8 49 392-441 80-136 (248)
136 COG1111 MPH1 ERCC4-like helica 96.6 0.0082 1.8E-07 71.1 10.0 123 390-565 15-145 (542)
137 cd01124 KaiC KaiC is a circadi 96.6 0.0033 7.2E-08 65.5 6.1 52 407-460 1-52 (187)
138 PRK11889 flhF flagellar biosyn 96.5 0.014 3E-07 68.5 11.0 55 406-461 242-299 (436)
139 PRK11131 ATP-dependent RNA hel 96.5 0.0034 7.4E-08 82.7 6.7 61 396-456 79-140 (1294)
140 KOG1924 RhoA GTPase effector D 96.5 0.0098 2.1E-07 72.6 9.8 25 976-1000 611-635 (1102)
141 PRK07952 DNA replication prote 96.5 0.0095 2.1E-07 66.0 9.1 50 391-441 77-134 (244)
142 COG0513 SrmB Superfamily II DN 96.5 0.037 8.1E-07 67.8 14.9 69 389-457 50-122 (513)
143 TIGR03015 pepcterm_ATPase puta 96.5 0.017 3.8E-07 63.9 11.1 38 392-429 25-67 (269)
144 KOG1924 RhoA GTPase effector D 96.5 0.011 2.3E-07 72.3 9.8 12 776-787 447-458 (1102)
145 PRK05703 flhF flagellar biosyn 96.5 0.013 2.7E-07 70.1 10.5 47 406-452 222-272 (424)
146 TIGR01425 SRP54_euk signal rec 96.5 0.026 5.5E-07 67.3 12.8 55 406-461 101-158 (429)
147 PRK12898 secA preprotein trans 96.4 0.02 4.4E-07 71.2 12.3 71 391-464 104-178 (656)
148 PRK11747 dinG ATP-dependent DN 96.4 0.032 7E-07 70.7 14.3 60 392-453 27-97 (697)
149 PRK04914 ATP-dependent helicas 96.4 0.02 4.4E-07 74.2 12.2 72 390-461 152-226 (956)
150 PHA03311 helicase-primase subu 96.3 0.005 1.1E-07 75.8 5.8 45 406-456 72-116 (828)
151 PRK07003 DNA polymerase III su 96.3 0.0079 1.7E-07 75.2 7.5 25 407-431 40-64 (830)
152 COG1199 DinG Rad3-related DNA 96.2 0.03 6.4E-07 70.5 12.6 68 390-457 15-86 (654)
153 PRK14958 DNA polymerase III su 96.2 0.011 2.3E-07 72.2 8.2 25 407-431 40-64 (509)
154 PLN03137 ATP-dependent DNA hel 96.2 0.038 8.2E-07 72.0 13.0 72 389-464 459-530 (1195)
155 PRK12323 DNA polymerase III su 96.1 0.011 2.3E-07 73.2 7.6 25 407-431 40-64 (700)
156 COG1643 HrpA HrpA-like helicas 96.1 0.022 4.7E-07 72.7 10.4 63 395-457 54-117 (845)
157 COG4889 Predicted helicase [Ge 96.1 0.026 5.7E-07 70.1 10.5 75 389-467 160-242 (1518)
158 PRK07994 DNA polymerase III su 96.1 0.01 2.2E-07 73.9 7.3 24 408-431 41-64 (647)
159 smart00382 AAA ATPases associa 96.0 0.0055 1.2E-07 58.8 3.5 43 405-448 2-44 (148)
160 TIGR03714 secA2 accessory Sec 96.0 0.025 5.4E-07 71.4 10.0 65 390-456 68-133 (762)
161 PRK14956 DNA polymerase III su 96.0 0.012 2.6E-07 70.8 6.9 25 407-431 42-66 (484)
162 PRK14087 dnaA chromosomal repl 95.9 0.093 2E-06 63.3 13.9 36 406-441 142-178 (450)
163 PRK14088 dnaA chromosomal repl 95.9 0.046 1E-06 65.7 11.2 35 407-441 132-167 (440)
164 TIGR00064 ftsY signal recognit 95.9 0.021 4.5E-07 64.3 7.8 56 406-462 73-131 (272)
165 PF06745 KaiC: KaiC; InterPro 95.8 0.015 3.3E-07 63.1 6.3 53 405-459 19-72 (226)
166 KOG0330 ATP-dependent RNA heli 95.7 0.026 5.6E-07 65.0 7.8 68 390-457 83-152 (476)
167 PRK14949 DNA polymerase III su 95.7 0.013 2.8E-07 74.6 6.0 25 407-431 40-64 (944)
168 PRK12727 flagellar biosynthesi 95.7 0.042 9.1E-07 66.8 10.0 37 405-441 350-387 (559)
169 COG2256 MGS1 ATPase related to 95.7 0.031 6.6E-07 65.1 8.4 40 553-593 106-147 (436)
170 COG1205 Distinct helicase fami 95.7 0.052 1.1E-06 70.0 11.4 68 390-457 70-138 (851)
171 KOG0989 Replication factor C, 95.7 0.011 2.5E-07 66.3 4.7 27 405-431 57-83 (346)
172 COG1484 DnaC DNA replication p 95.6 0.019 4.2E-07 64.0 6.3 51 390-441 83-140 (254)
173 KOG0987 DNA helicase PIF1/RRM3 95.6 0.0079 1.7E-07 73.9 3.6 58 389-448 116-179 (540)
174 TIGR02774 rexB_recomb ATP-depe 95.6 0.2 4.3E-06 66.6 16.6 154 551-732 185-348 (1076)
175 PRK12422 chromosomal replicati 95.6 0.076 1.7E-06 63.9 11.8 35 406-441 142-176 (445)
176 PRK14963 DNA polymerase III su 95.6 0.037 7.9E-07 67.6 8.9 26 407-432 38-63 (504)
177 PRK14952 DNA polymerase III su 95.5 0.028 6.1E-07 69.5 7.6 25 407-431 37-61 (584)
178 PRK10416 signal recognition pa 95.5 0.032 7E-07 64.2 7.7 55 407-462 116-173 (318)
179 PRK14951 DNA polymerase III su 95.5 0.023 5E-07 70.7 6.8 25 407-431 40-64 (618)
180 TIGR00708 cobA cob(I)alamin ad 95.5 0.072 1.6E-06 56.1 9.4 38 405-443 5-42 (173)
181 PHA03333 putative ATPase subun 95.4 0.11 2.3E-06 64.6 12.1 65 393-457 175-239 (752)
182 TIGR03877 thermo_KaiC_1 KaiC d 95.4 0.021 4.6E-07 62.7 5.7 54 405-460 21-74 (237)
183 cd01129 PulE-GspE PulE/GspE Th 95.4 0.023 5E-07 63.7 6.0 50 390-440 63-114 (264)
184 KOG2028 ATPase related to the 95.4 0.035 7.6E-07 63.6 7.3 39 552-591 223-263 (554)
185 PRK09200 preprotein translocas 95.4 0.11 2.3E-06 66.4 12.1 62 392-456 80-141 (790)
186 cd00561 CobA_CobO_BtuR ATP:cor 95.4 0.095 2.1E-06 54.5 9.8 59 405-466 2-64 (159)
187 PF01695 IstB_IS21: IstB-like 95.3 0.035 7.6E-07 58.6 6.8 45 405-455 47-91 (178)
188 PRK08116 hypothetical protein; 95.3 0.056 1.2E-06 60.8 8.6 34 407-441 116-149 (268)
189 PRK14960 DNA polymerase III su 95.3 0.026 5.7E-07 70.0 6.4 25 407-431 39-63 (702)
190 cd01131 PilT Pilus retraction 95.3 0.021 4.6E-07 61.1 5.0 37 405-441 1-37 (198)
191 PRK05973 replicative DNA helic 95.3 0.029 6.3E-07 61.9 6.1 53 405-459 64-116 (237)
192 cd03115 SRP The signal recogni 95.2 0.041 9E-07 57.1 6.8 34 407-441 2-35 (173)
193 PRK14969 DNA polymerase III su 95.2 0.05 1.1E-06 66.9 8.5 24 407-430 40-63 (527)
194 PRK14948 DNA polymerase III su 95.2 0.038 8.2E-07 69.0 7.5 26 406-431 39-64 (620)
195 PF00004 AAA: ATPase family as 95.2 0.015 3.2E-07 56.6 3.1 22 408-429 1-22 (132)
196 cd01120 RecA-like_NTPases RecA 95.1 0.032 7E-07 55.8 5.6 41 407-448 1-41 (165)
197 PRK08533 flagellar accessory p 95.1 0.035 7.5E-07 61.0 5.9 53 405-459 24-76 (230)
198 TIGR03880 KaiC_arch_3 KaiC dom 95.1 0.038 8.2E-07 59.9 6.1 54 405-460 16-69 (224)
199 PRK08691 DNA polymerase III su 95.1 0.062 1.3E-06 67.2 8.6 26 407-432 40-65 (709)
200 PRK05563 DNA polymerase III su 95.0 0.044 9.4E-07 67.8 7.4 26 406-431 39-64 (559)
201 PLN03142 Probable chromatin-re 95.0 0.2 4.3E-06 65.7 13.5 149 390-587 169-331 (1033)
202 COG2805 PilT Tfp pilus assembl 95.0 0.034 7.4E-07 62.5 5.7 35 405-439 125-159 (353)
203 PRK09183 transposase/IS protei 95.0 0.054 1.2E-06 60.6 7.3 53 388-441 82-137 (259)
204 TIGR03878 thermo_KaiC_2 KaiC d 94.9 0.035 7.7E-07 62.0 5.6 39 405-444 36-74 (259)
205 KOG0333 U5 snRNP-like RNA heli 94.9 0.33 7.2E-06 58.1 13.6 79 387-465 264-357 (673)
206 PRK13833 conjugal transfer pro 94.9 0.05 1.1E-06 62.7 6.9 50 390-439 128-179 (323)
207 PRK13104 secA preprotein trans 94.9 0.072 1.6E-06 68.1 8.7 47 409-456 99-145 (896)
208 PRK09112 DNA polymerase III su 94.9 0.062 1.3E-06 62.7 7.6 26 407-432 47-72 (351)
209 PRK13894 conjugal transfer ATP 94.9 0.053 1.2E-06 62.4 6.9 53 390-442 132-186 (319)
210 KOG0780 Signal recognition par 94.9 0.14 3.1E-06 59.3 10.0 57 406-462 102-160 (483)
211 PRK07764 DNA polymerase III su 94.8 0.054 1.2E-06 69.6 7.5 25 407-431 39-63 (824)
212 COG0552 FtsY Signal recognitio 94.8 0.064 1.4E-06 61.4 7.1 58 407-464 141-200 (340)
213 TIGR00963 secA preprotein tran 94.8 0.14 2.9E-06 64.7 10.6 61 393-456 59-119 (745)
214 PRK06893 DNA replication initi 94.8 0.082 1.8E-06 57.9 7.9 36 405-441 39-74 (229)
215 PRK06067 flagellar accessory p 94.8 0.052 1.1E-06 59.3 6.3 55 405-461 25-79 (234)
216 PF13191 AAA_16: AAA ATPase do 94.7 0.054 1.2E-06 56.0 6.1 41 393-433 6-52 (185)
217 PRK14723 flhF flagellar biosyn 94.7 0.095 2.1E-06 66.4 9.2 53 406-458 186-242 (767)
218 TIGR02782 TrbB_P P-type conjug 94.7 0.058 1.3E-06 61.6 6.8 52 390-441 116-169 (299)
219 TIGR02688 conserved hypothetic 94.7 0.14 3.1E-06 60.6 10.0 29 405-433 209-238 (449)
220 PRK10867 signal recognition pa 94.7 0.06 1.3E-06 64.4 7.1 55 407-462 102-160 (433)
221 PRK04328 hypothetical protein; 94.7 0.049 1.1E-06 60.5 6.0 54 405-460 23-76 (249)
222 KOG0335 ATP-dependent RNA heli 94.7 0.062 1.4E-06 64.1 7.1 68 390-457 96-175 (482)
223 KOG0744 AAA+-type ATPase [Post 94.7 0.02 4.4E-07 64.6 2.9 27 405-431 177-203 (423)
224 COG1419 FlhF Flagellar GTP-bin 94.7 0.16 3.4E-06 59.8 10.1 49 405-453 203-255 (407)
225 PF02689 Herpes_Helicase: Heli 94.7 0.091 2E-06 65.3 8.5 48 403-456 57-104 (818)
226 PRK14964 DNA polymerase III su 94.6 0.1 2.2E-06 63.3 8.9 24 407-430 37-60 (491)
227 PF13481 AAA_25: AAA domain; P 94.6 0.05 1.1E-06 57.1 5.5 52 405-457 32-92 (193)
228 smart00763 AAA_PrkA PrkA AAA d 94.6 0.078 1.7E-06 61.7 7.4 27 405-431 78-104 (361)
229 PRK14965 DNA polymerase III su 94.6 0.079 1.7E-06 65.8 7.9 38 394-431 23-64 (576)
230 COG0541 Ffh Signal recognition 94.6 0.26 5.6E-06 58.3 11.5 56 407-462 102-159 (451)
231 PRK09694 helicase Cas3; Provis 94.6 0.1 2.2E-06 67.4 9.1 67 390-456 286-353 (878)
232 PRK10436 hypothetical protein; 94.5 0.052 1.1E-06 65.5 5.9 41 390-430 201-243 (462)
233 PRK14086 dnaA chromosomal repl 94.5 0.2 4.3E-06 62.2 10.8 36 406-441 315-351 (617)
234 TIGR03420 DnaA_homol_Hda DnaA 94.5 0.12 2.6E-06 55.7 8.1 50 391-441 21-73 (226)
235 TIGR02533 type_II_gspE general 94.5 0.047 1E-06 66.4 5.5 41 390-430 225-267 (486)
236 PRK08903 DnaA regulatory inact 94.4 0.11 2.4E-06 56.4 7.8 51 390-441 23-77 (227)
237 PF05729 NACHT: NACHT domain 94.4 0.037 7.9E-07 55.9 3.8 28 406-433 1-28 (166)
238 cd01122 GP4d_helicase GP4d_hel 94.4 0.066 1.4E-06 59.6 6.2 51 405-456 30-80 (271)
239 COG4581 Superfamily II RNA hel 94.4 0.1 2.2E-06 67.6 8.4 66 390-456 119-184 (1041)
240 PRK13341 recombination factor 94.4 0.11 2.3E-06 66.1 8.5 36 551-587 109-146 (725)
241 TIGR02928 orc1/cdc6 family rep 94.4 0.068 1.5E-06 62.0 6.4 41 392-432 20-67 (365)
242 COG2804 PulE Type II secretory 94.3 0.06 1.3E-06 64.6 5.9 42 391-432 242-285 (500)
243 TIGR00959 ffh signal recogniti 94.3 0.096 2.1E-06 62.6 7.6 57 407-463 101-160 (428)
244 TIGR02655 circ_KaiC circadian 94.3 0.054 1.2E-06 65.9 5.7 54 405-460 263-316 (484)
245 PRK08727 hypothetical protein; 94.3 0.21 4.5E-06 54.9 9.7 35 406-441 42-76 (233)
246 PRK06851 hypothetical protein; 94.3 0.034 7.5E-07 65.0 3.7 48 405-452 30-78 (367)
247 PRK07940 DNA polymerase III su 94.3 0.1 2.2E-06 61.9 7.6 26 407-432 38-63 (394)
248 PRK07133 DNA polymerase III su 94.3 0.084 1.8E-06 66.5 7.3 25 407-431 42-66 (725)
249 KOG0991 Replication factor C, 94.3 0.06 1.3E-06 58.5 5.1 27 405-431 48-74 (333)
250 COG0467 RAD55 RecA-superfamily 94.3 0.063 1.4E-06 59.8 5.6 44 405-449 23-66 (260)
251 TIGR02655 circ_KaiC circadian 94.3 0.061 1.3E-06 65.4 5.9 55 405-460 21-75 (484)
252 KOG0922 DEAH-box RNA helicase 94.2 0.15 3.3E-06 62.5 8.9 58 399-456 60-117 (674)
253 PF13207 AAA_17: AAA domain; P 94.2 0.039 8.4E-07 53.4 3.3 23 407-429 1-23 (121)
254 PRK06921 hypothetical protein; 94.2 0.13 2.8E-06 57.9 7.9 38 405-442 117-154 (266)
255 PRK09751 putative ATP-dependen 94.2 0.098 2.1E-06 70.6 8.0 47 410-456 1-59 (1490)
256 PHA03368 DNA packaging termina 94.2 0.38 8.2E-06 59.7 12.3 58 399-456 248-306 (738)
257 PRK06835 DNA replication prote 94.2 0.098 2.1E-06 60.5 7.1 36 405-441 183-218 (329)
258 PRK05707 DNA polymerase III su 94.0 0.11 2.4E-06 60.1 7.1 26 407-432 24-49 (328)
259 COG1197 Mfd Transcription-repa 94.0 0.29 6.3E-06 63.8 11.4 73 390-463 594-676 (1139)
260 TIGR03881 KaiC_arch_4 KaiC dom 94.0 0.087 1.9E-06 57.2 6.0 53 405-459 20-72 (229)
261 PRK14873 primosome assembly pr 94.0 0.21 4.5E-06 63.0 9.9 48 409-457 164-211 (665)
262 PRK12326 preprotein translocas 94.0 0.19 4.1E-06 63.0 9.3 47 408-455 89-140 (764)
263 TIGR02237 recomb_radB DNA repa 94.0 0.082 1.8E-06 56.5 5.6 39 405-444 12-50 (209)
264 PRK05986 cob(I)alamin adenolsy 94.0 0.45 9.8E-06 50.9 10.9 40 404-444 21-60 (191)
265 PRK12726 flagellar biosynthesi 93.8 0.11 2.4E-06 61.0 6.5 56 405-461 206-264 (407)
266 cd00984 DnaB_C DnaB helicase C 93.8 0.1 2.2E-06 57.0 6.1 50 405-455 13-62 (242)
267 PLN03025 replication factor C 93.8 0.079 1.7E-06 60.8 5.4 40 392-431 18-60 (319)
268 TIGR02538 type_IV_pilB type IV 93.8 0.085 1.8E-06 65.4 6.0 40 390-429 299-340 (564)
269 COG0556 UvrB Helicase subunit 93.8 0.15 3.2E-06 61.1 7.6 62 392-457 14-80 (663)
270 KOG0923 mRNA splicing factor A 93.7 0.088 1.9E-06 64.1 5.7 53 404-456 279-332 (902)
271 PF07728 AAA_5: AAA domain (dy 93.7 0.079 1.7E-06 52.8 4.6 22 408-429 2-23 (139)
272 PRK08451 DNA polymerase III su 93.7 0.16 3.5E-06 62.2 8.0 25 407-431 38-62 (535)
273 cd01394 radB RadB. The archaea 93.7 0.084 1.8E-06 56.9 5.0 36 405-441 19-54 (218)
274 PRK12724 flagellar biosynthesi 93.6 0.16 3.5E-06 60.4 7.6 35 406-441 224-259 (432)
275 COG0507 RecD ATP-dependent exo 93.6 0.014 3.1E-07 73.9 -1.2 64 389-452 200-272 (696)
276 PRK00411 cdc6 cell division co 93.6 0.14 3E-06 60.2 7.0 41 393-433 36-83 (394)
277 TIGR02881 spore_V_K stage V sp 93.6 0.06 1.3E-06 60.0 3.8 27 406-432 43-69 (261)
278 KOG4284 DEAD box protein [Tran 93.5 0.07 1.5E-06 64.8 4.3 68 392-459 49-118 (980)
279 TIGR02640 gas_vesic_GvpN gas v 93.5 0.084 1.8E-06 59.0 4.8 25 404-428 20-44 (262)
280 PF13671 AAA_33: AAA domain; P 93.5 0.049 1.1E-06 54.2 2.6 22 407-428 1-22 (143)
281 cd01130 VirB11-like_ATPase Typ 93.5 0.1 2.2E-06 55.2 5.0 40 390-429 9-49 (186)
282 TIGR01650 PD_CobS cobaltochela 93.4 0.1 2.2E-06 60.1 5.4 40 390-429 48-88 (327)
283 cd01983 Fer4_NifH The Fer4_Nif 93.4 0.13 2.8E-06 46.7 5.1 33 408-441 2-34 (99)
284 COG1444 Predicted P-loop ATPas 93.4 0.65 1.4E-05 58.7 12.5 67 390-456 211-283 (758)
285 TIGR02525 plasmid_TraJ plasmid 93.4 0.16 3.5E-06 59.8 7.0 36 404-439 148-184 (372)
286 TIGR01420 pilT_fam pilus retra 93.4 0.079 1.7E-06 61.7 4.4 37 405-441 122-158 (343)
287 KOG0781 Signal recognition par 93.4 0.23 5E-06 58.9 8.0 44 408-452 381-427 (587)
288 PRK05642 DNA replication initi 93.3 0.25 5.4E-06 54.4 8.1 35 406-441 46-80 (234)
289 PRK09361 radB DNA repair and r 93.2 0.12 2.5E-06 56.2 5.1 38 405-443 23-60 (225)
290 PRK06731 flhF flagellar biosyn 93.1 0.73 1.6E-05 52.0 11.4 54 406-460 76-132 (270)
291 PF05496 RuvB_N: Holliday junc 93.0 0.066 1.4E-06 58.5 2.9 33 552-585 102-137 (233)
292 PRK08769 DNA polymerase III su 93.0 0.28 6.1E-06 56.6 8.1 44 551-594 113-162 (319)
293 PF06309 Torsin: Torsin; Inte 93.0 0.14 3E-06 51.1 4.9 29 405-433 52-81 (127)
294 PRK07471 DNA polymerase III su 93.0 0.3 6.5E-06 57.4 8.5 26 407-432 43-68 (365)
295 PHA00350 putative assembly pro 93.0 0.16 3.4E-06 60.2 6.1 32 407-440 3-35 (399)
296 PF02492 cobW: CobW/HypB/UreG, 92.9 0.18 4E-06 52.9 6.0 57 406-466 1-59 (178)
297 PF00437 T2SE: Type II/IV secr 92.9 0.1 2.2E-06 58.3 4.2 47 394-441 115-162 (270)
298 PRK08058 DNA polymerase III su 92.8 0.36 7.8E-06 55.9 8.8 27 406-432 29-55 (329)
299 PRK12402 replication factor C 92.8 0.14 3.1E-06 58.5 5.4 41 392-432 20-63 (337)
300 PRK09302 circadian clock prote 92.8 0.15 3.3E-06 62.3 6.0 54 405-460 273-326 (509)
301 PRK11823 DNA repair protein Ra 92.8 0.18 3.8E-06 60.9 6.3 53 405-459 80-132 (446)
302 PF13238 AAA_18: AAA domain; P 92.7 0.096 2.1E-06 50.7 3.3 22 408-429 1-22 (129)
303 PF00308 Bac_DnaA: Bacterial d 92.7 0.5 1.1E-05 51.5 9.2 51 391-441 15-71 (219)
304 cd01121 Sms Sms (bacterial rad 92.7 0.19 4.2E-06 59.1 6.3 52 405-458 82-133 (372)
305 TIGR00635 ruvB Holliday juncti 92.6 0.15 3.2E-06 57.9 5.2 24 406-429 31-54 (305)
306 cd00544 CobU Adenosylcobinamid 92.6 0.14 3.1E-06 53.6 4.6 46 407-456 1-46 (169)
307 PRK08939 primosomal protein Dn 92.6 0.16 3.4E-06 58.3 5.3 35 407-442 158-192 (306)
308 TIGR02012 tigrfam_recA protein 92.5 0.21 4.6E-06 57.5 6.3 43 405-448 55-97 (321)
309 TIGR02880 cbbX_cfxQ probable R 92.5 0.11 2.3E-06 59.0 3.9 27 407-433 60-86 (284)
310 PRK14959 DNA polymerase III su 92.5 0.34 7.4E-06 60.4 8.4 26 406-431 39-64 (624)
311 KOG0743 AAA+-type ATPase [Post 92.4 0.073 1.6E-06 62.9 2.3 23 407-429 237-259 (457)
312 PRK07399 DNA polymerase III su 92.3 0.46 1E-05 54.7 8.7 27 406-432 27-53 (314)
313 PRK00149 dnaA chromosomal repl 92.3 0.52 1.1E-05 56.8 9.5 37 406-442 149-186 (450)
314 KOG0342 ATP-dependent RNA heli 92.3 0.45 9.7E-06 56.7 8.4 70 386-455 100-175 (543)
315 COG1201 Lhr Lhr-like helicases 92.2 0.47 1E-05 60.6 9.3 68 389-456 21-95 (814)
316 TIGR02524 dot_icm_DotB Dot/Icm 92.2 0.23 5.1E-06 58.1 6.2 29 404-432 133-161 (358)
317 cd00983 recA RecA is a bacter 92.2 0.32 6.9E-06 56.2 7.2 40 405-445 55-94 (325)
318 PF12846 AAA_10: AAA-like doma 92.1 0.19 4.1E-06 55.9 5.2 57 405-466 1-57 (304)
319 PRK09302 circadian clock prote 92.1 0.2 4.4E-06 61.3 5.8 55 405-460 31-85 (509)
320 cd02019 NK Nucleoside/nucleoti 92.1 0.24 5.2E-06 43.9 4.8 22 408-429 2-23 (69)
321 PRK11331 5-methylcytosine-spec 92.0 0.23 4.9E-06 59.6 5.9 40 391-430 179-219 (459)
322 KOG0389 SNF2 family DNA-depend 92.0 0.46 1E-05 59.3 8.5 151 390-587 399-564 (941)
323 PRK04195 replication factor C 92.0 0.17 3.8E-06 61.5 5.1 39 391-429 18-63 (482)
324 PRK13768 GTPase; Provisional 92.0 0.18 4E-06 56.1 4.9 34 407-441 4-37 (253)
325 PRK06851 hypothetical protein; 91.8 0.19 4.2E-06 58.8 4.9 44 405-448 214-258 (367)
326 KOG0331 ATP-dependent RNA heli 91.8 0.41 8.8E-06 58.1 7.7 69 389-457 112-188 (519)
327 TIGR00416 sms DNA repair prote 91.8 0.27 5.9E-06 59.4 6.3 52 405-458 94-145 (454)
328 PTZ00112 origin recognition co 91.7 0.23 5E-06 63.2 5.6 39 393-431 761-807 (1164)
329 PF05673 DUF815: Protein of un 91.7 0.68 1.5E-05 51.4 8.6 59 405-464 52-111 (249)
330 PHA02544 44 clamp loader, smal 91.7 0.37 8E-06 54.9 7.0 39 391-429 25-67 (316)
331 COG1474 CDC6 Cdc6-related prot 91.7 0.37 7.9E-06 56.7 7.0 64 392-455 22-94 (366)
332 PF03266 NTPase_1: NTPase; In 91.6 0.18 4E-06 52.8 4.0 25 408-432 2-26 (168)
333 PF03205 MobB: Molybdopterin g 91.6 0.24 5.3E-06 50.2 4.8 34 406-440 1-34 (140)
334 PRK13531 regulatory ATPase Rav 91.6 0.24 5.1E-06 59.9 5.4 33 398-430 32-64 (498)
335 CHL00181 cbbX CbbX; Provisiona 91.6 0.17 3.6E-06 57.6 3.9 26 407-432 61-86 (287)
336 TIGR01359 UMP_CMP_kin_fam UMP- 91.5 0.15 3.2E-06 53.3 3.2 23 407-429 1-23 (183)
337 PHA00729 NTP-binding motif con 91.5 0.16 3.4E-06 55.8 3.5 24 407-430 19-42 (226)
338 PF01078 Mg_chelatase: Magnesi 91.5 0.22 4.8E-06 53.8 4.6 37 393-429 9-46 (206)
339 PRK00080 ruvB Holliday junctio 91.4 0.24 5.2E-06 57.1 5.2 24 406-429 52-75 (328)
340 PRK06995 flhF flagellar biosyn 91.4 0.23 5E-06 60.2 5.1 36 406-441 257-293 (484)
341 TIGR01360 aden_kin_iso1 adenyl 91.4 0.16 3.6E-06 52.8 3.4 25 405-429 3-27 (188)
342 TIGR00750 lao LAO/AO transport 91.3 0.25 5.5E-06 56.4 5.1 36 405-441 34-69 (300)
343 PF03308 ArgK: ArgK protein; 91.2 0.21 4.7E-06 55.5 4.2 33 408-441 32-64 (266)
344 PF00910 RNA_helicase: RNA hel 91.2 0.19 4E-06 48.4 3.4 24 409-432 2-25 (107)
345 cd03114 ArgK-like The function 91.2 0.3 6.6E-06 50.0 5.1 33 408-441 2-34 (148)
346 TIGR00362 DnaA chromosomal rep 91.1 0.4 8.7E-06 56.9 6.7 35 407-441 138-173 (405)
347 TIGR00176 mobB molybdopterin-g 91.0 0.32 6.9E-06 50.3 5.0 35 408-443 2-36 (155)
348 cd01393 recA_like RecA is a b 91.0 0.39 8.5E-06 51.8 6.0 40 405-444 19-63 (226)
349 TIGR01242 26Sp45 26S proteasom 90.9 0.26 5.6E-06 57.7 4.7 22 408-429 159-180 (364)
350 KOG0348 ATP-dependent RNA heli 90.8 0.63 1.4E-05 55.9 7.7 69 389-457 158-234 (708)
351 COG3857 AddB ATP-dependent nuc 90.8 4.6 0.0001 52.5 15.6 56 408-464 4-65 (1108)
352 cd01125 repA Hexameric Replica 90.6 0.38 8.2E-06 52.9 5.6 50 407-457 3-63 (239)
353 PF03215 Rad17: Rad17 cell cyc 90.6 0.27 5.9E-06 60.3 4.7 25 405-429 45-69 (519)
354 PF13555 AAA_29: P-loop contai 90.6 0.27 5.9E-06 43.2 3.4 26 406-431 24-49 (62)
355 PRK09354 recA recombinase A; P 90.6 0.56 1.2E-05 54.7 7.0 42 405-447 60-101 (349)
356 COG2019 AdkA Archaeal adenylat 90.5 1.1 2.3E-05 47.0 8.2 24 406-429 5-28 (189)
357 PRK03992 proteasome-activating 90.5 0.33 7.1E-06 57.6 5.2 23 407-429 167-189 (389)
358 smart00350 MCM minichromosome 90.5 3.9 8.5E-05 50.3 14.6 21 407-427 238-258 (509)
359 PRK08233 hypothetical protein; 90.5 0.19 4.1E-06 52.1 2.8 24 406-429 4-27 (182)
360 PRK09435 membrane ATPase/prote 90.5 0.33 7.2E-06 56.3 5.1 34 407-441 58-91 (332)
361 COG1102 Cmk Cytidylate kinase 90.5 0.2 4.4E-06 52.0 2.9 22 408-429 3-24 (179)
362 COG3854 SpoIIIAA ncharacterize 90.4 0.34 7.3E-06 53.0 4.6 37 408-444 140-180 (308)
363 KOG1131 RNA polymerase II tran 90.4 3 6.5E-05 50.3 12.6 63 391-453 17-86 (755)
364 PF04665 Pox_A32: Poxvirus A32 90.4 0.3 6.5E-06 54.1 4.4 40 402-442 9-49 (241)
365 PRK06871 DNA polymerase III su 90.3 0.9 1.9E-05 52.6 8.4 44 551-594 107-156 (325)
366 PRK12904 preprotein translocas 90.3 0.97 2.1E-05 58.0 9.3 47 409-456 98-144 (830)
367 PRK13342 recombination factor 90.3 0.41 8.8E-06 57.1 5.8 23 406-428 37-59 (413)
368 TIGR00767 rho transcription te 90.3 1.1 2.3E-05 53.2 9.0 51 405-455 168-221 (415)
369 TIGR03689 pup_AAA proteasome A 90.2 0.34 7.3E-06 59.2 5.1 24 407-430 218-241 (512)
370 PRK05541 adenylylsulfate kinas 90.2 0.37 8.1E-06 50.2 4.8 29 406-434 8-36 (176)
371 COG1222 RPT1 ATP-dependent 26S 90.2 0.33 7.1E-06 56.1 4.6 20 408-427 188-207 (406)
372 PRK00440 rfc replication facto 90.2 0.4 8.6E-06 54.4 5.4 39 393-431 23-64 (319)
373 PRK13900 type IV secretion sys 90.2 0.46 9.9E-06 55.2 5.9 41 397-439 151-192 (332)
374 PRK13103 secA preprotein trans 90.1 1.2 2.5E-05 57.5 9.7 43 413-456 103-145 (913)
375 PRK12608 transcription termina 90.0 0.39 8.4E-06 56.4 5.1 50 407-456 135-187 (380)
376 cd02117 NifH_like This family 90.0 0.43 9.2E-06 51.4 5.2 32 408-440 3-34 (212)
377 PRK05800 cobU adenosylcobinami 90.0 0.29 6.3E-06 51.3 3.8 46 407-456 3-48 (170)
378 PRK13764 ATPase; Provisional 90.0 0.34 7.3E-06 60.3 4.8 28 405-432 257-284 (602)
379 COG0378 HypB Ni2+-binding GTPa 89.9 0.62 1.4E-05 49.8 6.1 53 408-465 16-71 (202)
380 cd02021 GntK Gluconate kinase 89.9 0.24 5.2E-06 50.0 3.0 22 407-428 1-22 (150)
381 PTZ00361 26 proteosome regulat 89.9 0.39 8.5E-06 57.7 5.2 23 407-429 219-241 (438)
382 PRK08118 topology modulation p 89.9 0.26 5.6E-06 51.4 3.3 22 408-429 4-25 (167)
383 TIGR03574 selen_PSTK L-seryl-t 89.9 0.4 8.7E-06 53.0 5.0 33 407-440 1-33 (249)
384 cd02034 CooC The accessory pro 89.9 0.49 1.1E-05 46.5 5.0 44 408-455 2-45 (116)
385 PF03029 ATP_bind_1: Conserved 89.9 0.23 5E-06 54.9 3.0 29 410-439 1-29 (238)
386 cd02028 UMPK_like Uridine mono 89.8 0.46 9.9E-06 50.1 5.0 33 407-440 1-33 (179)
387 KOG0328 Predicted ATP-dependen 89.8 0.15 3.2E-06 56.8 1.4 67 392-458 51-119 (400)
388 COG4088 Predicted nucleotide k 89.7 0.3 6.4E-06 52.6 3.5 28 406-433 2-29 (261)
389 cd01123 Rad51_DMC1_radA Rad51_ 89.7 0.47 1E-05 51.6 5.2 40 405-444 19-63 (235)
390 KOG0951 RNA helicase BRR2, DEA 89.7 0.92 2E-05 59.3 8.3 78 389-466 308-400 (1674)
391 PF13521 AAA_28: AAA domain; P 89.6 0.26 5.7E-06 50.6 3.0 21 408-428 2-22 (163)
392 PRK13107 preprotein translocas 89.6 1.3 2.8E-05 57.1 9.5 47 409-456 99-145 (908)
393 COG0714 MoxR-like ATPases [Gen 89.6 0.45 9.7E-06 54.9 5.2 46 401-448 39-84 (329)
394 PHA02244 ATPase-like protein 89.6 0.48 1E-05 55.5 5.4 32 397-428 110-142 (383)
395 PRK14962 DNA polymerase III su 89.6 0.35 7.5E-06 58.8 4.4 24 408-431 39-62 (472)
396 PRK00889 adenylylsulfate kinas 89.4 0.5 1.1E-05 49.1 5.0 34 406-440 5-38 (175)
397 PRK14961 DNA polymerase III su 89.4 0.37 8E-06 56.5 4.5 24 407-430 40-63 (363)
398 PRK14530 adenylate kinase; Pro 89.4 0.32 6.9E-06 52.6 3.6 25 405-429 3-27 (215)
399 PRK10463 hydrogenase nickel in 89.4 1 2.2E-05 51.4 7.6 72 392-466 88-162 (290)
400 PTZ00301 uridine kinase; Provi 89.3 0.5 1.1E-05 51.4 5.0 27 406-432 4-30 (210)
401 PRK03839 putative kinase; Prov 89.3 0.31 6.7E-06 50.9 3.4 22 408-429 3-24 (180)
402 cd02023 UMPK Uridine monophosp 89.3 0.46 9.9E-06 50.5 4.7 32 407-441 1-32 (198)
403 PRK12906 secA preprotein trans 89.3 1.4 3E-05 56.4 9.5 45 409-454 97-141 (796)
404 PF07726 AAA_3: ATPase family 89.3 0.21 4.7E-06 50.1 2.0 37 553-590 64-102 (131)
405 PRK06762 hypothetical protein; 89.2 0.33 7.1E-06 50.0 3.4 40 406-454 3-42 (166)
406 COG1618 Predicted nucleotide k 89.2 0.39 8.4E-06 49.9 3.8 26 408-433 8-33 (179)
407 PRK00131 aroK shikimate kinase 89.2 0.35 7.6E-06 49.5 3.6 25 405-429 4-28 (175)
408 PRK05298 excinuclease ABC subu 89.0 1.5 3.2E-05 55.6 9.6 64 390-457 12-80 (652)
409 KOG1970 Checkpoint RAD17-RFC c 89.0 0.29 6.3E-06 59.1 3.2 27 403-429 108-134 (634)
410 PRK07667 uridine kinase; Provi 89.0 0.55 1.2E-05 50.0 5.0 36 407-443 19-54 (193)
411 PRK06964 DNA polymerase III su 88.9 0.91 2E-05 52.9 7.1 44 551-594 132-181 (342)
412 cd01428 ADK Adenylate kinase ( 88.9 0.32 7E-06 51.0 3.2 21 408-428 2-22 (194)
413 PRK14531 adenylate kinase; Pro 88.9 0.35 7.6E-06 50.9 3.4 23 407-429 4-26 (183)
414 COG5192 BMS1 GTP-binding prote 88.9 0.47 1E-05 56.9 4.7 25 408-432 72-96 (1077)
415 TIGR02322 phosphon_PhnN phosph 88.8 0.35 7.5E-06 50.4 3.3 24 406-429 2-25 (179)
416 COG1703 ArgK Putative periplas 88.8 0.44 9.5E-06 54.0 4.2 34 407-441 53-86 (323)
417 TIGR00150 HI0065_YjeE ATPase, 88.8 0.64 1.4E-05 47.0 5.0 25 405-429 22-46 (133)
418 TIGR00665 DnaB replicative DNA 88.7 0.63 1.4E-05 55.8 5.9 51 405-456 195-245 (434)
419 KOG1533 Predicted GTPase [Gene 88.6 0.37 8E-06 52.7 3.4 32 408-440 5-36 (290)
420 KOG0338 ATP-dependent RNA heli 88.6 0.75 1.6E-05 55.0 6.1 61 392-452 205-270 (691)
421 PRK06620 hypothetical protein; 88.6 0.35 7.7E-06 52.6 3.3 19 406-424 45-63 (214)
422 TIGR00631 uvrb excinuclease AB 88.6 1.2 2.6E-05 56.4 8.3 63 391-457 10-77 (655)
423 PRK13851 type IV secretion sys 88.5 0.45 9.8E-06 55.5 4.3 45 394-440 150-195 (344)
424 PRK14532 adenylate kinase; Pro 88.5 0.34 7.4E-06 50.9 3.0 21 408-428 3-23 (188)
425 cd02025 PanK Pantothenate kina 88.4 0.59 1.3E-05 51.1 4.8 34 408-441 2-36 (220)
426 KOG0385 Chromatin remodeling c 88.4 1.8 4E-05 54.2 9.3 147 390-587 167-329 (971)
427 PRK08154 anaerobic benzoate ca 88.4 0.58 1.3E-05 53.7 5.0 41 389-429 106-157 (309)
428 TIGR02858 spore_III_AA stage I 88.4 0.97 2.1E-05 51.0 6.6 25 406-430 112-136 (270)
429 PRK06696 uridine kinase; Valid 88.3 0.62 1.3E-05 50.7 5.0 32 407-439 24-55 (223)
430 PRK04040 adenylate kinase; Pro 88.3 0.38 8.3E-06 51.2 3.3 23 407-429 4-26 (188)
431 cd00227 CPT Chloramphenicol (C 88.3 0.44 9.5E-06 49.7 3.7 25 405-429 2-26 (175)
432 TIGR01313 therm_gnt_kin carboh 88.3 0.32 6.9E-06 49.9 2.6 21 409-429 2-22 (163)
433 cd02027 APSK Adenosine 5'-phos 88.3 0.67 1.4E-05 47.3 4.9 27 407-433 1-27 (149)
434 TIGR00041 DTMP_kinase thymidyl 88.2 0.86 1.9E-05 48.0 5.8 34 406-440 4-37 (195)
435 KOG1132 Helicase of the DEAD s 88.1 2.2 4.9E-05 54.2 10.0 75 392-466 23-144 (945)
436 COG1202 Superfamily II helicas 88.1 1.1 2.3E-05 54.5 6.9 78 388-466 214-298 (830)
437 KOG0390 DNA repair protein, SN 88.1 2.1 4.6E-05 54.4 9.9 56 390-445 238-309 (776)
438 cd00550 ArsA_ATPase Oxyanion-t 88.0 0.6 1.3E-05 52.0 4.7 34 407-441 2-35 (254)
439 TIGR03600 phage_DnaB phage rep 88.0 0.8 1.7E-05 54.8 6.0 51 405-456 194-244 (421)
440 PRK14493 putative bifunctional 88.0 0.64 1.4E-05 52.6 4.9 35 407-443 3-37 (274)
441 PRK05480 uridine/cytidine kina 87.9 0.63 1.4E-05 49.9 4.7 24 406-429 7-30 (209)
442 cd02020 CMPK Cytidine monophos 87.9 0.46 1E-05 47.2 3.4 23 407-429 1-23 (147)
443 PRK02496 adk adenylate kinase; 87.9 0.44 9.5E-06 50.0 3.4 22 408-429 4-25 (184)
444 PRK10751 molybdopterin-guanine 87.9 0.7 1.5E-05 48.8 4.8 39 405-444 6-44 (173)
445 PLN02200 adenylate kinase fami 87.8 0.43 9.3E-06 52.6 3.3 24 406-429 44-67 (234)
446 PRK14527 adenylate kinase; Pro 87.8 0.45 9.8E-06 50.4 3.4 25 405-429 6-30 (191)
447 PRK06645 DNA polymerase III su 87.7 0.55 1.2E-05 57.5 4.5 26 406-431 44-69 (507)
448 cd03116 MobB Molybdenum is an 87.7 1.1 2.3E-05 46.7 5.9 59 407-466 3-66 (159)
449 KOG0924 mRNA splicing factor A 87.6 1.3 2.9E-05 54.6 7.4 53 404-456 370-422 (1042)
450 cd02037 MRP-like MRP (Multiple 87.6 0.7 1.5E-05 47.8 4.6 33 407-440 2-34 (169)
451 PTZ00454 26S protease regulato 87.6 0.39 8.4E-06 57.1 3.0 22 407-428 181-202 (398)
452 PF02374 ArsA_ATPase: Anion-tr 87.6 0.7 1.5E-05 53.0 5.0 47 406-453 2-50 (305)
453 PF08433 KTI12: Chromatin asso 87.5 0.69 1.5E-05 52.2 4.9 35 406-441 2-36 (270)
454 PRK07261 topology modulation p 87.5 0.46 1E-05 49.7 3.3 20 408-427 3-22 (171)
455 PRK04301 radA DNA repair and r 87.5 0.75 1.6E-05 52.9 5.2 51 405-455 102-158 (317)
456 PF00406 ADK: Adenylate kinase 87.5 0.42 9.2E-06 48.5 2.9 20 410-429 1-20 (151)
457 cd02040 NifH NifH gene encodes 87.4 0.66 1.4E-05 51.4 4.6 32 407-440 4-35 (270)
458 COG0610 Type I site-specific r 87.4 3.3 7.2E-05 54.7 11.6 51 407-457 275-326 (962)
459 PF01656 CbiA: CobQ/CobB/MinD/ 87.4 0.87 1.9E-05 47.5 5.2 34 407-441 1-34 (195)
460 PRK14528 adenylate kinase; Pro 87.4 0.49 1.1E-05 50.1 3.4 23 407-429 3-25 (186)
461 PRK14494 putative molybdopteri 87.4 0.94 2E-05 49.9 5.6 58 407-465 3-63 (229)
462 COG3911 Predicted ATPase [Gene 87.3 0.48 1E-05 48.6 3.0 21 406-426 10-30 (183)
463 PF00485 PRK: Phosphoribulokin 87.3 0.49 1.1E-05 50.3 3.3 27 407-433 1-27 (194)
464 PRK00279 adk adenylate kinase; 87.1 0.51 1.1E-05 51.0 3.4 21 408-428 3-23 (215)
465 KOG0733 Nuclear AAA ATPase (VC 87.0 0.38 8.3E-06 58.7 2.5 22 408-429 226-247 (802)
466 TIGR00764 lon_rel lon-related 86.9 0.83 1.8E-05 57.3 5.5 43 405-447 37-79 (608)
467 PHA02624 large T antigen; Prov 86.9 0.65 1.4E-05 57.4 4.4 36 394-429 416-455 (647)
468 PF01583 APS_kinase: Adenylyls 86.9 1 2.2E-05 46.8 5.2 33 407-440 4-36 (156)
469 PRK06547 hypothetical protein; 86.8 0.77 1.7E-05 48.3 4.4 23 406-428 16-38 (172)
470 PRK14489 putative bifunctional 86.8 1.5 3.3E-05 51.5 7.4 61 406-467 206-271 (366)
471 PLN00020 ribulose bisphosphate 86.8 0.48 1E-05 55.4 3.1 23 407-429 150-172 (413)
472 cd01672 TMPK Thymidine monopho 86.7 1.1 2.4E-05 46.8 5.6 33 407-440 2-34 (200)
473 PF06068 TIP49: TIP49 C-termin 86.7 0.67 1.5E-05 54.1 4.2 26 405-430 50-75 (398)
474 COG2255 RuvB Holliday junction 86.6 0.94 2E-05 51.1 5.1 24 406-429 53-76 (332)
475 TIGR01351 adk adenylate kinase 86.6 0.53 1.1E-05 50.7 3.1 21 408-428 2-22 (210)
476 KOG0951 RNA helicase BRR2, DEA 86.4 0.54 1.2E-05 61.2 3.5 75 390-466 1143-1223(1674)
477 TIGR02397 dnaX_nterm DNA polym 86.4 0.89 1.9E-05 52.6 5.1 40 392-431 19-62 (355)
478 KOG0731 AAA+-type ATPase conta 86.4 0.49 1.1E-05 59.7 3.1 20 408-427 347-366 (774)
479 TIGR01241 FtsH_fam ATP-depende 86.4 0.49 1.1E-05 57.8 3.1 21 408-428 91-111 (495)
480 COG4962 CpaF Flp pilus assembl 86.4 0.82 1.8E-05 52.8 4.6 53 389-443 156-209 (355)
481 PRK13407 bchI magnesium chelat 86.4 0.85 1.8E-05 53.0 4.9 24 406-429 30-53 (334)
482 KOG0926 DEAH-box RNA helicase 86.4 1.4 3.1E-05 55.2 6.8 67 389-456 256-327 (1172)
483 PRK14957 DNA polymerase III su 86.3 0.71 1.5E-05 57.0 4.4 25 407-431 40-64 (546)
484 PRK05748 replicative DNA helic 86.3 1.1 2.3E-05 54.2 5.8 50 405-455 203-252 (448)
485 KOG0344 ATP-dependent RNA heli 86.3 2 4.3E-05 52.4 7.9 69 390-458 158-233 (593)
486 PRK13765 ATP-dependent proteas 86.3 0.78 1.7E-05 57.6 4.8 38 405-442 50-87 (637)
487 PRK13235 nifH nitrogenase redu 86.3 0.86 1.9E-05 51.1 4.8 32 407-440 4-35 (274)
488 COG0470 HolB ATPase involved i 86.3 1.1 2.4E-05 50.8 5.7 26 407-432 26-51 (325)
489 TIGR02236 recomb_radA DNA repa 86.2 0.89 1.9E-05 52.0 4.9 26 405-430 95-120 (310)
490 COG1936 Predicted nucleotide k 86.2 0.53 1.2E-05 49.4 2.8 19 407-425 2-20 (180)
491 TIGR02016 BchX chlorophyllide 86.2 0.88 1.9E-05 52.0 4.8 31 408-440 4-34 (296)
492 PF03796 DnaB_C: DnaB-like hel 86.2 1.4 3.1E-05 48.9 6.4 51 405-456 19-69 (259)
493 PRK07993 DNA polymerase III su 86.1 2.5 5.3E-05 49.3 8.5 44 551-594 108-157 (334)
494 PF13476 AAA_23: AAA domain; P 86.1 0.58 1.3E-05 48.8 3.1 26 405-430 19-44 (202)
495 PF01580 FtsK_SpoIIIE: FtsK/Sp 86.0 0.87 1.9E-05 48.6 4.4 39 405-443 38-79 (205)
496 PRK05439 pantothenate kinase; 86.0 0.96 2.1E-05 52.1 5.0 35 407-441 88-123 (311)
497 PRK13947 shikimate kinase; Pro 85.9 0.65 1.4E-05 47.8 3.3 22 408-429 4-25 (171)
498 COG0563 Adk Adenylate kinase a 85.8 0.66 1.4E-05 49.1 3.3 21 408-428 3-23 (178)
499 COG0606 Predicted ATPase with 85.8 0.65 1.4E-05 55.6 3.6 35 394-428 186-221 (490)
500 CHL00195 ycf46 Ycf46; Provisio 85.8 0.6 1.3E-05 56.9 3.4 23 407-429 261-283 (489)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=3.2e-179 Score=1520.20 Aligned_cols=790 Identities=68% Similarity=1.099 Sum_probs=734.9
Q ss_pred cccccccccCCCccCcccCcccCCcccccccCCCCCCceEEcCCCCcCceeeCCCCCCCcchhhhhhhhcccceeeecCC
Q 001347 118 MAGLSFEETGDDVEGFEYGKADFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKD 197 (1095)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~yc~~~~~~~~~~c~~~~~~~wfcn~~~~~~~shiv~hl~~~~~~~v~lh~~ 197 (1095)
+.++.|||-..+. ...+ +.++|+|+|+||||++|.||++|++ |+|||||+|++|+|||||+||||++||+|+||+|
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 8899999865552 3334 4589999999999999999999999 9999999999999999999999999999999999
Q ss_pred CCCcccceeeecccccccccccceecccCceEEEEcchhHhH--------------------------------------
Q 001347 198 SPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLN-------------------------------------- 239 (1095)
Q Consensus 198 ~~~~~~~~~cy~~~~~n~f~lg~~~~~~~~~~~~~cr~~c~~-------------------------------------- 239 (1095)
+++|||+||||+||++|||+|||||+|+|+|||++||+||++
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 999999999999999999999999999999999999999987
Q ss_pred -----------------------------------------------------------------HhhhccccccEEEEE
Q 001347 240 -----------------------------------------------------------------MMKESQSKDNVTIRW 254 (1095)
Q Consensus 240 -----------------------------------------------------------------~~~e~~~~~~~~~~~ 254 (1095)
.+||||++++++|||
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 EecCCCcEEEEEEccCCCCCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEecc--ccEEEEEeccCCCCCcccCCCceEE
Q 001347 255 DIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTA--QEEVALELRASQGVPVDINHGFSVD 332 (1095)
Q Consensus 255 ~~~l~~k~~~~~~~~~~~~~~~~~~GD~v~l~~~g~~~~~~~~~~g~V~~i~~--~~~v~l~l~~~~~~p~~~~~~~~v~ 332 (1095)
+++||+|+++||.+++-+.++++..||+++|+|++. +...|.++|+|+++++ ++|+.||++.....|.+.+++|+|+
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 999999999999999998899999999999999998 5566999999999998 6999999999999999999999999
Q ss_pred EeeccchHHHHHHHHHHHHHhhhchhhhHhhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHHHHHhcCCcEEEEC
Q 001347 333 FVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQRPISLIQG 412 (1095)
Q Consensus 333 ~~~~~~s~~R~~~AL~~~~~~e~~vs~~i~~~llg~~~~~~~~~~~lp~~~~~p~~~~LN~sQ~~AV~~aL~~~lsLIqG 412 (1095)
++|+.++|+||+.||+.|+.|+.+++.|+|+.+||++.++..++..||+.|..|++++||.+|..||+++|+++++||||
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 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccccccccCCcchhhhHHHHHhhccchh
Q 001347 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (1095)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~sre~i~~~~~~l~l~~~i~~l~~~~ 492 (1095)
|||||||.|+++||++|+++...+||||||||.|||+|+++|++.+++|||+++++||.++++++++++|.+++.+..
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 HHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCCCchhhhhhc
Q 001347 493 KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPL 572 (1095)
Q Consensus 493 ~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE~e~LIpL 572 (1095)
.+|+++.+++++.++++..++++|+.+++..+++++..|+||||||++|++.+|.+++|..||||||.|++||++||||
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 7899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeeeccCCCCCCCccccccccCccccccccccc
Q 001347 573 VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINER 652 (1095)
Q Consensus 573 ~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r 652 (1095)
+++++++||||||+||+|++++++++.++|.+||||||+..|..+++|.+||||||.|++|++++||+|.|+++++..+|
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 ccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHHHhc
Q 001347 653 QSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1095)
Q Consensus 653 ~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L~~~ 732 (1095)
...+++++||.++.|++|+...|.|++..+|+||.|+.||..++++|+.|++.|+.+++|||||||.+|+.+|.++|...
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 001347 733 GALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLT 812 (1095)
Q Consensus 733 ~~l~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~ 812 (1095)
+.+...++..|+|+|||+|||+|+|+||+||||+|...+|||+.|+|||||||||||++|+||||+.+|+++++|.++|.
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 HHHhcCceecCCCchhhhhhhhcccCccccccccccccCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001347 813 HYKEHECLVEGPLNNLKQSMVQFQKPKKIYNDRRLFFGAGPGIVPND-ISTSNPNADRRGSRARGYMPPGPPNGTHKPGL 891 (1095)
Q Consensus 813 ~~k~~~~lv~~~l~~l~~s~~~~~~p~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 891 (1095)
|+++++++++|++++++++++++.+|+++.+.++...+........+ ....++...++.++...|.+...+.+...
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 99999999999999999999999999999988766543322211111 11233344444444445555554443322
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001347 892 HPAGFPMPRVPLPPFQGGPPSQPYAIPS 919 (1095)
Q Consensus 892 ~~~~~~~~~~~~p~~~~~P~~~p~~~~~ 919 (1095)
++....+..|-|.....||.++++.+.
T Consensus 907 -~~~~~~~~~~~~~~~~~~~~~~~~~~~ 933 (935)
T KOG1802|consen 907 -LAQYFNKNVPIPANMVGPPSQKAARNT 933 (935)
T ss_pred -hhhccccCCCCchhhcCCCcccccccC
Confidence 344555666666666667777765443
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=1.3e-79 Score=747.73 Aligned_cols=551 Identities=32% Similarity=0.457 Sum_probs=426.4
Q ss_pred ccccccEEEEEEecCCCcEEEEEEccCCCCCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEeccccEEEEEeccCCCCCc
Q 001347 244 SQSKDNVTIRWDIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPV 323 (1095)
Q Consensus 244 ~~~~~~~~~~~~~~l~~k~~~~~~~~~~~~~~~~~~GD~v~l~~~g~~~~~~~~~~g~V~~i~~~~~v~l~l~~~~~~p~ 323 (1095)
.....++.++|..++.+|+++.|.-. ...+.+|.+||.|.|...+. ..|...|+|+++.+ ..|.|.+... .|.
T Consensus 26 g~~~~~l~~~~~~~~~g~~~~~f~~~-~~~~~~~~~GD~v~i~~~~~---~~~~~~g~V~~v~~-~~i~v~~~~~--~~~ 98 (637)
T TIGR00376 26 GRAILNLQGKIRGGLLGFLLVRFGRR-KAIATEISVGDIVLVSRGNP---LQSDLTGVVTRVGK-RFITVALEES--VPQ 98 (637)
T ss_pred CceEeceEEEEEeCCCCeEEEEEecC-CCCCCcCCCCCEEEEecCCC---CCCCcEEEEEEEcC-cEEEEEECCC--CCc
Confidence 66677999999999999999988843 34467999999999964333 34667899999986 3444444332 444
Q ss_pred ccCCCceEEEeeccchHHHHHHHHHHHHHhhhchhhhHhhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHHHHHh
Q 001347 324 DINHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVL 403 (1095)
Q Consensus 324 ~~~~~~~v~~~~~~~s~~R~~~AL~~~~~~e~~vs~~i~~~llg~~~~~~~~~~~lp~~~~~p~~~~LN~sQ~~AV~~aL 403 (1095)
+....|+++++||++||+||..||.+|..... .+++.++|...+..... ..+-. +..+.||++|++||..++
T Consensus 99 ~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~----~l~~~llg~~~p~~~~~-~~~~~---~~~~~ln~~Q~~Av~~~l 170 (637)
T TIGR00376 99 WSLKRVRIDLYANDVTFKRMKEALRALTENHS----RLLEFILGREAPSKASE-IHDFQ---FFDPNLNESQKEAVSFAL 170 (637)
T ss_pred ccCceEEEEEecCccHHHHHHHHHHHHHhchh----hHHHHHhCCCCCCcccc-ccccc---ccCCCCCHHHHHHHHHHh
Confidence 44567999999999999999999999976443 45667787653322111 11111 123689999999999999
Q ss_pred cC-CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccccccccCCcchhhhHH
Q 001347 404 QR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLH 482 (1095)
Q Consensus 404 ~~-~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~sre~i~~~~~~l~l~ 482 (1095)
.. ++++|+||||||||+|+++++.++++.+. +||+|||||.|||+|++||...+++++|+|+..+.. ..+...++.
T Consensus 171 ~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~-~VLv~a~sn~Avd~l~e~l~~~~~~vvRlg~~~r~~--~~~~~~sl~ 247 (637)
T TIGR00376 171 SSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL-RVLVTAPSNIAVDNLLERLALCDQKIVRLGHPARLL--KSNKQHSLD 247 (637)
T ss_pred cCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC-CEEEEcCcHHHHHHHHHHHHhCCCcEEEeCCchhcc--hhHHhccHH
Confidence 75 89999999999999999999999998876 999999999999999999999999999999987732 222333343
Q ss_pred HHHhhccch-----hHHHHHHHHH---------------------hhhh-----hccCCc--------------hH---H
Q 001347 483 YQVRHLDTS-----EKSELHKLQQ---------------------LKDE-----QGELSS--------------SD---E 514 (1095)
Q Consensus 483 ~~i~~l~~~-----~~~~L~kl~~---------------------lk~e-----~~els~--------------~~---~ 514 (1095)
..+...... ...++..+.. ++.+ ...+.. .. .
T Consensus 248 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 327 (637)
T TIGR00376 248 YLIENHPKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLL 327 (637)
T ss_pred HHHhcChhHHHHHHHHHHHHHHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHH
Confidence 333321110 0001111100 0000 000000 00 0
Q ss_pred HHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCCCchhhhhhccccCceEEEecCcCCCCceeec
Q 001347 515 KKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1095)
Q Consensus 515 k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s 594 (1095)
+.++........+++..|+|+++| ++...+....||+||||||+|++|+++|+|+.. ++++||||||+||||++.+
T Consensus 328 ~~~~~~~~~~~~~il~~a~v~~st---~~~~~l~~~~Fd~vIIDEAsQ~~ep~~lipl~~-~~~~vLvGD~~QLpP~v~s 403 (637)
T TIGR00376 328 KLLPEIEERIENEILAESDVVQST---NSSAGLKGWEFDVAVIDEASQAMEPSCLIPLLK-ARKLILAGDHKQLPPTILS 403 (637)
T ss_pred HHHHHHHHHHHHHHHhhCCEEEec---cCcHhhccCCCCEEEEECccccchHHHHHHHhh-CCeEEEecChhhcCCcccc
Confidence 111122233456789999987666 455678888999999999999999999999975 5799999999999999987
Q ss_pred HHHHhhcchHHHHHHHHHcC-CccEeeeeeccCCCCCCCccccccccCcccccccccccccCCCCCCC-------CCCCC
Q 001347 595 KKAARAGLAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW-------PVPNR 666 (1095)
Q Consensus 595 ~~a~~~gl~~SLFERL~~~g-~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~-------p~~~~ 666 (1095)
.. ..++..|||+||+... ....+|++||||||+|++|+|++||+|+|.++.++..+.+..+.... .....
T Consensus 404 ~~--~~~l~~SlferL~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 481 (637)
T TIGR00376 404 HD--AEELELTLFERLIKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEI 481 (637)
T ss_pred cc--ccccchhHHHHHHHhCCCceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCC
Confidence 65 3578999999999863 34689999999999999999999999999988776655433221111 12346
Q ss_pred CeEEEEcCCcee---ecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHHHhccchhhhccCCe
Q 001347 667 PMFFYVQMGQEE---ISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI 743 (1095)
Q Consensus 667 Pv~f~~~~g~ee---~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V 743 (1095)
|++|+++.|.+. ....+.|++|..||..|.++++.|++.|+++.+|||||||++|+.+|++.|... ...|
T Consensus 482 p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~-------~~~i 554 (637)
T TIGR00376 482 PLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHR-------HIDI 554 (637)
T ss_pred CEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhh-------CCCe
Confidence 999999998764 344578999999999999999999999999999999999999999999998543 2469
Q ss_pred EEeeccCCCCccccEEEEEccccCCcCCCCCCCCCCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCceecC
Q 001347 744 EVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEG 823 (1095)
Q Consensus 744 ~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~k~~~~lv~~ 823 (1095)
+|.|||+|||+|+|+||+|+||+|....+||+.|.|||||||||||++||||||..+|+++++|++|++|+++++++++.
T Consensus 555 ~v~TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~~~~~~li~~~~~~~~~~~~ 634 (637)
T TIGR00376 555 EVSSVDGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHGEVREA 634 (637)
T ss_pred EEccccccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhccChHHHHHHHHHHHCCCEEcC
Confidence 99999999999999999999999988889999999999999999999999999999999999999999999999999876
Q ss_pred CC
Q 001347 824 PL 825 (1095)
Q Consensus 824 ~l 825 (1095)
.+
T Consensus 635 ~~ 636 (637)
T TIGR00376 635 FK 636 (637)
T ss_pred CC
Confidence 54
No 3
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=3.7e-79 Score=702.69 Aligned_cols=554 Identities=30% Similarity=0.442 Sum_probs=415.4
Q ss_pred ecCCCcEEEEEEccCCC-CCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEeccccEEEEEeccCCCCCcccCCCceEEEe
Q 001347 256 IGLNKKRVAYFVFPKED-NELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPVDINHGFSVDFV 334 (1095)
Q Consensus 256 ~~l~~k~~~~~~~~~~~-~~~~~~~GD~v~l~~~g~~~~~~~~~~g~V~~i~~~~~v~l~l~~~~~~p~~~~~~~~v~~~ 334 (1095)
.||.+|.+..|....+. ....|.+||.|.|+...-..+..-...|.|+++... .+.+.+......|.... ..++..+
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 68999998888766632 356899999999984321111111345788888752 33333333333333222 4556777
Q ss_pred eccchHHHHHHHHHHHHHh-hhchhhhHhhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHHHHHhcC-CcEEEEC
Q 001347 335 WKSTSFDRMQGAMKTFAVD-ETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQR-PISLIQG 412 (1095)
Q Consensus 335 ~~~~s~~R~~~AL~~~~~~-e~~vs~~i~~~llg~~~~~~~~~~~lp~~~~~p~~~~LN~sQ~~AV~~aL~~-~lsLIqG 412 (1095)
.|..+|+||..+|..+... ....+.-+...+.+...........+ .-..+....||.+|++||..++.+ .+.+|+|
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 8899999999998877541 11122223333433321111111000 001123468999999999999985 8999999
Q ss_pred CCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccccccccCCcchhhhHHHHHhhccchh
Q 001347 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (1095)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~sre~i~~~~~~l~l~~~i~~l~~~~ 492 (1095)
|||||||+|++++|.+|+++++ +||||||||.|||||.+||...+.+++|+|++.|........ .+...+..-+...
T Consensus 209 PPGTGKT~TlvEiI~qlvk~~k-~VLVcaPSn~AVdNiverl~~~~~~l~R~g~paRl~~~~~~~--sld~~~~t~d~~~ 285 (649)
T KOG1803|consen 209 PPGTGKTRTLVEIISQLVKQKK-RVLVCAPSNVAVDNIVERLTHLKLNLVRVGHPARLLESVADH--SLDLLSNTKDNSQ 285 (649)
T ss_pred CCCCCceeeHHHHHHHHHHcCC-eEEEEcCchHHHHHHHHHhcccccchhhcCchhhhhhhhhhh--HHHHHHhcCchhh
Confidence 9999999999999999999985 999999999999999999999999999999998854322111 1111111111100
Q ss_pred -HHHHHH-HHHhhhhhcc-----CCchHH-------HHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEE
Q 001347 493 -KSELHK-LQQLKDEQGE-----LSSSDE-------KKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLID 558 (1095)
Q Consensus 493 -~~~L~k-l~~lk~e~~e-----ls~~~~-------k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIID 558 (1095)
...+.+ +......... +..... +.+++..+....+++.+++||++|..++....+.+..||+||||
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 1000000000 001111 11222223344689999999999999999988888899999999
Q ss_pred CCCCCCchhhhhhccccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcC--CccEeeeeeccCCCCCCCcccc
Q 001347 559 ESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFPSN 636 (1095)
Q Consensus 559 EAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g--~~~i~L~~qYRmhp~I~~f~S~ 636 (1095)
||+|+.|++||+|+.. .+++||+|||+||||++.+.++...|+..|+|||+.... .-.++|++|||||..|+.|+|.
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 9999999999999965 579999999999999999999999999999999999863 3457999999999999999999
Q ss_pred ccccCcccccccccccccCCCCCCC--CCCCCCeEEEEcCCceeeccc-----CCCccCHHHHHHHHHHHHHHHHcCCCC
Q 001347 637 SFYEGTLQNGVTINERQSSGIDFPW--PVPNRPMFFYVQMGQEEISAS-----GTSYLNRTEAANVEKIVTTFLRSGVVP 709 (1095)
Q Consensus 637 lFY~g~L~~~~~~~~r~~~~~~~~~--p~~~~Pv~f~~~~g~ee~~~~-----g~S~~N~~EA~~V~~iV~~Ll~~gv~~ 709 (1095)
.||+|+|..+.++..+.+..+.... .....|++|+++.+.+..... ..|++|..||++|..++..|++.|+.+
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 9999999999998888776544332 235789999999987543221 248999999999999999999999999
Q ss_pred CcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCccccEEEEEccccCCcCCCCCCCCCCceeeechhhc
Q 001347 710 SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRAR 789 (1095)
Q Consensus 710 ~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK 789 (1095)
.||||||||++|+.+|++.. .....+++|+|||+|||+|+|+||||+||||+...+|||.|.|||||||||||
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 99999999999999998221 22346799999999999999999999999999999999999999999999999
Q ss_pred cceEEEecccccc-CChhHHHHHHHHHhcCceecCC
Q 001347 790 YGIVILGNPKVLS-KQPLWNGLLTHYKEHECLVEGP 824 (1095)
Q Consensus 790 ~~LiIVGn~~~Ls-~~~~W~~ll~~~k~~~~lv~~~ 824 (1095)
++++||||..+++ .+.+.++++.|+.+++.+...+
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 8999999999999999888544
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.4e-62 Score=584.47 Aligned_cols=389 Identities=34% Similarity=0.551 Sum_probs=323.9
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEecc
Q 001347 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~ 466 (1095)
+..||..|++|+..++. +++.||.|-||||||||++.+|+.|+..++ +||++++||.|||||+-||...++.++|+|.
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 45899999999999987 789999999999999999999999999876 9999999999999999999999999999998
Q ss_pred ccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCcc
Q 001347 467 KSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1095)
Q Consensus 467 ~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~ 546 (1095)
..+ .|..++++.. ......+.|..+ +..++...||.|||.+..++.
T Consensus 746 ~~k-----------ih~~v~e~~~------------------~~~~s~ks~~~l-----~~~~~~~~IVa~TClgi~~pl 791 (1100)
T KOG1805|consen 746 EEK-----------IHPDVEEFTL------------------TNETSEKSYADL-----KKFLDQTSIVACTCLGINHPL 791 (1100)
T ss_pred ccc-----------cchHHHHHhc------------------ccccchhhHHHH-----HHHhCCCcEEEEEccCCCchh
Confidence 654 2222222210 011112233332 345788899999999999988
Q ss_pred ccCCCCCEEEEECCCCCCchhhhhhccccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCC-ccEeeeeecc
Q 001347 547 LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYR 625 (1095)
Q Consensus 547 L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~-~~i~L~~qYR 625 (1095)
+.+.+||++|||||+|+..|-+|.||.. ++++||||||.||||.+.+.+++..|++.|||+||..... ....|+.|||
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----CCCCCeEEEEcCCceee--cccCCCc
Q 001347 626 MHPSLSEFPSNSFYEGTLQNGVTINERQS-------------SGIDFPWP----VPNRPMFFYVQMGQEEI--SASGTSY 686 (1095)
Q Consensus 626 mhp~I~~f~S~lFY~g~L~~~~~~~~r~~-------------~~~~~~~p----~~~~Pv~f~~~~g~ee~--~~~g~S~ 686 (1095)
|+.+|+.++|.+||+|+|..+...-.+.. .....+|- .+..++.|+.+...... .......
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 99999999999999999997754333210 01122332 35677777655443222 2234456
Q ss_pred cCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCccccEEEEEcccc
Q 001347 687 LNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRS 766 (1095)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRS 766 (1095)
.|..||..|.+++..+++.|+++++||||+||++|+.+|++.+... .++|.|||+|||||+|+||+|+||+
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 6999999999999999999999999999999999999999988642 3999999999999999999999999
Q ss_pred CCcCCCC-CCCCCCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCcee
Q 001347 767 NEHQGIG-FLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLV 821 (1095)
Q Consensus 767 n~~~~iG-FL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~k~~~~lv 821 (1095)
|.....| .|+|+||+||||||||.+||+||+..+|...+.+++|+++..++..++
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 9865554 678999999999999999999999999999999999999987765554
No 5
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=2.7e-51 Score=476.24 Aligned_cols=283 Identities=35% Similarity=0.527 Sum_probs=245.4
Q ss_pred HHHHhccccccccccccCCcc--ccCCCCCEEEEECCCCCCchhhhhhccccCceEEEecCcCCCCceeecHH-HHhhcc
Q 001347 526 REISQSADVICCTCVGAGDPR--LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKK-AARAGL 602 (1095)
Q Consensus 526 ~~iL~~a~VI~~T~~~a~~~~--L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s~~-a~~~gl 602 (1095)
..+++.++||.+|+++++..+ |.+...++|||.||+.+.|...+..+...+.+|||||||+||.|..-..+ +..++|
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 358899999999999998765 67778999999999999999877777778899999999999999865533 455789
Q ss_pred hHHHHHHHHHcCCccEeeeeeccCCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeeccc
Q 001347 603 AQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISAS 682 (1095)
Q Consensus 603 ~~SLFERL~~~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~ 682 (1095)
..||||||+..|.+-.+|+.||||+|.|+++....||++-+. .+++.... ..+.....++|+.+...++....
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 11223456778877776665443
Q ss_pred CCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCccccEEEEE
Q 001347 683 GTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILS 762 (1095)
Q Consensus 683 g~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~DvVIlS 762 (1095)
.|+.|..||.+++++++.|++.++.+.||.|+|+|++|+..|++.+... ....|.|.|||+|||.|.|+|++|
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-ChhHHHHHHHHHhcCceec
Q 001347 763 CVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK-QPLWNGLLTHYKEHECLVE 822 (1095)
Q Consensus 763 ~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~-~~~W~~ll~~~k~~~~lv~ 822 (1095)
+||+|..+.+|||.-.+|++|||||||++||||||..++.. .++|+++++-+++++.|-+
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 8999999999999998754
No 6
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.3e-45 Score=458.31 Aligned_cols=487 Identities=36% Similarity=0.496 Sum_probs=355.1
Q ss_pred CCCceEEEeec------cchHHHHHHHHHHHHHhhhchhhhHhhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHH
Q 001347 326 NHGFSVDFVWK------STSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAV 399 (1095)
Q Consensus 326 ~~~~~v~~~~~------~~s~~R~~~AL~~~~~~e~~vs~~i~~~llg~~~~~~~~~~~lp~~~~~p~~~~LN~sQ~~AV 399 (1095)
.....+++..+ ...+.++...+..+.........++.+...+.... +...............++..|..++
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~ 283 (767)
T COG1112 207 KEEVRVDIVENLLELSESILLRRELELLSKFALILKRLLESLFEILRGKDLP---IKLLDVELELVEINKELDNEQKLAV 283 (767)
T ss_pred ccceEEEehhhccccchhHHHHhhhhhhHHHhhcccchhhhHHHHhhccccc---cccCCcceeeeccchhccchhHHHH
Confidence 34556666655 67788887777776543322222222211111110 0000000000112346788888888
Q ss_pred HHHhc-CCcEEEE-CCCCCcHHH--HHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC--CcEEEeccccccccC
Q 001347 400 KSVLQ-RPISLIQ-GPPGTGKTV--TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG--LKVVRLCAKSREAVS 473 (1095)
Q Consensus 400 ~~aL~-~~lsLIq-GPPGTGKTt--Tla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g--l~iVRlg~~sre~i~ 473 (1095)
...+. ....++. +++|||||. ++.+.+.........+++.+++++.+++++..++.... ...+++++..+....
T Consensus 284 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 363 (767)
T COG1112 284 KRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTVIKVELLRIGHPSRVLKK 363 (767)
T ss_pred HHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhccccceEEcCCcchhhhh
Confidence 87765 5555555 999999999 77777777777766799999999999999999998754 446677665543211
Q ss_pred Ccc---------------hhhhHHHHHhhccchhH---------------HHHHHHHHhhhhhccCCc------------
Q 001347 474 SPV---------------EHLTLHYQVRHLDTSEK---------------SELHKLQQLKDEQGELSS------------ 511 (1095)
Q Consensus 474 ~~~---------------~~l~l~~~i~~l~~~~~---------------~~L~kl~~lk~e~~els~------------ 511 (1095)
... ........+..+..... ..+.+..........+..
T Consensus 364 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ 443 (767)
T COG1112 364 LKLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGILPALNKSEALWISL 443 (767)
T ss_pred hhhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcchhHHHHHHHHHHHhh
Confidence 100 00000000000000000 000000000000000000
Q ss_pred -----hHHHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCCCchhhhhhccccCceEEEecCcC
Q 001347 512 -----SDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHC 586 (1095)
Q Consensus 512 -----~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~ 586 (1095)
......+.+.......+...+++|++|+..++...+....||+||||||+|++++.+++++.. ++++|++|||+
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 000111122233445677778899999999998888888999999999999999999999987 89999999999
Q ss_pred CCCceeecHHHHhhcchHHHHHHHHHcCC-ccEeeeeeccCCCCCCCccccccccCcccccccccccccCCCCCCCCCCC
Q 001347 587 QLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPN 665 (1095)
Q Consensus 587 QLpPvv~s~~a~~~gl~~SLFERL~~~g~-~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~ 665 (1095)
||+|++.+......++..++|+++...+. ...+|..|||||+.|+.|+|..||++++..+.............++....
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 99999988766677899999999999875 77899999999999999999999999998776655544333223333346
Q ss_pred CCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHHHhccchhhhccCCeEE
Q 001347 666 RPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEV 745 (1095)
Q Consensus 666 ~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V 745 (1095)
.|+.++++.+.++ .....++.|..||..+..++..+++.++.+.+||||+||++|+..|++.+...+ ..++|
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 7999999998877 556789999999999999999999999999999999999999999999887543 57999
Q ss_pred eeccCCCCccccEEEEEccccCCc-CCCCCCCCCCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCceecCC
Q 001347 746 ASVDSFQGREKDYIILSCVRSNEH-QGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGP 824 (1095)
Q Consensus 746 ~TVdsfQG~E~DvVIlS~VRSn~~-~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~k~~~~lv~~~ 824 (1095)
.|||+|||+|+|+||+|+||++.. ..+||+.|.||||||+||||++|||||+..++..++.|++++.+++.++++.+..
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 6999999999999999999999999999999999999999999999999998766
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=1.7e-46 Score=371.50 Aligned_cols=95 Identities=78% Similarity=1.533 Sum_probs=73.0
Q ss_pred ccccccCCCCCCceEEcCCCCcCceeeCCCCCCCcchhhhhhhhcccceeeecCCCCCcccceeeeccccccccccccee
Q 001347 143 HACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFIS 222 (1095)
Q Consensus 143 ~~c~yc~~~~~~~~~~c~~~~~~~wfcn~~~~~~~shiv~hl~~~~~~~v~lh~~~~~~~~~~~cy~~~~~n~f~lg~~~ 222 (1095)
|||+|||||+|+|||+|++ |+||||||+++|++||||+||||+|||||+||||+|||||+||||+||+||||+|||||
T Consensus 1 haC~YCG~~~p~~vv~C~~--c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~NvF~LGFip 78 (152)
T PF09416_consen 1 HACAYCGIHDPSCVVKCNT--CNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSRNVFLLGFIP 78 (152)
T ss_dssp TS-TTT----CCCEEEETT--TTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT----TTTEEEEE
T ss_pred CCccccCCCCcccEeEcCC--CCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCCceeeEEEEE
Confidence 8999999999999999999 99999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCceEEEEcchhHhH
Q 001347 223 AKTESVVVLLCREPCLN 239 (1095)
Q Consensus 223 ~~~~~~~~~~cr~~c~~ 239 (1095)
+|+|+|||||||+||+.
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=366.91 Aligned_cols=292 Identities=36% Similarity=0.508 Sum_probs=247.9
Q ss_pred ccccccccccccCCccc--cCCCCCEEEEECCCCCCchhhhhhccc-cCceEEEecCcCCCCceeecHHHHhhcchHHHH
Q 001347 531 SADVICCTCVGAGDPRL--ANFRFRQVLIDESTQATEPECLIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLF 607 (1095)
Q Consensus 531 ~a~VI~~T~~~a~~~~L--~~~~Fd~VIIDEAsQ~tE~e~LIpL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLF 607 (1095)
++.+|++|+.+.+.... ....|+.|+||||.|+.|++.++||.+ +..+.+++||+.|||++|.+..+....+..|+|
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 88899999987776443 334799999999999999999999998 889999999999999999999999999999999
Q ss_pred HHHHHcCCccEeeeeeccCCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcC-CceeecccCCCc
Q 001347 608 ERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQM-GQEEISASGTSY 686 (1095)
Q Consensus 608 ERL~~~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~-g~ee~~~~g~S~ 686 (1095)
+|+...+.....|.+||||||+|+.|++..||+++|.+...+........... .....|+.|++.. |.|+.. .+.|.
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 99999998888999999999999999999999999987777665443332222 2234677777766 555543 45899
Q ss_pred cCHHHHHHHHHHHHHHHHc----CCCCCcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCccccEEEEE
Q 001347 687 LNRTEAANVEKIVTTFLRS----GVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILS 762 (1095)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~----gv~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~DvVIlS 762 (1095)
.|..|+..+..++..|.+. ...+..+|||+||+.|+..+++.+...-.........+.+.|||+|||.|.|++|+|
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 9999999999999988764 233678999999999999999887654322112234799999999999999999999
Q ss_pred ccccCCcCCCCCCCCCCceeeechhhccceEEEeccccccCChh-HHHHHHHHHhcCceecCC
Q 001347 763 CVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPL-WNGLLTHYKEHECLVEGP 824 (1095)
Q Consensus 763 ~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~~~~-W~~ll~~~k~~~~lv~~~ 824 (1095)
+||++....+||+.+.||+|||+||||..|+++||...|..+.. |..++...+..+|+.+..
T Consensus 752 ~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~ 814 (827)
T KOG1801|consen 752 TVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRA 814 (827)
T ss_pred EEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhcccccccccc
Confidence 99999998899999999999999999999999999999998776 999999999999998764
No 9
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.5e-36 Score=366.60 Aligned_cols=373 Identities=32% Similarity=0.412 Sum_probs=286.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCcEEE-eccccccccCCcchhhhHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVR-LCAKSREAVSSPVEHLTLH 482 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~gl~iVR-lg~~sre~i~~~~~~l~l~ 482 (1095)
....+|.||||||||.++++-++++... ....|++|+++|.++|..+.|+... ..+-+ .+.+.+. .....++.
T Consensus 326 ~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~p-~~~~~~~~~~~~~--~~~~~~~~-- 400 (775)
T KOG1804|consen 326 PEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHYP-LTFSTARGEDVRA--KSSTAWYN-- 400 (775)
T ss_pred ccccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccccccccccc-ccccccccccccc--cchhHHhh--
Confidence 4578999999999999988777666544 4568999999999999999998421 11110 0000000 00000000
Q ss_pred HHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCcc---ccCCCCCEEEEEC
Q 001347 483 YQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR---LANFRFRQVLIDE 559 (1095)
Q Consensus 483 ~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~---L~~~~Fd~VIIDE 559 (1095)
+.+ .+....+..+...+....++.+||+.++... ..-.+|.+++|||
T Consensus 401 ----------~~~--------------------v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~De 450 (775)
T KOG1804|consen 401 ----------NAE--------------------VSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDE 450 (775)
T ss_pred ----------hHH--------------------HHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecc
Confidence 000 0011111111224566789999998877543 4455899999999
Q ss_pred CCCCCchhhhhhccc--cCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcC------------CccEeeeeecc
Q 001347 560 STQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG------------LKPIRLQVQYR 625 (1095)
Q Consensus 560 AsQ~tE~e~LIpL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g------------~~~i~L~~qYR 625 (1095)
|++++|+++++++.. ...++||.|||+||+|++.+..+...|++.+||+|++... ...+.|-.|||
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 12368999999
Q ss_pred CCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHc
Q 001347 626 MHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS 705 (1095)
Q Consensus 626 mhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~ 705 (1095)
+|+.|....|++||++.|.......+.... .-|. ..++|..+.|..+...+..|+.|..||..|..++..+...
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 999999999999999999755443322211 1232 3488899999999988999999999999998888877654
Q ss_pred C-CCCCcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCccccEEEEEccccCCcC------CCCCCCCC
Q 001347 706 G-VVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQ------GIGFLNDP 778 (1095)
Q Consensus 706 g-v~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~------~iGFL~d~ 778 (1095)
. +...||||||||++|+..|+.++...+ ..++.|++|..|||+|+.+||+|+|||.... ..+|+.++
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 345699999999999999999987644 5789999999999999999999999998531 22389999
Q ss_pred CceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCceecCC
Q 001347 779 RRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGP 824 (1095)
Q Consensus 779 RRLNVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~k~~~~lv~~~ 824 (1095)
++||||+|||+..++++|++..+..++.|..++-++.+++.+....
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 9999999999999999999999999999999999998888766543
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=2.7e-34 Score=302.54 Aligned_cols=195 Identities=44% Similarity=0.714 Sum_probs=141.4
Q ss_pred chHHHHHHHHHcC-CccEeeeeeccCCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeec
Q 001347 602 LAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEIS 680 (1095)
Q Consensus 602 l~~SLFERL~~~g-~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~ 680 (1095)
|..|||+||...+ .+.++|++||||||+|++|+|++||+|+|.+.......... .....+....|+.|+++.+.+...
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 122334567889999999887766
Q ss_pred ccC-CCccCHHHHHHHHHHHHHHHHcCCCC---CcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCccc
Q 001347 681 ASG-TSYLNRTEAANVEKIVTTFLRSGVVP---SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREK 756 (1095)
Q Consensus 681 ~~g-~S~~N~~EA~~V~~iV~~Ll~~gv~~---~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~ 756 (1095)
... +|+.|..||+.|+++++.|+..+... .+|+|||||++|+.+|++.|......... ..++|.|||+|||+|+
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 001347 757 DYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPK 799 (1095)
Q Consensus 757 DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~ 799 (1095)
|+||+|+|+++....+||+.+.+|+|||+||||++||||||++
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=9.5e-31 Score=278.97 Aligned_cols=204 Identities=38% Similarity=0.569 Sum_probs=128.9
Q ss_pred CCCHHHHHHHHHHhcCCc-EEEECCCCCcHHHHHHHHHHHHH-------HcCCCcEEEEcCcHHHHHHHHHHHHh-----
Q 001347 390 ELNASQVFAVKSVLQRPI-SLIQGPPGTGKTVTSAAIVYHMA-------KQGQGQVLVCAPSNVAVDQLAEKISA----- 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l-sLIqGPPGTGKTtTla~iI~~Ll-------k~~~~rILV~ApSN~AVD~L~eRL~~----- 456 (1095)
+||++|++||..++.+.. ++|+||||||||+|++.++..++ .....+||+|++||.|+|++.++|.+
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 23556999999999999999999988
Q ss_pred ---cCCcEEEeccccccccCCcchhhhHHHHHhhccc----hhHHHHHHH------HHhhhhhccCCchH---HHHHHHH
Q 001347 457 ---TGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDT----SEKSELHKL------QQLKDEQGELSSSD---EKKYKAL 520 (1095)
Q Consensus 457 ---~gl~iVRlg~~sre~i~~~~~~l~l~~~i~~l~~----~~~~~L~kl------~~lk~e~~els~~~---~k~y~~l 520 (1095)
...+++|++... +.....+....+...+..... .....+.++ ..+......+.... ...++..
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 222333333444443333221 000111111 11112222222221 2333444
Q ss_pred HHHHHHHHHhccccccccccccCCccccCC--CCCEEEEECCCCCCchhhhhhccccCceEEEecCcCCCCceeec
Q 001347 521 KRATEREISQSADVICCTCVGAGDPRLANF--RFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1095)
Q Consensus 521 ~~~~e~~iL~~a~VI~~T~~~a~~~~L~~~--~Fd~VIIDEAsQ~tE~e~LIpL~~~~krlILVGD~~QLpPvv~s 594 (1095)
.+.....+++.++||+||+.++....+... .||+||||||+|++|+++|+||...++++||||||+||||++.+
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=99.96 E-value=1.6e-29 Score=314.94 Aligned_cols=311 Identities=18% Similarity=0.186 Sum_probs=170.2
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcCC---cEE
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL---KVV 462 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~gl---~iV 462 (1095)
..||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||++|.+||.+..- .-+
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 356899999999999999999976411 111
Q ss_pred Eeccccc-------c-----ccCCcchhhhH-------HHHHhhccchh----HHHH-HHHHHhhhhh------ccCCch
Q 001347 463 RLCAKSR-------E-----AVSSPVEHLTL-------HYQVRHLDTSE----KSEL-HKLQQLKDEQ------GELSSS 512 (1095)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~l~l-------~~~i~~l~~~~----~~~L-~kl~~lk~e~------~els~~ 512 (1095)
.++.... + ........+.- ...+....... ...+ ..+...+... ......
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 2211100 0 00000000000 00001000000 0000 0011111100 000000
Q ss_pred HH----HHHHHHHHHHH-HHHHhccccccccccccC-Ccccc---CCCCCEEEEECCCCCCchhhhh--hccccCceEEE
Q 001347 513 DE----KKYKALKRATE-REISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPECLI--PLVLGAKQVVL 581 (1095)
Q Consensus 513 ~~----k~y~~l~~~~e-~~iL~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQ~tE~e~LI--pL~~~~krlIL 581 (1095)
.. ..|+.+..... ...++..|++..+..... .+.+. ..+|++|+|||+|+++..+..+ .|....+++++
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 00 11111111111 113333344433322211 11121 2379999999999999877433 23334579999
Q ss_pred ecCcCCCCceeecHHHHhhcchHHHHHHHHHc--CCccEeeeeeccCCCCCCCccccccccCcccccccccccccCCCCC
Q 001347 582 VGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDF 659 (1095)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~ 659 (1095)
|||++|-...+.+. ....|.++... +...+.|++|||+++.|++++|.++-.+.-.... .. .
T Consensus 241 VGD~~QsIY~fRGA-------~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~--------~~-~ 304 (715)
T TIGR01075 241 VGDDDQSIYGWRGA-------QVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGK--------NL-W 304 (715)
T ss_pred EeCCcccccccCCC-------CHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhccccccc--------cc-c
Confidence 99999954443322 22233333221 2346899999999999999999988554221100 00 0
Q ss_pred CCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHH
Q 001347 660 PWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYM 729 (1095)
Q Consensus 660 ~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L 729 (1095)
.....+.++.++.. .....||..|++.|..+++.|++++||+||++.+.|...|+..|
T Consensus 305 ~~~~~g~~i~~~~~------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L 362 (715)
T TIGR01075 305 TDGEVGEPISLYSA------------FNELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSRVLEEAL 362 (715)
T ss_pred CCCCCCCceEEEeC------------CCHHHHHHHHHHHHHHHHHcCCCccCEEEEEecCchHHHHHHHH
Confidence 00001122222221 11246899999999999988999999999976655554444433
No 13
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.96 E-value=1.5e-29 Score=315.23 Aligned_cols=307 Identities=18% Similarity=0.185 Sum_probs=171.3
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcC-C--cEE
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATG-L--KVV 462 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~g-l--~iV 462 (1095)
..||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||++|.+|+.+.. . .-+
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 6789999999999999999999999974 45689999999999999999997641 1 101
Q ss_pred Eeccccc-------c-----ccCCcchhhh-------HHHHHhhccch-----hHHHHHHHHHhhhhhccCCchH-----
Q 001347 463 RLCAKSR-------E-----AVSSPVEHLT-------LHYQVRHLDTS-----EKSELHKLQQLKDEQGELSSSD----- 513 (1095)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~l~-------l~~~i~~l~~~-----~~~~L~kl~~lk~e~~els~~~----- 513 (1095)
.++.... + ........+. +...++.+... .......+...+.. .+...+
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 1111000 0 0000000000 00000000000 00000000011100 000000
Q ss_pred -------HHHHHHHHHHH-HHHHHhccccccccccccC-Cccc---cCCCCCEEEEECCCCCCchhhh-h-hccccCceE
Q 001347 514 -------EKKYKALKRAT-EREISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPECL-I-PLVLGAKQV 579 (1095)
Q Consensus 514 -------~k~y~~l~~~~-e~~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQ~tE~e~L-I-pL~~~~krl 579 (1095)
...|+.+.... +...++..|++..++.... .+.+ ...+|++|+|||+|+++..+.. + .|.....++
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 01111111111 1113444444444433221 1122 1237999999999999987742 2 333345799
Q ss_pred EEecCcCCCCceeecHHHHhhcchHHHHHHHHHc--CCccEeeeeeccCCCCCCCccccccccCcccccccccccccCCC
Q 001347 580 VLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGI 657 (1095)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~ 657 (1095)
++|||++|....+.+. ....|.++... +...+.|++|||+++.|++++|.++-.+......
T Consensus 244 ~vVGD~dQsIY~fRGA-------~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k---------- 306 (721)
T PRK11773 244 MIVGDDDQSIYGWRGA-------QVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGK---------- 306 (721)
T ss_pred EEEecCcccccccCCC-------ChHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCc----------
Confidence 9999999954443322 22233333221 3456899999999999999999987553221100
Q ss_pred CCCCCC--CCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHH
Q 001347 658 DFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYM 729 (1095)
Q Consensus 658 ~~~~p~--~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L 729 (1095)
..|.. .+.++.++.. .....||..|.+.|..++..|++.+||+||++.+.|...|++.|
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 1112222211 11256899999999999998999999999987766665554444
No 14
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.96 E-value=3.3e-29 Score=303.41 Aligned_cols=237 Identities=24% Similarity=0.318 Sum_probs=138.1
Q ss_pred HHHHHhhhchhhhHhhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHH
Q 001347 348 KTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY 427 (1095)
Q Consensus 348 ~~~~~~e~~vs~~i~~~llg~~~~~~~~~~~lp~~~~~p~~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~ 427 (1095)
.+++..|..++.+|.++.......+..+...+.+.|... ..+.+.|+.|+..++.+++++|+|+||||||||+..++.
T Consensus 112 ~ry~~~E~~iA~~l~~~~~~~~~~~~~~~~~l~~lf~~~--~~~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~ 189 (615)
T PRK10875 112 QRMWQNERTVARFFNEVNHAIEVDEALLRQTLDALFGPV--TDEVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLA 189 (615)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHhcCcC--CCCCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHH
Confidence 344555666666665543221122222222222233211 134589999999999999999999999999999999998
Q ss_pred HHHHcC---CCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhh
Q 001347 428 HMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKD 504 (1095)
Q Consensus 428 ~Llk~~---~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~ 504 (1095)
.+.+.. ..+|+++|||++||.+|.+++.....+ +. +...++........++|++.....
T Consensus 190 ~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~---~~---------------~~~~~~~~~~~~a~TiHrlLg~~~ 251 (615)
T PRK10875 190 ALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQ---LP---------------LTDEQKKRIPEEASTLHRLLGAQP 251 (615)
T ss_pred HHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhc---cc---------------cchhhhhcCCCchHHHHHHhCcCC
Confidence 887642 347999999999999999988643111 00 000001110112344555543321
Q ss_pred hhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCCCchhh--hhhccccCceEEEe
Q 001347 505 EQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLV 582 (1095)
Q Consensus 505 e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILV 582 (1095)
....+ ++ ..-....+|+||||||||++.+.+ |+.......|||||
T Consensus 252 ~~~~~------~~---------------------------~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al~~~~rlIlv 298 (615)
T PRK10875 252 GSQRL------RY---------------------------HAGNPLHLDVLVVDEASMVDLPMMARLIDALPPHARVIFL 298 (615)
T ss_pred Cccch------hh---------------------------ccccCCCCCeEEEChHhcccHHHHHHHHHhcccCCEEEEe
Confidence 11000 00 011123689999999999997442 33333456899999
Q ss_pred cCcCCCCceeecHHHHh------hcchHHHHHHHHHc-----------CCcc-----EeeeeeccCC--CCCCCccccc
Q 001347 583 GDHCQLGPVIMCKKAAR------AGLAQSLFERLVLL-----------GLKP-----IRLQVQYRMH--PSLSEFPSNS 637 (1095)
Q Consensus 583 GD~~QLpPvv~s~~a~~------~gl~~SLFERL~~~-----------g~~~-----i~L~~qYRmh--p~I~~f~S~l 637 (1095)
||++||+||-.+....+ .++.....+.+... ..++ ++|+++||.. ..|..++..+
T Consensus 299 GD~~QL~sV~~G~VL~DL~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~Rf~~~SgI~~lA~~I 377 (615)
T PRK10875 299 GDRDQLASVEAGAVLGDICRFAEAGYSAERAQQLSRLTGCHLPAGTGTEAASVRDSLCLLRKSYRFGSDSGIGQLAAAV 377 (615)
T ss_pred cchhhcCCCCCCchHHHHHHhhhcccchhhhhHHhhhccccccccccccCCccccceeecceeecCCCCCcHHHHHHHH
Confidence 99999999965432111 11221111111110 1122 5899999985 5687776554
No 15
>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=8.2e-30 Score=308.16 Aligned_cols=194 Identities=24% Similarity=0.301 Sum_probs=120.1
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCC----CcEEEEcCcHHHHHHHHHHHHhcCCcEEEecccc
Q 001347 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ----GQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (1095)
Q Consensus 393 ~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~----~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~s 468 (1095)
+.|+.||..++.+++++|+|+||||||||++.++..|.+..+ .+|+++|||++||.+|.+.+.....+ +...
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~---l~~~- 223 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKN---LAAA- 223 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcc---cccc-
Confidence 789999999999999999999999999999999988876532 47999999999999999988653211 1000
Q ss_pred ccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCcccc
Q 001347 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (1095)
Q Consensus 469 re~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L~ 548 (1095)
. .....+ .....++|++......... +. ...-.
T Consensus 224 ~-------------~~~~~~-~~~a~TiHrlLg~~~~~~~--------~~-------------------------~~~~~ 256 (586)
T TIGR01447 224 E-------------ALIAAL-PSEAVTIHRLLGIKPDTKR--------FR-------------------------HHERN 256 (586)
T ss_pred h-------------hhhhcc-ccccchhhhhhcccCCcch--------hh-------------------------hcccC
Confidence 0 000000 0112344444332211000 00 00011
Q ss_pred CCCCCEEEEECCCCCCchhh--hhhccccCceEEEecCcCCCCceeecHHHHhh------cchHHHHHHHH-----H---
Q 001347 549 NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARA------GLAQSLFERLV-----L--- 612 (1095)
Q Consensus 549 ~~~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~------gl~~SLFERL~-----~--- 612 (1095)
...+|+||||||||++...+ |+..+....|+|||||++|||||-.+...... ++.......+. .
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 23689999999999998542 33333456899999999999999654221110 00000000000 0
Q ss_pred -cCCc--cEeeeeeccCCC--CCCCccccc
Q 001347 613 -LGLK--PIRLQVQYRMHP--SLSEFPSNS 637 (1095)
Q Consensus 613 -~g~~--~i~L~~qYRmhp--~I~~f~S~l 637 (1095)
.... .++|+++||... .|..++..+
T Consensus 337 ~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I 366 (586)
T TIGR01447 337 RNPLSDNVCFLKTSHRFGKDSGIGQLAKAI 366 (586)
T ss_pred cCCCCCcEEEeceeecCCCCccHHHHHHHH
Confidence 0022 679999999965 587776554
No 16
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.96 E-value=9.3e-29 Score=308.71 Aligned_cols=309 Identities=15% Similarity=0.151 Sum_probs=169.4
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcC---CcEE
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATG---LKVV 462 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~g---l~iV 462 (1095)
..||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||.+|.+|+.+.. ..-+
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 46999999999865 7889999999999999999999999975 34689999999999999999997541 1111
Q ss_pred Eeccccc-------c-----ccCCcchhhh-------HHHHHhhccch----hHHHH-HHHHHhhhhhccCCchH-----
Q 001347 463 RLCAKSR-------E-----AVSSPVEHLT-------LHYQVRHLDTS----EKSEL-HKLQQLKDEQGELSSSD----- 513 (1095)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~l~-------l~~~i~~l~~~----~~~~L-~kl~~lk~e~~els~~~----- 513 (1095)
.++.... + ........+. +...++..... ....+ ..+..++... +...+
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 1211110 0 0000000000 00000000000 00000 0011111110 00000
Q ss_pred ----HHHHHHHHHHH-----HHHHHhccccccccccccC-Cccc---cCCCCCEEEEECCCCCCchhhh-h-hccccCce
Q 001347 514 ----EKKYKALKRAT-----EREISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPECL-I-PLVLGAKQ 578 (1095)
Q Consensus 514 ----~k~y~~l~~~~-----e~~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQ~tE~e~L-I-pL~~~~kr 578 (1095)
.+.+..+.... +...++..|++..+..... ...+ ...+|++|+|||+||++..+.. + .|....++
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 00011111111 1123334444443332211 1112 1237999999999999997753 2 33334578
Q ss_pred EEEecCcCCCCceeecHHHHhhcchHHHHHHHHHc--CCccEeeeeeccCCCCCCCccccccccCcccccccccccccCC
Q 001347 579 VVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSG 656 (1095)
Q Consensus 579 lILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~ 656 (1095)
+++|||++|...-+.+. ....|.++... +...+.|++|||+++.|++++|.++-.+.-... ..
T Consensus 239 l~vVGD~~QsIY~fRgA-------~~~~~~~f~~~~~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~--------~~ 303 (726)
T TIGR01073 239 LCVVGDADQSIYGWRGA-------DIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKP--------KN 303 (726)
T ss_pred EEEEeCCCccccccCCC-------ChHHHHHHHHhCCCCeEEECccCCCCCHHHHHHHHHHHHhcccccc--------cc
Confidence 99999999954443321 22233333221 345689999999999999999998754321100 00
Q ss_pred CCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcC-CCCCcEEEEccchhHHHHHHHHH
Q 001347 657 IDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYM 729 (1095)
Q Consensus 657 ~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~g-v~~~dIGIITPY~aQv~~L~~~L 729 (1095)
+....+ ...++.++... ....|+..|.+.|..|+..+ ++++||+||++.+.|...|+..|
T Consensus 304 l~~~~~-~g~~v~~~~~~------------~~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~~l~~~L 364 (726)
T TIGR01073 304 LWTENS-SGDKITYYEAD------------TERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETL 364 (726)
T ss_pred cccCCC-CCcceEEEeCC------------CHHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHHHHHHHH
Confidence 000000 11222222211 12468999999999998876 68999999987766654444433
No 17
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.96 E-value=2.1e-28 Score=302.04 Aligned_cols=241 Identities=17% Similarity=0.181 Sum_probs=133.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-CC---cEE
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GL---KVV 462 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~-gl---~iV 462 (1095)
.||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||++|.+||... +. .-+
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 21 111
Q ss_pred Eeccccc-------c-----ccCCcchhhh-------HHHHHhhccchhHHHHHHH----HHhhhhhccCCchH------
Q 001347 463 RLCAKSR-------E-----AVSSPVEHLT-------LHYQVRHLDTSEKSELHKL----QQLKDEQGELSSSD------ 513 (1095)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~l~-------l~~~i~~l~~~~~~~L~kl----~~lk~e~~els~~~------ 513 (1095)
.++.... . .+......+. +...+..+.......+..+ ...+.. .+...+
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 2211100 0 0000000000 0000000000000001111 001110 000000
Q ss_pred ---HHHHHHHHHHHH-----HHHHhcccccccccccc-CCccc---cCCCCCEEEEECCCCCCchhhhh-h-ccccCceE
Q 001347 514 ---EKKYKALKRATE-----REISQSADVICCTCVGA-GDPRL---ANFRFRQVLIDESTQATEPECLI-P-LVLGAKQV 579 (1095)
Q Consensus 514 ---~k~y~~l~~~~e-----~~iL~~a~VI~~T~~~a-~~~~L---~~~~Fd~VIIDEAsQ~tE~e~LI-p-L~~~~krl 579 (1095)
...+..+....+ ...++..|++..+.... ..+.+ ...+|++|+|||+||++..+..+ . |.....++
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 001111111111 12333344443332111 11111 12379999999999999977433 2 22235789
Q ss_pred EEecCcCCCCceeecHHHHhhcchHHHHHHHHHc--CCccEeeeeeccCCCCCCCccccccccC
Q 001347 580 VLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEG 641 (1095)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g 641 (1095)
++|||++|....+.+ -....|.++... +...+.|++|||+++.|.+++|.++-.+
T Consensus 238 ~~VGD~~QsIY~frG-------A~~~~~~~f~~~~~~~~~~~L~~NyRs~~~I~~~an~li~~n 294 (672)
T PRK10919 238 TVVGDDDQSIYSWRG-------ARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANN 294 (672)
T ss_pred EEEcCCcccccccCC-------CChHHHHHHHHhCCCCcEEECCCCCCCcHHHHHHHHHHHhhC
Confidence 999999995554432 233444443332 3456899999999999999999987543
No 18
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.96 E-value=1.9e-28 Score=300.93 Aligned_cols=368 Identities=18% Similarity=0.211 Sum_probs=200.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhc-CCcEEEe
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISAT-GLKVVRL 464 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~---~~rILV~ApSN~AVD~L~eRL~~~-gl~iVRl 464 (1095)
..||++|++||... .+..+|.|+||||||+|+++++.+|+... +.+||++|||++||++|.+||... +..-+.+
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 56679999999999999999999998753 458999999999999999999752 2111111
Q ss_pred cc---ccc----------cccC-----Ccch-hhhHHHHHhhccc----------------------hh-----------
Q 001347 465 CA---KSR----------EAVS-----SPVE-HLTLHYQVRHLDT----------------------SE----------- 492 (1095)
Q Consensus 465 g~---~sr----------e~i~-----~~~~-~l~l~~~i~~l~~----------------------~~----------- 492 (1095)
+. -.. ..+. .... .+........... ..
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 11 000 0000 0000 0000000000000 00
Q ss_pred HHHHHHHHHhhhhhcc--------CCch----HHHHHH---HHHHHHHH-----HHHhccccccccccccCCccccCCCC
Q 001347 493 KSELHKLQQLKDEQGE--------LSSS----DEKKYK---ALKRATER-----EISQSADVICCTCVGAGDPRLANFRF 552 (1095)
Q Consensus 493 ~~~L~kl~~lk~e~~e--------ls~~----~~k~y~---~l~~~~e~-----~iL~~a~VI~~T~~~a~~~~L~~~~F 552 (1095)
...+.++..+....+. .... ..++++ .+.+..+. ..++..|+|...+....... ...+|
T Consensus 353 ~~~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~l~~iy~~Ye~~L~~~~~iDf~Dml~~A~~lL~~~~-~~~~~ 431 (684)
T PRK11054 353 ASRLERWVSLMRMHGGSQAEMIAQAPEEVRDLFQKRLKLMAPLLKAWKKALKAENAVDFSGLIHQAVNYLEKGR-FISPW 431 (684)
T ss_pred HHHHHHHHHHHHhcCCCHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhhh-hhhcc
Confidence 0001111000000000 0000 000011 11111111 11222233221111110001 11259
Q ss_pred CEEEEECCCCCCchhhhh--hccc--cCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHc--CCccEeeeeeccC
Q 001347 553 RQVLIDESTQATEPECLI--PLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRM 626 (1095)
Q Consensus 553 d~VIIDEAsQ~tE~e~LI--pL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRm 626 (1095)
++|+|||+|+++..+.-+ .+.. ...++++|||+.|....+.+ -...++..+... ....+.|+++||+
T Consensus 432 ~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY~frG-------a~~~~~~~f~~~f~~~~~~~L~~nYRs 504 (684)
T PRK11054 432 KHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAIYRFSG-------ADLSLTTAFHERFGEGDRCHLDTTYRF 504 (684)
T ss_pred cEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCccccccCC-------CChHHHHHHHhhcCCCeEEEeCCCCCC
Confidence 999999999999876422 2322 24689999999996554332 223344333321 2345789999999
Q ss_pred CCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcC
Q 001347 627 HPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG 706 (1095)
Q Consensus 627 hp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~g 706 (1095)
+++|.++++.++-.+.-+ . ... +. .......|.+..... .+.+.++..+..+..
T Consensus 505 ~~~I~~~An~~i~~n~~~----~-~k~---l~-s~~~g~~p~v~~~~~---------------~~~~~il~~l~~~~~-- 558 (684)
T PRK11054 505 NSRIGEVANRFIQQNPHQ----L-KKP---LN-SLTKGDKKAVTLLPE---------------DQLEALLDKLSGYAK-- 558 (684)
T ss_pred CHHHHHHHHHHHHhCccc----c-CCc---cc-ccCCCCCceEEEeCC---------------HHHHHHHHHHHHhhc--
Confidence 999999999876432111 0 000 00 001112333322210 234444454444433
Q ss_pred CCCCcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCccccEEEEEccccCCc-----------------
Q 001347 707 VVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEH----------------- 769 (1095)
Q Consensus 707 v~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~----------------- 769 (1095)
+.++|+||++|+.+...+.+.+... + ....|.+.|+|++||+|+|+|||..+.....
T Consensus 559 -~~~~I~IL~R~~~~~~~~l~~~~~~--~---~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~~~~ 632 (684)
T PRK11054 559 -PDERILLLARYHHLRPALLDKAATR--W---PKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEALLP 632 (684)
T ss_pred -CCCcEEEEEechhhHHHHHHHHHhh--c---ccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhcccc
Confidence 3579999999998875544443321 1 1237999999999999999999987754320
Q ss_pred --CCCCCCCCCCceeeechhhccceEEEecc
Q 001347 770 --QGIGFLNDPRRLNVALTRARYGIVILGNP 798 (1095)
Q Consensus 770 --~~iGFL~d~RRLNVALTRAK~~LiIVGn~ 798 (1095)
...-..+++|+|||||||||+.|+|+.+.
T Consensus 633 ~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~ 663 (684)
T PRK11054 633 PPEDFPDAEERRLLYVALTRAKHRVWLLFNK 663 (684)
T ss_pred cccccccHHHHHHHHHHhhhhhcEEEEEEcC
Confidence 00012246899999999999999999763
No 19
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.95 E-value=6.1e-28 Score=288.30 Aligned_cols=417 Identities=30% Similarity=0.404 Sum_probs=290.1
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCc---EEEec
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK---VVRLC 465 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~gl~---iVRlg 465 (1095)
..|..|.+|+.+-.+.+++.+.||||||||.+++.++..+..+ +..+.|+++.||.|...+-+++.+..++ +.|++
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 4688999999999999999999999999999999999888766 5669999999999999999999875442 33443
Q ss_pred ccccccc-CC-----------cchhhhHHHHHhhccchh------------------HH-------HHHHHHH-------
Q 001347 466 AKSREAV-SS-----------PVEHLTLHYQVRHLDTSE------------------KS-------ELHKLQQ------- 501 (1095)
Q Consensus 466 ~~sre~i-~~-----------~~~~l~l~~~i~~l~~~~------------------~~-------~L~kl~~------- 501 (1095)
+...+.. +. ....+.+.+.++++..+. .. -+.++.+
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 001111222222111100 00 0111110
Q ss_pred ------------hhhhhccC-C--------chHHHHHHHHHHH---HH----------------HHHHhccccccccccc
Q 001347 502 ------------LKDEQGEL-S--------SSDEKKYKALKRA---TE----------------REISQSADVICCTCVG 541 (1095)
Q Consensus 502 ------------lk~e~~el-s--------~~~~k~y~~l~~~---~e----------------~~iL~~a~VI~~T~~~ 541 (1095)
+.+..... . ...+..|+.+... ++ ..+.+.+.+|.+||..
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 0 0001122222111 11 1234788999999998
Q ss_pred cCCcc----ccCCCCCEEEEECCCCCCchhhhhhcccc--------CceEEEecCcCCCCceeecHH-HHhhcchHHHHH
Q 001347 542 AGDPR----LANFRFRQVLIDESTQATEPECLIPLVLG--------AKQVVLVGDHCQLGPVIMCKK-AARAGLAQSLFE 608 (1095)
Q Consensus 542 a~~~~----L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~~--------~krlILVGD~~QLpPvv~s~~-a~~~gl~~SLFE 608 (1095)
++..+ -..++||-+++.|++|+.|.+..+|+.+. -+++|++|||.|+||++.... .......+|+|.
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 87554 23468999999999999999999988752 368999999999999995533 344566889999
Q ss_pred HHHHcCCccEeeeeeccCCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEc---CCceeecccCCC
Q 001347 609 RLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQ---MGQEEISASGTS 685 (1095)
Q Consensus 609 RL~~~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~---~g~ee~~~~g~S 685 (1095)
|+...+++.+.|+.|+|..+.|+++.+..+-.-..-.++....+.. ........+..|+++ .|..|...+..-
T Consensus 1058 r~vRl~ip~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f~----~aNagf~~~~qlinv~Df~g~gEt~p~p~f 1133 (1320)
T KOG1806|consen 1058 RLVRLGVPIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPRFQ----YANAGFAYEFQFINVPDFKGSGETEPSPGF 1133 (1320)
T ss_pred cceecccceecchhhhhHHHHHHHHHHhhhcccccCcCCccchhhh----ccccCceeeEEEecchhhccccccCCCccc
Confidence 9999999999999999999999999877643222222222211110 000011234455544 355555556667
Q ss_pred ccCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCccccEEEEEccc
Q 001347 686 YLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVR 765 (1095)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~DvVIlS~VR 765 (1095)
+.|..||+.++.+...+...|++.+.|-|+|.|++|+.+|++.+.+...-..-....-.|.|||.+||...|+||+|+|+
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 88999999999999999999999999999999999999999999876544333344578999999999999999999999
Q ss_pred cCCcCCCCCCCCCCceeeechhhccceEEEeccccccC----ChhHHHHHHH
Q 001347 766 SNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK----QPLWNGLLTH 813 (1095)
Q Consensus 766 Sn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~----~~~W~~ll~~ 813 (1095)
+.. +|.+.|.|||+||++||+.+|++.+....+.+ .+.|+.|.+.
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 68899999999999999999999998876654 5677766544
No 20
>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=1.7e-26 Score=286.29 Aligned_cols=300 Identities=22% Similarity=0.257 Sum_probs=184.6
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccc
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~ 467 (1095)
..||+.|++||+.++.+++++|+|+||||||+++..++..+...+ ..+|++||||++||+.|.+.+...
T Consensus 322 ~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~---------- 391 (720)
T TIGR01448 322 KGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLT---------- 391 (720)
T ss_pred CCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCc----------
Confidence 479999999999999999999999999999999998888776654 258999999999999887753210
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001347 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1095)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1095)
-.++|..+..... . ... . ..-
T Consensus 392 ----------a~Tih~lL~~~~~---------------~--~~~----~----------------------------~~~ 412 (720)
T TIGR01448 392 ----------ASTIHRLLGYGPD---------------T--FRH----N----------------------------HLE 412 (720)
T ss_pred ----------cccHHHHhhccCC---------------c--cch----h----------------------------hhh
Confidence 1222322211100 0 000 0 000
Q ss_pred cCCCCCEEEEECCCCCCchhh--hhhccccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcC-CccEeeeeec
Q 001347 548 ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIRLQVQY 624 (1095)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g-~~~i~L~~qY 624 (1095)
.....++||||||+|++.... |+.......++|||||+.||||+-.+ ..|..++..+ .+.++|+++|
T Consensus 413 ~~~~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~G----------~v~~dl~~~~~~~~~~L~~i~ 482 (720)
T TIGR01448 413 DPIDCDLLIVDESSMMDTWLALSLLAALPDHARLLLVGDTDQLPSVGPG----------QVLKDLILSQAIPVTRLTKVY 482 (720)
T ss_pred ccccCCEEEEeccccCCHHHHHHHHHhCCCCCEEEEECccccccCCCCC----------chHHHHHhcCCCCEEEeCeee
Confidence 012589999999999997432 33333356799999999999999432 3455555554 5678999999
Q ss_pred cCCC--CCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHH
Q 001347 625 RMHP--SLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF 702 (1095)
Q Consensus 625 Rmhp--~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~L 702 (1095)
|... .|..++..+- .|++.. .. ++. +... + .++.+ .....+.+++..+
T Consensus 483 RQ~~~s~i~~~a~~i~-~g~~~~---~~-------~~~---------~~~~---~------~~~~~-~~~~~i~~~v~~~ 532 (720)
T TIGR01448 483 RQAAGSPIITLAHGIL-HGEAPA---WG-------DFK---------FLNL---T------RSEPE-GAARHIPLMVEKI 532 (720)
T ss_pred ccCCCcHHHHHHHHHH-cCCCch---hh-------hhh---------cccc---c------cccch-hhHHHHHHHHHHH
Confidence 9864 4666665442 232210 00 000 0000 0 00111 1112233333333
Q ss_pred H----HcCCCCCcEEEEccchh---HHHHHHHHHHhccc-----------------------------------------
Q 001347 703 L----RSGVVPSQIGVITPYEG---QRAYIVNYMSRNGA----------------------------------------- 734 (1095)
Q Consensus 703 l----~~gv~~~dIGIITPY~a---Qv~~L~~~L~~~~~----------------------------------------- 734 (1095)
+ ..++...|+-||||.+. -+..|.+.|+....
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 3 23455667778877532 22333333322100
Q ss_pred ------------------------hhhhccCCeE---EeeccCCCCccccEEEEEccccCCcCCCCCCCCCCceeeechh
Q 001347 735 ------------------------LRQQLYKEIE---VASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTR 787 (1095)
Q Consensus 735 ------------------------l~~~~~~~V~---V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTR 787 (1095)
+.......++ ..|||++||+|+|.||+.+..+. ..+.+++++||||||
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 34999999999999999876654 236789999999999
Q ss_pred hccceEEEecccccc
Q 001347 788 ARYGIVILGNPKVLS 802 (1095)
Q Consensus 788 AK~~LiIVGn~~~Ls 802 (1095)
||+.|+|||+.+.|.
T Consensus 688 Ak~~l~lvg~~~a~~ 702 (720)
T TIGR01448 688 AKKRVILVGSAEAFD 702 (720)
T ss_pred eceEEEEEECHHHHH
Confidence 999999999987653
No 21
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.94 E-value=2.4e-26 Score=284.73 Aligned_cols=242 Identities=19% Similarity=0.154 Sum_probs=130.6
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-CC---cEE
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GL---KVV 462 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~-gl---~iV 462 (1095)
.||+.|++||... .+..+|.|+||||||+|++.+|.+|++. .+.+||++||||+|+.+|.+||.+. +. .-+
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 Eecccccc------------ccCCcchhh-------hHHHHHhhccchhHHHHHHHHHhhhhh--ccCCchH--------
Q 001347 463 RLCAKSRE------------AVSSPVEHL-------TLHYQVRHLDTSEKSELHKLQQLKDEQ--GELSSSD-------- 513 (1095)
Q Consensus 463 Rlg~~sre------------~i~~~~~~l-------~l~~~i~~l~~~~~~~L~kl~~lk~e~--~els~~~-------- 513 (1095)
.++...+- .+......+ -+...+..........+.++..+..+. ..++..+
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 22211110 000000000 000000000000000011111100000 0011000
Q ss_pred -H----HHHHHHHHHHHH-HHHhccccccccccccC-Ccccc---CCCCCEEEEECCCCCCchhh--hhhccccCceEEE
Q 001347 514 -E----KKYKALKRATER-EISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVL 581 (1095)
Q Consensus 514 -~----k~y~~l~~~~e~-~iL~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlIL 581 (1095)
. ..|..+...... ..++..|++........ ...+. ..+|++|+|||+|+++..+. +-.|.....++++
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 13333344333222111 11221 23799999999999999764 3333333568999
Q ss_pred ecCcCCCCceeecHHHHhhcchHHHHHHHHHc--CCccEeeeeeccCCCCCCCcccccccc
Q 001347 582 VGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYE 640 (1095)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~ 640 (1095)
|||++|...-+.+. ....|.++... +...+.|.+|||+++.|+++++.+|-.
T Consensus 239 vGD~~QsIY~frga-------~~~~~~~~~~~~~~~~~~~L~~NyRs~~~Il~~~n~l~~~ 292 (664)
T TIGR01074 239 VGDDDQSIYSWRGA-------RPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIAN 292 (664)
T ss_pred EcCCcccccCCCCC-------CHHHHHHHHHhCCCCeEEECCCCCCChHHHHHHHHHHHhc
Confidence 99999954433221 22233333321 345678999999999999999987643
No 22
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.91 E-value=5.2e-24 Score=263.58 Aligned_cols=312 Identities=20% Similarity=0.175 Sum_probs=178.1
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhcCCc-E---E
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLK-V---V 462 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~---~~rILV~ApSN~AVD~L~eRL~~~gl~-i---V 462 (1095)
.||+.|++||... .+..+|.++||||||+|++++|.+|+... +.+||++||||+||.+|.+|+.+.... . +
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 88999999999999999999999999873 458999999999999999999875321 0 1
Q ss_pred Eeccccc----------ccc--CCcc------hhhhHHHHH-h---hccchh--HHHHH-HHHHhhhhhc---cCC----
Q 001347 463 RLCAKSR----------EAV--SSPV------EHLTLHYQV-R---HLDTSE--KSELH-KLQQLKDEQG---ELS---- 510 (1095)
Q Consensus 463 Rlg~~sr----------e~i--~~~~------~~l~l~~~i-~---~l~~~~--~~~L~-kl~~lk~e~~---els---- 510 (1095)
.++.... ..+ .... ....+...+ . .++... ...+. .+...+.... ...
T Consensus 80 ~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (655)
T COG0210 80 TVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASALLL 159 (655)
T ss_pred EEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhhhhh
Confidence 1111000 000 0000 000000000 0 000000 00000 0000110000 000
Q ss_pred ----chHHH----HHHHHHHHHH-HHHHhccccccccccccCC-cc-cc--CCCCCEEEEECCCCCCchhhhh--hcccc
Q 001347 511 ----SSDEK----KYKALKRATE-REISQSADVICCTCVGAGD-PR-LA--NFRFRQVLIDESTQATEPECLI--PLVLG 575 (1095)
Q Consensus 511 ----~~~~k----~y~~l~~~~e-~~iL~~a~VI~~T~~~a~~-~~-L~--~~~Fd~VIIDEAsQ~tE~e~LI--pL~~~ 575 (1095)
....+ .|....+... ...++..+.+.-++..... .. +. ..+|++|+|||+||++..+..+ .+...
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 00011 1111111111 1133333444444332221 11 11 3489999999999999876433 33333
Q ss_pred CceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcC--CccEeeeeeccCCCCCCCccccccccCcccccccccccc
Q 001347 576 AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ 653 (1095)
Q Consensus 576 ~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g--~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~ 653 (1095)
...+++|||++|....+++. ....+..+.... .+.+.|..|||+.+.|+.++|.++-.++-. .
T Consensus 240 ~~~l~~VGD~dQsIY~frGA-------~~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r--------~ 304 (655)
T COG0210 240 AANLFVVGDDDQSIYGFRGA-------DPENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKR--------Q 304 (655)
T ss_pred CCCEEEEcCCccccceeCCC-------ChHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCcc--------C
Confidence 46899999999965554432 233333333222 467899999999999999999987522111 1
Q ss_pred cCCCCCCC-CCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcC-CCCCcEEEEccchhHHHHHHHHHHh
Q 001347 654 SSGIDFPW-PVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYMSR 731 (1095)
Q Consensus 654 ~~~~~~~~-p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~g-v~~~dIGIITPY~aQv~~L~~~L~~ 731 (1095)
.+.+. .+ ...+..+. .........||..|...+..+...+ ...+||+|+...+.|...++..+.+
T Consensus 305 ~k~l~-~~~~~~~~~~~------------~~~~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s~~~e~~l~~ 371 (655)
T COG0210 305 AKTLR-TEVEGSGEKVV------------LLLANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQSRLIEEALRA 371 (655)
T ss_pred CCcce-eccCCCCCCce------------EEeCCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcchHHHHHHHHH
Confidence 10000 00 00111111 1123345789999999999999988 8999999999998888888877754
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=1e-22 Score=253.59 Aligned_cols=298 Identities=19% Similarity=0.159 Sum_probs=178.2
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccc
Q 001347 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~ 467 (1095)
..||+.|++||..++. .++++|+|+||||||+++..++..+...+ .+|++||||++|+..|.+... +..
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-YRVIGAALSGKAAEGLQAESG---IES------ 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhCC-CeEEEEeCcHHHHHHHHhccC---Cce------
Confidence 3699999999999987 58999999999999999998877666555 489999999999999986421 111
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001347 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1095)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1095)
.+++..+..+.. ...
T Consensus 421 -----------~Ti~~~~~~~~~------------------------------------------------------~~~ 435 (744)
T TIGR02768 421 -----------RTLASLEYAWAN------------------------------------------------------GRD 435 (744)
T ss_pred -----------eeHHHHHhhhcc------------------------------------------------------Ccc
Confidence 111111000000 000
Q ss_pred cCCCCCEEEEECCCCCCchhh--hhhcc-ccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeeec
Q 001347 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1095)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qY 624 (1095)
.....++||||||+|+....+ |+... ....+||||||++|||||-.+ ..|..|.. ....+.|+..|
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 012689999999999987442 33322 245789999999999999643 24544443 35678999999
Q ss_pred cCCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHH-HHHHHHHHHHHH
Q 001347 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTE-AANVEKIVTTFL 703 (1095)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~E-A~~V~~iV~~Ll 703 (1095)
|....-..-+...+..|........ +.. ...+.+. .+..+ ...++......+
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 9865432222333333332211000 000 0000000 00111 111222111111
Q ss_pred HcCCCCCcE-EEEccchhHHHHHHHHHHhc----cch-------------------------------------------
Q 001347 704 RSGVVPSQI-GVITPYEGQRAYIVNYMSRN----GAL------------------------------------------- 735 (1095)
Q Consensus 704 ~~gv~~~dI-GIITPY~aQv~~L~~~L~~~----~~l------------------------------------------- 735 (1095)
.. ..+.++ .||+|.+..+..|...++.. +.+
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 57777777666555544321 100
Q ss_pred -----------------hhhccCCe---EEeeccCCCCccccEEEEEccccCCcCCCCCCCCCCceeeechhhccceEEE
Q 001347 736 -----------------RQQLYKEI---EVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVIL 795 (1095)
Q Consensus 736 -----------------~~~~~~~V---~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIV 795 (1095)
....+..+ ...|||++||+|+|.||+.. ..+.+++++||||||||+.++|+
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 00000011 14499999999999999972 12468899999999999999999
Q ss_pred eccccccCChhHHH
Q 001347 796 GNPKVLSKQPLWNG 809 (1095)
Q Consensus 796 Gn~~~Ls~~~~W~~ 809 (1095)
|+...+....-|.+
T Consensus 708 ~~~~~~~~~~~l~~ 721 (744)
T TIGR02768 708 AGKEDFTDRGALVK 721 (744)
T ss_pred EchhhccChHHHHH
Confidence 99888765544433
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=99.89 E-value=1e-22 Score=263.02 Aligned_cols=173 Identities=17% Similarity=0.152 Sum_probs=101.0
Q ss_pred CCCCEEEEECCCCCCchhhhh--hccccCc--eEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeeecc
Q 001347 550 FRFRQVLIDESTQATEPECLI--PLVLGAK--QVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYR 625 (1095)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~LI--pL~~~~k--rlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qYR 625 (1095)
.+|++|+|||+||++..+.-| .+..... .+++|||++|...-+++. ....|.++...-...+.|.+|||
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQSIY~FRGA-------D~~~~~~~~~~~~~~~~L~~NyR 367 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQAIYSFRGA-------DIFTYLQAKSKADARYTLGTNWR 367 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCccccccCCCC-------CHHHHHHHHHhcCcEEECCCCCC
Confidence 389999999999999977433 3322222 799999999965554432 22334333332225689999999
Q ss_pred CCCCCCCccccccccCcccc--cc---cccc-cccCCCCCCCC-CCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHH
Q 001347 626 MHPSLSEFPSNSFYEGTLQN--GV---TINE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKI 698 (1095)
Q Consensus 626 mhp~I~~f~S~lFY~g~L~~--~~---~~~~-r~~~~~~~~~p-~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~i 698 (1095)
+++.|++++|.+|-...-.. .. .+.. +.......... ....++.++....... ...-....+|+.+...
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~~a~~~a~~ 443 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE----GVDDYRQTIAQKCARE 443 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc----ccchHHHHHHHHHHHH
Confidence 99999999999985422110 00 0000 00000000000 1123444443322111 0011123455666666
Q ss_pred HHHHHHc---------------CCCCCcEEEEccchhHHHHHHHHHHhcc
Q 001347 699 VTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1095)
Q Consensus 699 V~~Ll~~---------------gv~~~dIGIITPY~aQv~~L~~~L~~~~ 733 (1095)
|.+++.. +++++||+||++.+.|...|++.|.+.+
T Consensus 444 I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~~G 493 (1087)
T TIGR00609 444 IALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKKAQ 493 (1087)
T ss_pred HHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHHCC
Confidence 6666532 4678999999999999999988887654
No 25
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=99.89 E-value=2.7e-22 Score=261.92 Aligned_cols=65 Identities=22% Similarity=0.285 Sum_probs=55.7
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~--~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+++++|++||..- ....||.|+||||||+|+++++..++..+ ..+|||+||||+||.+|++||.+
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 66789999999999999999988777653 24799999999999999999865
No 26
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.88 E-value=1.4e-22 Score=262.45 Aligned_cols=173 Identities=19% Similarity=0.234 Sum_probs=108.5
Q ss_pred CCCCEEEEECCCCCCchhh--hhhcccc----CceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHH--cCCccEeee
Q 001347 550 FRFRQVLIDESTQATEPEC--LIPLVLG----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL--LGLKPIRLQ 621 (1095)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~--LIpL~~~----~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~--~g~~~i~L~ 621 (1095)
.+|++|+|||+||++..+. +-.+... ...++||||+||..+-++ |-+..+|..... .....+.|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQSIY~FR-------gAD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQSIYRFR-------GADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchHHhhhhc-------CCChHHHHHHhhccccCceeecc
Confidence 3799999999999998774 3333333 248999999999555543 234566666666 455678999
Q ss_pred eeccCCCCCCCccccccccC------cccccccccc--c-ccCCCCCCCCCCCCCeE-EEEcCC--ceeecccCCCccCH
Q 001347 622 VQYRMHPSLSEFPSNSFYEG------TLQNGVTINE--R-QSSGIDFPWPVPNRPMF-FYVQMG--QEEISASGTSYLNR 689 (1095)
Q Consensus 622 ~qYRmhp~I~~f~S~lFY~g------~L~~~~~~~~--r-~~~~~~~~~p~~~~Pv~-f~~~~g--~ee~~~~g~S~~N~ 689 (1095)
+|||+++.|+++.|.+|-.- .......... + ........|+ .|.. ++.... ..+...........
T Consensus 450 ~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~e~~~~~~~~~~~~~~~~~ 526 (1139)
T COG1074 450 TNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGEP---LPALKFWEEEDDWTAPENEEDEREIAD 526 (1139)
T ss_pred cccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCccc---chhhhhhcCcccccCCCCchhHHHHHH
Confidence 99999999999999999632 1111100000 0 0111111111 1221 111110 00000001134456
Q ss_pred HHHHHHHHHHHHHHH--------cCCCCCcEEEEccchhHHHHHHHHHHhc
Q 001347 690 TEAANVEKIVTTFLR--------SGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1095)
Q Consensus 690 ~EA~~V~~iV~~Ll~--------~gv~~~dIGIITPY~aQv~~L~~~L~~~ 732 (1095)
.+|..|...++.+.. +.+.++||+||++-+.+...|+++|++.
T Consensus 527 ~~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~~ 577 (1139)
T COG1074 527 LEARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKKA 577 (1139)
T ss_pred HHHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHhc
Confidence 677788888888774 4588999999999999999999999876
No 27
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.87 E-value=1.4e-21 Score=246.05 Aligned_cols=169 Identities=20% Similarity=0.177 Sum_probs=112.0
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccc
Q 001347 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~ 467 (1095)
..||+.|++||..++. .++++|+|+|||||||++..++..+...+ .+|++||||++||.+|.+.. ++.
T Consensus 345 ~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e~~G-~~V~~~ApTGkAA~~L~e~t---Gi~------- 413 (988)
T PRK13889 345 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAAG-YEVRGAALSGIAAENLEGGS---GIA------- 413 (988)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEecCcHHHHHHHhhcc---Ccc-------
Confidence 3699999999999987 57999999999999999876665544444 48999999999999887521 110
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001347 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1095)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1095)
-.+++..+..+.. + ..
T Consensus 414 ----------a~TI~sll~~~~~----------------------------------------------------~--~~ 429 (988)
T PRK13889 414 ----------SRTIASLEHGWGQ----------------------------------------------------G--RD 429 (988)
T ss_pred ----------hhhHHHHHhhhcc----------------------------------------------------c--cc
Confidence 0122211100000 0 00
Q ss_pred cCCCCCEEEEECCCCCCchhh--hhhcc-ccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeeec
Q 001347 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1095)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qY 624 (1095)
.-...++||||||+|+....+ |+... ....+||||||++||+||-.+ ..|..|.. ....+.|++.+
T Consensus 430 ~l~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~aG----------~~f~~L~~-~~~~a~LteI~ 498 (988)
T PRK13889 430 LLTSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAG----------AAFRSIHE-RHGGAEIGEVR 498 (988)
T ss_pred ccccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCCC----------chHHHHHH-hcCeEEeceee
Confidence 012578999999999997543 32222 345799999999999999432 34544443 24568999999
Q ss_pred cCCCCCCCccccccccCcc
Q 001347 625 RMHPSLSEFPSNSFYEGTL 643 (1095)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L 643 (1095)
|.......-+...+..|+.
T Consensus 499 RQ~~~~~r~aa~~i~~G~~ 517 (988)
T PRK13889 499 RQREDWQRDATRDLATGRT 517 (988)
T ss_pred cCCCHHHHHHHHHHHcCCc
Confidence 9976544334444444443
No 28
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.87 E-value=2.7e-21 Score=244.25 Aligned_cols=308 Identities=20% Similarity=0.236 Sum_probs=187.1
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccc
Q 001347 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~ 467 (1095)
..||+.|++||..++. +++++|+|+|||||||++..++..+...+ .+|+.+|||++||..|.+.. +++.
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 78999999999999999998887665555 49999999999999987642 2211
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001347 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1095)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1095)
.+++..+..+.. +...+
T Consensus 450 -----------~TIas~ll~~~~----------------------------------------------------~~~~l 466 (1102)
T PRK13826 450 -----------RTLSSWELRWNQ----------------------------------------------------GRDQL 466 (1102)
T ss_pred -----------eeHHHHHhhhcc----------------------------------------------------CccCC
Confidence 112211100000 00001
Q ss_pred cCCCCCEEEEECCCCCCchhh--hhhcc-ccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeeec
Q 001347 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1095)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~--LIpL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qY 624 (1095)
..-++||||||+|+...++ |+... ....+||||||+.||+||-.+ ..|..|.. ....+.|++.|
T Consensus 467 --~~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG----------~~f~~l~~-~i~~a~LteI~ 533 (1102)
T PRK13826 467 --DNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAG----------AAFRAIAD-RIGYAELETIY 533 (1102)
T ss_pred --CCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCC----------cHHHHHHh-hcCEEEeeeee
Confidence 1357999999999987553 33333 245799999999999999543 34555553 45678999999
Q ss_pred cCCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHH
Q 001347 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (1095)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~ 704 (1095)
|....-..-++..+..|........... ...+.+. ....+.+..++.....
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 9876532233344444443211100000 0000000 0011223334433333
Q ss_pred cCCCCCcEEEEccchhHHHHHHHHHHhc----cch---------------------------------------------
Q 001347 705 SGVVPSQIGVITPYEGQRAYIVNYMSRN----GAL--------------------------------------------- 735 (1095)
Q Consensus 705 ~gv~~~dIGIITPY~aQv~~L~~~L~~~----~~l--------------------------------------------- 735 (1095)
..-+..++-||+|.+.-+..|...++.. +.+
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 001347 736 ------------------RQQLYKEIE---VASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVI 794 (1095)
Q Consensus 736 ------------------~~~~~~~V~---V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiI 794 (1095)
....+..+. ..|||++||.|+|.|++... .+.+++.+||||||||+.+.|
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 23999999999999998632 246788999999999999999
Q ss_pred Eeccc----------cccC------------ChhHHHHHHHHHhcCce
Q 001347 795 LGNPK----------VLSK------------QPLWNGLLTHYKEHECL 820 (1095)
Q Consensus 795 VGn~~----------~Ls~------------~~~W~~ll~~~k~~~~l 820 (1095)
+.+.. .|++ ...|+..++|.+.+|.-
T Consensus 736 y~~~~~~~~~~~L~~~lsr~~~K~ttld~~~~~~~~~~~~~a~~rg~~ 783 (1102)
T PRK13826 736 YYGRRSFAFNGGLIPVLSRRNAKETTLDYERGKLYRQALRFAENRGLH 783 (1102)
T ss_pred EEchhhhhhhHHHHHHHhcccccchhhhhhhhhhhhHHHHHHHHcCCh
Confidence 99875 3332 23566677888888763
No 29
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.86 E-value=3.1e-21 Score=245.89 Aligned_cols=156 Identities=18% Similarity=0.209 Sum_probs=102.9
Q ss_pred CCCCEEEEECCCCCCchhh--hhhccc----c-----CceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHc-CCcc
Q 001347 550 FRFRQVLIDESTQATEPEC--LIPLVL----G-----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKP 617 (1095)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~--LIpL~~----~-----~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~-g~~~ 617 (1095)
.+|++|+|||+||++..+. +.+|.. + .+.+++|||++|...-++ |-...+|.++... +...
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQSIY~FR-------GA~~~~f~~~~~~~~~~~ 399 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQSIYRFR-------GGKKELFDKVSKDFKQKV 399 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhhhhhhc-------CCChHHHHHHHHHhhhhh
Confidence 4799999999999999764 344421 1 357999999999443332 2234566665432 1245
Q ss_pred EeeeeeccCCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHH
Q 001347 618 IRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEK 697 (1095)
Q Consensus 618 i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~ 697 (1095)
+.|.+||||++.|+++.|.+|-... ... ... . . ........+.++... .....+++.|.+
T Consensus 400 ~~L~~NyRS~~~Iv~~~N~~f~~~~-~~~-~~~---~---~-~~~~~~g~v~i~~~~-----------~~~~~~a~~ia~ 459 (910)
T PRK13909 400 DNLDTNYRSAPLIVDFVNEVFKKKY-KNY-KTQ---Y---A-EQHKSGGYVEVVEVA-----------DESEELLEQLLQ 459 (910)
T ss_pred cccccCCCCChHHHHHHHHHHHHHH-Hhh-hhh---h---c-ccccCCCcEEEEECC-----------CccHHHHHHHHH
Confidence 7899999999999999999985421 000 000 0 0 000011122222110 012346788999
Q ss_pred HHHHHHHcCCCCCcEEEEccchhHHHHHHHHHHhc
Q 001347 698 IVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1095)
Q Consensus 698 iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L~~~ 732 (1095)
.|..+++.|+.++||+||++.+.+...|.+.|.+.
T Consensus 460 ~I~~l~~~g~~~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 460 EIQFLLEKGIDPDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHHHcCCCcCCEEEEEecCccHHHHHHHHHhc
Confidence 99999999999999999999999998888888776
No 30
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.85 E-value=1.1e-20 Score=244.87 Aligned_cols=173 Identities=15% Similarity=0.170 Sum_probs=101.8
Q ss_pred CCCCEEEEECCCCCCchhhh--hhccc--cCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeeecc
Q 001347 550 FRFRQVLIDESTQATEPECL--IPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYR 625 (1095)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~L--IpL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qYR 625 (1095)
.+|++|+|||+||++..+.- ..|.. ....+++|||++|...-+++.. ...|-.........+.|.+|||
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQsIY~FRGAd-------~~~~l~~~~~~~~~~~L~~NyR 448 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQAIYAFRGAD-------IFTYMKARSEVSAHYTLDTNWR 448 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCccccccCCCCC-------chHHHHHHhccCCeeECCCCcC
Confidence 38999999999999997743 33322 1357999999999655544321 1112112112234579999999
Q ss_pred CCCCCCCccccccccCccc---cccc---ccc-cccCCCCCCCC-CCCCCeEEEEcCCceeecccCCCccCHHHHHHHHH
Q 001347 626 MHPSLSEFPSNSFYEGTLQ---NGVT---INE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEK 697 (1095)
Q Consensus 626 mhp~I~~f~S~lFY~g~L~---~~~~---~~~-r~~~~~~~~~p-~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~ 697 (1095)
+++.|++++|.+|....-. .... +.. .......+... ....++.++...+... ........||+.|..
T Consensus 449 S~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~eA~~iA~ 524 (1181)
T PRK10876 449 SAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLMEGEGV----GVGDYQQTMAQQCAA 524 (1181)
T ss_pred cCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeecCCCcc----CcchHHHHHHHHHHH
Confidence 9999999999998653210 0000 000 00000000000 0112333443322111 111233567888888
Q ss_pred HHHHHHHc---------------CCCCCcEEEEccchhHHHHHHHHHHhcc
Q 001347 698 IVTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1095)
Q Consensus 698 iV~~Ll~~---------------gv~~~dIGIITPY~aQv~~L~~~L~~~~ 733 (1095)
.|.+++.. ++.++||+||++.+.|...|++.|.+.+
T Consensus 525 ~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~~g 575 (1181)
T PRK10876 525 QIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTLLA 575 (1181)
T ss_pred HHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHhCC
Confidence 88888753 3678999999999999998888876643
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=99.83 E-value=2.1e-19 Score=234.61 Aligned_cols=172 Identities=14% Similarity=0.175 Sum_probs=98.5
Q ss_pred CCCCEEEEECCCCCCchhh--hhhcccc-----------CceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHH----
Q 001347 550 FRFRQVLIDESTQATEPEC--LIPLVLG-----------AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL---- 612 (1095)
Q Consensus 550 ~~Fd~VIIDEAsQ~tE~e~--LIpL~~~-----------~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~---- 612 (1095)
.+|++|+|||+||++..+. +.+|... .+.+++|||++|..+-+++. ...+|.++..
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQSIY~FRGA-------d~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQSIYSFQGA-------DPDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcccCccccCC-------CHHHHHHHHHHHHH
Confidence 4899999999999999764 3344321 36899999999966655432 2334433221
Q ss_pred ----c--CCccEeeeeeccCCCCCCCccccccccCccccccccc--ccccCCCCCCCCCCCCCeEEEEcCCce---eec-
Q 001347 613 ----L--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTIN--ERQSSGIDFPWPVPNRPMFFYVQMGQE---EIS- 680 (1095)
Q Consensus 613 ----~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~--~r~~~~~~~~~p~~~~Pv~f~~~~g~e---e~~- 680 (1095)
. ....+.|++|||+++.|+++.|.+|-......+.... ........ ......+.++.....+ +..
T Consensus 463 ~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~~~~~~~~~~~~---~~~~g~v~l~~~~~~~~~~~~~~ 539 (1141)
T TIGR02784 463 KVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDLVVHEAIR---SDLPGEVELWDLISPEEGEDPED 539 (1141)
T ss_pred hhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCCcchhhcccccc---cCCCCceEEEeccCccccccccc
Confidence 1 1245789999999999999999999653211110000 00000000 0001122222111100 000
Q ss_pred ------ccCCCccCHHHHHHHHHHHHHHHHcC----------CCCCcEEEEccchhH-HHHHHHHHHh
Q 001347 681 ------ASGTSYLNRTEAANVEKIVTTFLRSG----------VVPSQIGVITPYEGQ-RAYIVNYMSR 731 (1095)
Q Consensus 681 ------~~g~S~~N~~EA~~V~~iV~~Ll~~g----------v~~~dIGIITPY~aQ-v~~L~~~L~~ 731 (1095)
..........||+.|.+.|+.++..| +.++||+||++.+.+ ...|.+.|.+
T Consensus 540 ~~~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~~~~~i~~aL~~ 607 (1141)
T TIGR02784 540 WTAPVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDAFVSALIRALKR 607 (1141)
T ss_pred cccccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCchhHHHHHHHHHH
Confidence 00001112258899999999998776 578999999988876 4555555443
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=188.84 Aligned_cols=173 Identities=27% Similarity=0.338 Sum_probs=109.8
Q ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccc
Q 001347 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~ 467 (1095)
.||++|++||..++.+ ++++|+||||||||+++..++..+...+ .+|+++||||+|+++|.+++. ++.
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 5899999999999999999887777765 599999999999999999753 211
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCccc
Q 001347 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1095)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1095)
.+++..+...... . . ....
T Consensus 71 -----------~Ti~~~l~~~~~~---------------~-~----------------------------------~~~~ 89 (196)
T PF13604_consen 71 -----------QTIHSFLYRIPNG---------------D-D----------------------------------EGRP 89 (196)
T ss_dssp -----------EEHHHHTTEECCE---------------E-C----------------------------------CSSC
T ss_pred -----------hhHHHHHhcCCcc---------------c-c----------------------------------cccc
Confidence 1222222111110 0 0 0000
Q ss_pred cCCCCCEEEEECCCCCCchhhh--hhccc-cCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeeec
Q 001347 548 ANFRFRQVLIDESTQATEPECL--IPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1095)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~tE~e~L--IpL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qY 624 (1095)
.....++||||||+|++...+. +.+.. ...++|+|||++||+|+.. .+.|..+.......+.|++.+
T Consensus 90 ~~~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~----------g~~~~~l~~~~~~~~~L~~i~ 159 (196)
T PF13604_consen 90 ELPKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGA----------GSPFADLQESGGITVELTEIR 159 (196)
T ss_dssp C-TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCST----------TCHHHHHCGCSTTEEEE---S
T ss_pred cCCcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcC----------CcHHHHHHhcCCCeEEeChhh
Confidence 0225789999999999976542 33322 2569999999999999953 346666666555589999999
Q ss_pred cCCCCCCCccccccccCcc
Q 001347 625 RMHPSLSEFPSNSFYEGTL 643 (1095)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L 643 (1095)
|....-..-+...+.+|..
T Consensus 160 Rq~~~~~~~~~~~~~~g~~ 178 (196)
T PF13604_consen 160 RQKDPELREAAKAIREGDA 178 (196)
T ss_dssp CCCCTHHHHHHHHHCTT--
T ss_pred cCCChHHHHHHHHHHcCCC
Confidence 9974443344555555544
No 33
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.76 E-value=9.8e-18 Score=219.96 Aligned_cols=173 Identities=20% Similarity=0.262 Sum_probs=116.9
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHHH---cCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEE
Q 001347 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAK---QGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Llk---~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVR 463 (1095)
..||+.|++||..++. .++++|+|+|||||||++..++..+.. ....+|+.||||++||.+|.+ .+++
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e----~Gi~--- 1038 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS----AGVD--- 1038 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh----cCcc---
Confidence 4699999999999997 469999999999999999888766543 233479999999999998865 2321
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccC
Q 001347 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1095)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~ 543 (1095)
-.++|..+..... . ..
T Consensus 1039 --------------A~TI~s~L~~~~~------------~-------------------------------------~~- 1054 (1747)
T PRK13709 1039 --------------AQTLASFLHDTQL------------Q-------------------------------------QR- 1054 (1747)
T ss_pred --------------hhhHHHHhccccc------------c-------------------------------------cc-
Confidence 1223322211000 0 00
Q ss_pred CccccCCCCCEEEEECCCCCCchhh--hhhccc-cCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHc-CCccEe
Q 001347 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (1095)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~tE~e~--LIpL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~-g~~~i~ 619 (1095)
.........++||||||+|+....+ |+-++. ...++|||||.+||+||-. ...|..|+.. +.+...
T Consensus 1055 ~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~a----------G~~f~~l~~~~~i~~~~ 1124 (1747)
T PRK13709 1055 SGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAP----------GQPFRLMQTRSAADVAI 1124 (1747)
T ss_pred cccCCCCCCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCC----------ChHHHHHHHhCCCCeEE
Confidence 0000112468999999999987543 333332 3579999999999999943 2577777764 577889
Q ss_pred eeeeccCCCCCCCccccccccCcc
Q 001347 620 LQVQYRMHPSLSEFPSNSFYEGTL 643 (1095)
Q Consensus 620 L~~qYRmhp~I~~f~S~lFY~g~L 643 (1095)
|++.+|..+.+. -+...+..|..
T Consensus 1125 L~eI~RQ~~~lr-~Av~~~~~g~~ 1147 (1747)
T PRK13709 1125 MKEIVRQTPELR-EAVYSLINRDV 1147 (1747)
T ss_pred eCeEEcCcHHHH-HHHHHHHccCH
Confidence 999999987433 23344444433
No 34
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.76 E-value=1.2e-17 Score=216.39 Aligned_cols=167 Identities=22% Similarity=0.296 Sum_probs=116.2
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHH---HcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEE
Q 001347 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA---KQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Ll---k~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVR 463 (1095)
..||+.|++||..+|. +++++|+|+|||||||++..++..+. +....+|+.+|||++||.+|.+. +++
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 eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccC
Q 001347 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1095)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~ 543 (1095)
-.+++..+..... +. ...
T Consensus 907 --------------A~TIasfL~~~~~--------------------------~~----------------------~~~ 924 (1623)
T PRK14712 907 --------------AQTLASFLHDTQL--------------------------QQ----------------------RSG 924 (1623)
T ss_pred --------------HhhHHHHhccccc--------------------------hh----------------------hcc
Confidence 1222222211000 00 000
Q ss_pred CccccCCCCCEEEEECCCCCCchhh--hhhccc-cCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHc-CCccEe
Q 001347 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (1095)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~tE~e~--LIpL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~-g~~~i~ 619 (1095)
.......++||||||+|+...++ ++.++. ...++|||||++||+||- ..+.|+.|+.. +.+...
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 00112468999999999988543 333332 347999999999999995 34678888876 578899
Q ss_pred eeeeccCCCCCCCcccc
Q 001347 620 LQVQYRMHPSLSEFPSN 636 (1095)
Q Consensus 620 L~~qYRmhp~I~~f~S~ 636 (1095)
|++.+|..+++.+.+..
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=99.70 E-value=1.3e-16 Score=185.63 Aligned_cols=208 Identities=22% Similarity=0.280 Sum_probs=137.5
Q ss_pred CCCCCEEEEECCCCCCchhhhhhc-cccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHH---c-CCccEeeeee
Q 001347 549 NFRFRQVLIDESTQATEPECLIPL-VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL---L-GLKPIRLQVQ 623 (1095)
Q Consensus 549 ~~~Fd~VIIDEAsQ~tE~e~LIpL-~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~---~-g~~~i~L~~q 623 (1095)
+.++.++||||||+.+..+...-- ...+..+.+|||-.|- +.-.. . ..+..+|+.. . ...-+.|..+
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 346899999999999976632211 1356789999999993 22111 0 1122222221 1 2345789999
Q ss_pred ccCCCCCCCccccccccCcccccccccccccCCCCCCC-CCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHH
Q 001347 624 YRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW-PVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF 702 (1095)
Q Consensus 624 YRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~-p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~L 702 (1095)
||++.+|.+|++.+.-+ ..... |. .....|... .+-.|..-.+.+..++.+|
T Consensus 598 yrSt~eI~efan~~l~d-----~~~~~---------p~~rsge~p~~i-------------~~~~ne~l~qr~~~ii~~m 650 (747)
T COG3973 598 YRSTAEIDEFANSLLPD-----RFRIH---------PLTRSGEKPAVI-------------MSVANEELVQRNPDIIPRM 650 (747)
T ss_pred hcChHHHHHHHHHhccC-----CCccc---------hhhcCCCCceee-------------eccchHHHHHhhHHHHHHH
Confidence 99999999999887532 10000 00 011233322 2344555566677778888
Q ss_pred HHcCCCCCcEEEEccchhHHHHHHHHHHhccchh------hhccCCeEEeeccCCCCccccEEEEEccccCCcCCCCCCC
Q 001347 703 LRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALR------QQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLN 776 (1095)
Q Consensus 703 l~~gv~~~dIGIITPY~aQv~~L~~~L~~~~~l~------~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~ 776 (1095)
.+.|. +.|+||++...|...+...|+....++ ........|.-|+-.||.|||.||+.-...... --.
T Consensus 651 kk~~~--etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s~~e~----te~ 724 (747)
T COG3973 651 KKRGS--ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPSIVEE----TEQ 724 (747)
T ss_pred HhcCC--CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecchhhcc----ccc
Confidence 77654 689999999999999999887654332 222346788999999999999999865431111 136
Q ss_pred CCCceeeechhhccceEEEec
Q 001347 777 DPRRLNVALTRARYGIVILGN 797 (1095)
Q Consensus 777 d~RRLNVALTRAK~~LiIVGn 797 (1095)
+.|.||||+|||-+.|+|+|-
T Consensus 725 ~~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 725 DLRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred chhhHHHHHHHHHHHHHHhhc
Confidence 789999999999999999874
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=99.67 E-value=6e-16 Score=208.26 Aligned_cols=171 Identities=22% Similarity=0.266 Sum_probs=112.0
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHH---HHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEE
Q 001347 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVY---HMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~---~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVR 463 (1095)
..||+.|++||..++. ..+++|+|+||||||+++..++. .+.+....+|+.+|||++||.+|.+ .+++
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~----~g~~--- 1090 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKS----AGVQ--- 1090 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHh----cCCc---
Confidence 4699999999999886 47999999999999999965443 3334444589999999999999965 2221
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccC
Q 001347 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1095)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~ 543 (1095)
-.+++..+..... +
T Consensus 1091 --------------a~Ti~s~l~~~~~--------------------------~-------------------------- 1104 (1960)
T TIGR02760 1091 --------------AQTLDSFLTDISL--------------------------Y-------------------------- 1104 (1960)
T ss_pred --------------hHhHHHHhcCccc--------------------------c--------------------------
Confidence 0122222110000 0
Q ss_pred CccccCCCCCEEEEECCCCCCchhh--hhhcc-ccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcC-CccEe
Q 001347 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIR 619 (1095)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~tE~e~--LIpL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g-~~~i~ 619 (1095)
...-...+.++||||||+|+...++ |+-+. ....++|||||++||+|+-.+ ..|+-++..+ ...+.
T Consensus 1105 ~~~~~~~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~aG----------~~f~~~~~~~~~~~~~ 1174 (1960)
T TIGR02760 1105 RNSGGDFRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAAG----------KPFELAITFDIIDTAI 1174 (1960)
T ss_pred cccCCCCcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCCCC----------cCHHHHHhcCCCCeEE
Confidence 0000012568999999999998553 33332 345799999999999998422 3566566554 67789
Q ss_pred eeeeccCC-CCCCCccccccccCc
Q 001347 620 LQVQYRMH-PSLSEFPSNSFYEGT 642 (1095)
Q Consensus 620 L~~qYRmh-p~I~~f~S~lFY~g~ 642 (1095)
|++.+|.. ...+.-+...+-++.
T Consensus 1175 L~~I~RQ~~~~~l~~a~~~~~~~~ 1198 (1960)
T TIGR02760 1175 MKEIVRQNNSAELKAAHNSLDKRS 1198 (1960)
T ss_pred eeeEecCCCCHHHHHHHHHHhcCc
Confidence 99999984 233333333433443
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=99.66 E-value=1.1e-16 Score=172.63 Aligned_cols=168 Identities=21% Similarity=0.194 Sum_probs=95.4
Q ss_pred CCCEEEEECCCCCCchhhhhh-ccccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeeeccCCCC
Q 001347 551 RFRQVLIDESTQATEPECLIP-LVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPS 629 (1095)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e~LIp-L~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qYRmhp~ 629 (1095)
.++++||||+++...-.++.. .....+.++++||+.|.+..-.........+ .........+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHF--------ISDISHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceeccc--------ccceeeeecceeEeecccc
Confidence 589999999999986443332 2235679999999999876643221111111 1001233467888999998
Q ss_pred CCCccccc-cccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCC
Q 001347 630 LSEFPSNS-FYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVV 708 (1095)
Q Consensus 630 I~~f~S~l-FY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~ 708 (1095)
+..+.+.. .......... .. .+... -.+.+
T Consensus 134 ~~~~~~~~~~~~~~~~~~~-------------------~~-~~~~~-----------------------------~~~~~ 164 (234)
T PF01443_consen 134 RFDIISALVYTEDHVESSV-------------------EF-RVETD-----------------------------PSGVD 164 (234)
T ss_pred cceeeecccccCCceeecc-------------------cc-ccccc-----------------------------CcccC
Confidence 88887666 1111110000 00 00000 00010
Q ss_pred CCcEEEEccchhHHHHHHHHHHhccchhhhccCCe-EEeeccCCCCccccEEEEEccccCCcCCCCCC-CCCCceeeech
Q 001347 709 PSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI-EVASVDSFQGREKDYIILSCVRSNEHQGIGFL-NDPRRLNVALT 786 (1095)
Q Consensus 709 ~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V-~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL-~d~RRLNVALT 786 (1095)
..+.+++.... +.+.+ .. .+.|+|++||+|+|.|++........ ... .+++++|||||
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 11122221111 11111 12 58999999999999998876644321 222 36999999999
Q ss_pred hhccceEEE
Q 001347 787 RARYGIVIL 795 (1095)
Q Consensus 787 RAK~~LiIV 795 (1095)
|||+.|+|+
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=99.57 E-value=2.6e-15 Score=167.83 Aligned_cols=64 Identities=25% Similarity=0.330 Sum_probs=56.4
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHh
Q 001347 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~---~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
||++|+++|.. ..+..+|.|+||||||+|+++++.+|+... +.+||++||||+|+++|.+||..
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
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.53 E-value=1.9e-14 Score=179.96 Aligned_cols=133 Identities=28% Similarity=0.335 Sum_probs=94.4
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEecccc
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~s 468 (1095)
..++++|.+|+..++.++.++|.|+||||||+++..++..+.... ..+|+.|+|.+|+..|.+.-..
T Consensus 318 ~~~~~~q~~a~~vl~~de~smlt~~~~~~~~~~~~~~~~l~~~~~-~~~l~aa~tG~a~~~l~e~tg~------------ 384 (696)
T COG0507 318 LRLSLEQKEALDVLVVDEVSMLTGGPGTGKTTAIKAIARLIKEGD-GDQLLAAPTGKAAKRLNESTGL------------ 384 (696)
T ss_pred CCcCcccHHHHHHHhcCCeeEEeccCCcchHHHHHHHHHHHHhcC-CcEEeechhhHHHHHHHHhhCc------------
Confidence 478999999999999999999999999999999988886555443 4799999999999988874211
Q ss_pred ccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCcccc
Q 001347 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (1095)
Q Consensus 469 re~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L~ 548 (1095)
.-.++|.... +..... ....
T Consensus 385 --------~a~ti~~~~~---------------~~~~~~-------------------------------------~~~~ 404 (696)
T COG0507 385 --------EARTIHRLLG---------------LWEKTG-------------------------------------NNEE 404 (696)
T ss_pred --------chhHHHHHHh---------------ccccCC-------------------------------------CCCC
Confidence 0112222211 111000 0111
Q ss_pred CCCCCEEEEECCCCCCchhhhhhc---cccCceEEEecCcCCCCceeecH
Q 001347 549 NFRFRQVLIDESTQATEPECLIPL---VLGAKQVVLVGDHCQLGPVIMCK 595 (1095)
Q Consensus 549 ~~~Fd~VIIDEAsQ~tE~e~LIpL---~~~~krlILVGD~~QLpPvv~s~ 595 (1095)
....|.+||||++++.. ....-+ .....++|+|||..||+++..+.
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 23578999999999987 322222 13457999999999999997664
No 40
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=99.52 E-value=3.1e-13 Score=182.45 Aligned_cols=167 Identities=19% Similarity=0.205 Sum_probs=113.1
Q ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccc
Q 001347 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~ 467 (1095)
.||+.|++||..++.. .+.+|+|+||||||+++..++..+-..+ .+|+++|||++|+..|.+.+...
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 7999999999999999999887665555 49999999999999998854311
Q ss_pred cccccCCcchhhhHHHHHhhccchh-HHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCcc
Q 001347 468 SREAVSSPVEHLTLHYQVRHLDTSE-KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1095)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~-~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~ 546 (1095)
-.+++.++..+.... ...+..+ + ...
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 122333322211100 0000000 0 000
Q ss_pred ccCCCCCEEEEECCCCCCchhhhhhc--c-ccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHHcCCccEeeeee
Q 001347 547 LANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQ 623 (1095)
Q Consensus 547 L~~~~Fd~VIIDEAsQ~tE~e~LIpL--~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~q 623 (1095)
..-..-++||||||+|++..++...+ . ....+||||||+.||+++-. ...|.-|...+.+.++|...
T Consensus 525 ~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~a----------G~~f~~L~~~gv~t~~l~~i 594 (1960)
T TIGR02760 525 SPFSNKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSA----------GSAIDLLKEGGVTTYAWVDT 594 (1960)
T ss_pred CCCCCCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCcccc----------chHHHHHHHCCCcEEEeecc
Confidence 00025689999999999986643333 2 24579999999999999843 24566666677888888776
Q ss_pred ccCCCCC
Q 001347 624 YRMHPSL 630 (1095)
Q Consensus 624 YRmhp~I 630 (1095)
-|....|
T Consensus 595 ~rq~~~v 601 (1960)
T TIGR02760 595 KQQKASV 601 (1960)
T ss_pred cccCcce
Confidence 6654444
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=99.48 E-value=6.1e-14 Score=161.80 Aligned_cols=164 Identities=21% Similarity=0.296 Sum_probs=102.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH--HHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEeccccccccCCcchhhhHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM--AKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHY 483 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L--lk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~~sre~i~~~~~~l~l~~ 483 (1095)
.+++|+|.||||||.++..++..| ...+ .++++++++..-++.|.+.|....... . .
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~-~~~~~l~~n~~l~~~l~~~l~~~~~~~-----~----~----------- 60 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEEG-KKVLYLCGNHPLRNKLREQLAKKYNPK-----L----K----------- 60 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccccC-CceEEEEecchHHHHHHHHHhhhcccc-----h----h-----------
Confidence 468999999999999999999998 4433 488899999998888888776542000 0 0
Q ss_pred HHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCccccCCCCCEEEEECCCCC
Q 001347 484 QVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQA 563 (1095)
Q Consensus 484 ~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~ 563 (1095)
...+.... ..+.... ........||+||||||+.+
T Consensus 61 ---------~~~~~~~~--------------------------~~i~~~~----------~~~~~~~~~DviivDEAqrl 95 (352)
T PF09848_consen 61 ---------KSDFRKPT--------------------------SFINNYS----------ESDKEKNKYDVIIVDEAQRL 95 (352)
T ss_pred ---------hhhhhhhH--------------------------HHHhhcc----------cccccCCcCCEEEEehhHhh
Confidence 00000000 0000000 01122347999999999998
Q ss_pred Cc----------hhhhhhccccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHHH-cCCc--c-EeeeeeccC--C
Q 001347 564 TE----------PECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL-LGLK--P-IRLQVQYRM--H 627 (1095)
Q Consensus 564 tE----------~e~LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~-~g~~--~-i~L~~qYRm--h 627 (1095)
.. ...|.-+....+.+|++-|+.| ++.... . .....++.+.. .+.. . +.|+.|||| .
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 332211 0 12233444333 2322 2 489999999 8
Q ss_pred CCCCCccccccccCc
Q 001347 628 PSLSEFPSNSFYEGT 642 (1095)
Q Consensus 628 p~I~~f~S~lFY~g~ 642 (1095)
+++.+|+..+++...
T Consensus 169 ~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 169 KEYIDWIDNLLDNKN 183 (352)
T ss_pred HHHHHHHHHHHhccc
Confidence 899999998876543
No 42
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.45 E-value=1.5e-13 Score=157.01 Aligned_cols=359 Identities=14% Similarity=0.110 Sum_probs=193.8
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCC--------
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL-------- 459 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~gl-------- 459 (1095)
.+++..|++|+-... .+.-.|+|-+|+|||.++++.+++|... +..+|+++.+|...+..|+.++.+...
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 478889988764432 3445899999999999999999988765 667999999999999999988765310
Q ss_pred ---cEEEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhcccccc
Q 001347 460 ---KVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIC 536 (1095)
Q Consensus 460 ---~iVRlg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~ 536 (1095)
..++.+.... .... ++.. ......+++. .++..... ++... .+++..+.
T Consensus 240 W~~~l~~h~wgG~--t~~g--~y~~--------------~~~~~~~~~~--~fsg~g~~-F~~aC----~eli~~~~--- 291 (660)
T COG3972 240 WGTKLFCHNWGGL--TKEG--FYGM--------------YRYICHYYEI--PFSGFGNG-FDAAC----KELIADIN--- 291 (660)
T ss_pred ccceEEEeccCCC--CCCc--chHH--------------HHHHhccccc--ccCCCCcc-hHHHH----HHHHHhhh---
Confidence 1111110000 0000 0000 0000000000 00000000 11111 11121111
Q ss_pred ccccccCCccccCCCCCEEEEECCCCCCc--hhhhhhccccCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHH---
Q 001347 537 CTCVGAGDPRLANFRFRQVLIDESTQATE--PECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLV--- 611 (1095)
Q Consensus 537 ~T~~~a~~~~L~~~~Fd~VIIDEAsQ~tE--~e~LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~--- 611 (1095)
.+.-+|+|+|||+|+... .++...+....|++|.++|.-|--.-+.-.. ..++|----
T Consensus 292 -----------~~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~p------pe~iFg~d~dg~ 354 (660)
T COG3972 292 -----------NKKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRP------PEEIFGPDSDGE 354 (660)
T ss_pred -----------ccccccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCC------HHHhcCcCCCCC
Confidence 123599999999999875 2222223345789999999999311111100 012221100
Q ss_pred ------HcCCccEeeeeeccCCCCCCCccccc---cccCcccc--c--------ccccccccC-C--CCCCCCCCCCCeE
Q 001347 612 ------LLGLKPIRLQVQYRMHPSLSEFPSNS---FYEGTLQN--G--------VTINERQSS-G--IDFPWPVPNRPMF 669 (1095)
Q Consensus 612 ------~~g~~~i~L~~qYRmhp~I~~f~S~l---FY~g~L~~--~--------~~~~~r~~~-~--~~~~~p~~~~Pv~ 669 (1095)
.....-+.|.+.||..|..+-++-.+ .|.+..+- . -.+..-.+. + +...-+....|.+
T Consensus 355 P~V~l~radr~DiVL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~f 434 (660)
T COG3972 355 PRVNLARADRNDIVLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEF 434 (660)
T ss_pred cccccccCccccchHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCccc
Confidence 00112367999999988776554333 13222110 0 000000000 0 0000011122322
Q ss_pred EEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEccchh----HHHHHHHHHHhccch----------
Q 001347 670 FYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEG----QRAYIVNYMSRNGAL---------- 735 (1095)
Q Consensus 670 f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIGIITPY~a----Qv~~L~~~L~~~~~l---------- 735 (1095)
+-.....+....-..+-.-..|+.+|+..|.++.+.++..+||.||.+-.. -...|.+-|...+.-
T Consensus 435 l~e~~~p~~i~~fi~fd~~~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~ 514 (660)
T COG3972 435 LPENHKPTAIHLFIGFDNGPDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISH 514 (660)
T ss_pred ccccCChhhhheeeccCCcchhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCccc
Confidence 211111111111111112357889998888888888999999999987543 233444444333210
Q ss_pred --hhhccCCeEEeeccCCCCccccEEEEEccccCCcCCCCCCCCCCceeeechhhccceEEEe
Q 001347 736 --RQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILG 796 (1095)
Q Consensus 736 --~~~~~~~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIVG 796 (1095)
.-.....|.+++|-.+||.|+.+|+...+..-. .|+...++-+++|+||.|.-+-|+|
T Consensus 515 e~~f~~dgkvtis~IyrAKGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~g 574 (660)
T COG3972 515 ETKFKQDGKVTISRIYRAKGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVG 574 (660)
T ss_pred ccccccCceEEeeeehhccCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhc
Confidence 011122699999999999999999998776543 4555667799999999999998888
No 43
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=99.28 E-value=2.9e-12 Score=148.63 Aligned_cols=60 Identities=32% Similarity=0.482 Sum_probs=51.3
Q ss_pred CCCHHHHHHHHHHh------cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHH
Q 001347 390 ELNASQVFAVKSVL------QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQL 450 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL------~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L 450 (1095)
.||++|++++..++ ......|.|++|||||+++.+++..+...+ ..|++||+|..||.+|
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~-~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRG-KKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcccc-ceEEEecchHHHHHhc
Confidence 48999999988883 355678999999999999999998765544 4899999999999887
No 44
>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=99.24 E-value=4.4e-12 Score=143.32 Aligned_cols=96 Identities=20% Similarity=0.294 Sum_probs=61.3
Q ss_pred EeeeeeccCCCCCCCcccccccc-----CcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHH
Q 001347 618 IRLQVQYRMHPSLSEFPSNSFYE-----GTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEA 692 (1095)
Q Consensus 618 i~L~~qYRmhp~I~~f~S~lFY~-----g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA 692 (1095)
+.|++|||+++.|+++.|.+|-. ..-........ .......++.++... ....|+
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~------------~~~~e~ 60 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENILPNDNKDRYEKEIQS--------AENSEDGKISIIEFD------------NEEEEA 60 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC---TTSSSSCCCEEEE--------SSTCEESSEEEEEES------------SHHHHH
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhhhhhhccchhhhhhcc--------ccccccCCceeeccC------------CHHHHH
Confidence 57999999999999999999822 11110000000 000000122222221 234588
Q ss_pred HHHHHHHHHHHHcCCCCCcEEEEccchhHHHHHHHHHHhcc
Q 001347 693 ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1095)
Q Consensus 693 ~~V~~iV~~Ll~~gv~~~dIGIITPY~aQv~~L~~~L~~~~ 733 (1095)
+.|.+.|..+...+++++||+||++.+.+...|.+.|...+
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 99999999998889999999999999999999999887654
No 45
>PF13245 AAA_19: Part of AAA domain
Probab=99.22 E-value=2.3e-11 Score=110.09 Aligned_cols=58 Identities=43% Similarity=0.644 Sum_probs=51.1
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHH
Q 001347 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKI 454 (1095)
Q Consensus 397 ~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL 454 (1095)
+||..++. +++++|+||||||||+|++.++..++.. +..+||+++|||.|+|+|.+|+
T Consensus 1 ~av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 1 EAVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CHHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 36776776 8899999999999999999999999864 2459999999999999999999
No 46
>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=1.5e-09 Score=115.87 Aligned_cols=58 Identities=29% Similarity=0.562 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCC-CcEEEEcCcHHH
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNVA 446 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~-~rILV~ApSN~A 446 (1095)
..+|..|+.++..++..+++++.||+|||||.++++...+++..+. .+|+++-|+-.+
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 3579999999999999999999999999999999998888887744 467666554433
No 47
>PRK10536 hypothetical protein; Provisional
Probab=98.90 E-value=5.6e-09 Score=114.54 Aligned_cols=58 Identities=22% Similarity=0.287 Sum_probs=45.2
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCc
Q 001347 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPS 443 (1095)
Q Consensus 386 p~~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApS 443 (1095)
..+..+|..|..++..+....+++|.||+|||||+++.++...++..+ -.+|+++-|+
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 345679999999999888889999999999999999998888655333 3345554443
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=98.83 E-value=6.1e-08 Score=128.06 Aligned_cols=159 Identities=12% Similarity=0.063 Sum_probs=85.8
Q ss_pred CCCEEEEECCCCCCchhh--hhhccccCceEEEecCcCCCCceeecHHH-HhhcchHHHHHHHHHcCCccEeeeeeccCC
Q 001347 551 RFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKA-ARAGLAQSLFERLVLLGLKPIRLQVQYRMH 627 (1095)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s~~a-~~~gl~~SLFERL~~~g~~~i~L~~qYRmh 627 (1095)
+..+|+|||+++++..+. +-.|...+++++++||.+|.. ..... .-..+....+.++.. +.+..+||..
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 334444578999999999951 11000 001122334444432 2334455554
Q ss_pred CCCCCccccccccC-cccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHHHHHc-
Q 001347 628 PSLSEFPSNSFYEG-TLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS- 705 (1095)
Q Consensus 628 p~I~~f~S~lFY~g-~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~- 705 (1095)
+.|....+.....+ .+. ............+......++.++.... -..|++.|...|.++++.
T Consensus 268 ~~i~~~~~~~~~~~~~l~---~Lek~l~~~~~~~~~~~~~~I~i~~~~~------------~~~Eae~va~~I~~l~~~~ 332 (1158)
T TIGR02773 268 EPIFLNEYRPNKKNKELA---HLEKQFDARPFNAYIEEDGSISIFEANN------------RRAEVEGVARQILRLTRDK 332 (1158)
T ss_pred cccccccccCCCCCHHHH---HHHHHHhhCCCCCCCCCCCCeEEEEcCC------------HHHHHHHHHHHHHHHHHcC
Confidence 44432111110000 000 0000000000000011112233322211 246999999999999886
Q ss_pred CCCCCcEEEEccc-hhHHHHHHHHHHhc
Q 001347 706 GVVPSQIGVITPY-EGQRAYIVNYMSRN 732 (1095)
Q Consensus 706 gv~~~dIGIITPY-~aQv~~L~~~L~~~ 732 (1095)
|+.++||+||++. +.+...|+..|.+.
T Consensus 333 g~~~~DIAVL~R~~~~y~~~i~~~f~~~ 360 (1158)
T TIGR02773 333 QYRYQDIAILTRDLEDYAKLVEAVFSDY 360 (1158)
T ss_pred CCChhheEEEeCCHHHHHHHHHHHHHhC
Confidence 8999999999999 88898998888664
No 49
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.76 E-value=7e-08 Score=99.14 Aligned_cols=69 Identities=26% Similarity=0.371 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHHhcC-CcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 389 PELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~-~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..+++.|.+++..++.. ...+|.||+|||||+++...+..++... ..++|+++||..++.++..++...
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHH
Confidence 46899999999999987 8999999999999998887777766653 458999999999999999888764
No 50
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.67 E-value=4.6e-09 Score=129.25 Aligned_cols=390 Identities=24% Similarity=0.291 Sum_probs=236.6
Q ss_pred CCCCHHHHHHHHHHh-----cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH-Hhc---CC
Q 001347 389 PELNASQVFAVKSVL-----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI-SAT---GL 459 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL-----~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL-~~~---gl 459 (1095)
..+|..|+.|+.... .....|++|+ |+|||.+++.-+..+......+++++.+++.|++...... ++. +.
T Consensus 119 ~~~~~~~~~~l~~~~~~~l~e~~P~L~~G~-~~~~~~~~~~~~~~~~~~~~~k~~~~l~~~~~~~~~ir~y~~~~v~~~~ 197 (775)
T KOG1804|consen 119 PRLNALQKGALLAITVPLLRELPPSLLIGP-GTGETLELAQAVKSLLQQEEAKILILLHSESAADIYIREYLHPYVEEGL 197 (775)
T ss_pred hhhhhhhcccccceeccccccCCcccccCC-ccccceeecchhhcccccccccceEeechhHHHHHHHHHhhcccccccc
Confidence 456777776665432 2456888998 9999999988887777666679999999999966544332 221 11
Q ss_pred cEE---EeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhcccccc
Q 001347 460 KVV---RLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIC 536 (1095)
Q Consensus 460 ~iV---Rlg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~ 536 (1095)
+.. |+....+..+.... .+.+...+-+.. ..+ ..-....+++ .+|++
T Consensus 198 ~~~~~~r~~~~~r~l~~~~p------------------vv~~~~~if~~~--------~~~---~~pq~~~~~~-Hrv~~ 247 (775)
T KOG1804|consen 198 PEATPLRVYSRKRPLAQVNP------------------VVLQYCFIFDSH--------ITF---RRPQVEDLFK-HRVVV 247 (775)
T ss_pred cccccccceeecccccccCC------------------ceeeeeeeccch--------hhh---ccchhhhhcc-cceeE
Confidence 110 22211111000000 000000000000 000 0000112233 56666
Q ss_pred ccccccC---CccccCCCCCEEEEECCCCCCchhhhhhccc--cCceEEEecCcCCCCceeecHHHHhhcchHHHHHHHH
Q 001347 537 CTCVGAG---DPRLANFRFRQVLIDESTQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLV 611 (1095)
Q Consensus 537 ~T~~~a~---~~~L~~~~Fd~VIIDEAsQ~tE~e~LIpL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~ 611 (1095)
.|..... ...+....|.+++.|||.++.+.+.+.|+++ ..++++|+||+.||-|.+.+.......+- .+..++.
T Consensus 248 ~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~~~~~~~ 326 (775)
T KOG1804|consen 248 VTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQALH-LLLCRLP 326 (775)
T ss_pred eecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhhhh-hcccccc
Confidence 6655433 2234444689999999999999999999775 46799999999999998876554433332 2222222
Q ss_pred Hc----CCccEeeeeeccCCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCCcc
Q 001347 612 LL----GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYL 687 (1095)
Q Consensus 612 ~~----g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~p~~~~Pv~f~~~~g~ee~~~~g~S~~ 687 (1095)
.. +...+-...|||.+-.|..|.+..||........+..+ .+......|..|....+.+........++
T Consensus 327 ~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k-------~~~~rl~~p~~~~~~~~~~~~~~~~~~~~ 399 (775)
T KOG1804|consen 327 EPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGK-------QPAHRLHYPLTFSTARGEDVRAKSSTAWY 399 (775)
T ss_pred cccccccCCCcCCccchHHHHHHHHhcchHHHhhcccccccccc-------cccccccccccccccccccccccchhHHh
Confidence 11 22335688999999999999999999754432221111 11222246777777777666666667788
Q ss_pred CHHHHHHHHHHHHHHHHcC-----C-CCCcEEEEccchhHHHHHHHHHHhccchhhhccCCeEEeeccCCCCcccc---E
Q 001347 688 NRTEAANVEKIVTTFLRSG-----V-VPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKD---Y 758 (1095)
Q Consensus 688 N~~EA~~V~~iV~~Ll~~g-----v-~~~dIGIITPY~aQv~~L~~~L~~~~~l~~~~~~~V~V~TVdsfQG~E~D---v 758 (1095)
|..|+..++.-++.+.+.. + .-..+|++++|..|+..++..|.+......+ -.---+|..+- .
T Consensus 400 ~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stE--------pe~lv~i~~~~~~~~ 471 (775)
T KOG1804|consen 400 NNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTE--------PELLVPGKQFRQPFQ 471 (775)
T ss_pred hhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecccccccC--------cccccccccccceeE
Confidence 8888888888888776432 1 2346899999999998888877433211100 00001111111 4
Q ss_pred EEEEccc--------cCCcCCCCCCCCCCceeeechhhccceEEEeccccccC----ChhHHHHHHHHHhcCceecCCCc
Q 001347 759 IILSCVR--------SNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK----QPLWNGLLTHYKEHECLVEGPLN 826 (1095)
Q Consensus 759 VIlS~VR--------Sn~~~~iGFL~d~RRLNVALTRAK~~LiIVGn~~~Ls~----~~~W~~ll~~~k~~~~lv~~~l~ 826 (1095)
|||++.. +......| .++.+++.|+|||-+.+-.+|+.+.+.. ..+|.+.+..+-.++.++++.+.
T Consensus 472 vvLsgdh~Qlgpv~~s~~A~~~g--l~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~ 549 (775)
T KOG1804|consen 472 VVLSGDHTQLGPVSKSARAEELG--LDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELT 549 (775)
T ss_pred EEEccCcccccccccchhhhhhc--ccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhccccccccccee
Confidence 4444432 22122223 4588999999999999999999988765 56899999999999998887654
Q ss_pred h
Q 001347 827 N 827 (1095)
Q Consensus 827 ~ 827 (1095)
.
T Consensus 550 ~ 550 (775)
T KOG1804|consen 550 A 550 (775)
T ss_pred e
Confidence 3
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=98.54 E-value=4e-07 Score=87.96 Aligned_cols=51 Identities=31% Similarity=0.504 Sum_probs=44.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..+|.||+|||||+++...+..+... ...++++++|++..++++.+++...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 46899999999999999998888765 4569999999999999999887764
No 52
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.54 E-value=1.4e-05 Score=95.75 Aligned_cols=70 Identities=21% Similarity=0.252 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHH-HHHHHcC-------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV-YHMAKQG-------QGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI-~~Llk~~-------~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+..+++-|++||..++...-.||++|.|||||.+...-+ ..+.... ..++|+++||...|.++.+.+...
T Consensus 21 ~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 21 YREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 347899999999999987779999999999998765443 3333221 127999999999999998887653
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=98.51 E-value=2e-08 Score=95.30 Aligned_cols=50 Identities=26% Similarity=0.195 Sum_probs=40.2
Q ss_pred CeEEeeccCCCCccccEEEEEccccCCcCCCCCCCCCCceeeechhhccceEEE
Q 001347 742 EIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVIL 795 (1095)
Q Consensus 742 ~V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iGFL~d~RRLNVALTRAK~~LiIV 795 (1095)
.+.+.|||++||+|||.||+....... .-...+|+||||+||||+.|+||
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=98.40 E-value=2.1e-06 Score=87.69 Aligned_cols=66 Identities=23% Similarity=0.375 Sum_probs=55.8
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 392 N~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
++.|.+++..++.+.-++|.||+|+|||.+....+...+... ..++++++|+...++++.+++...
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 359999999999999999988765
No 55
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=98.31 E-value=3.3e-07 Score=112.26 Aligned_cols=66 Identities=30% Similarity=0.389 Sum_probs=53.0
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCC---CcEEEEcCcHHHHHHHHHHHHh
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ---GQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~---~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..||.+|+.++..- .+..-+|.| ||||||.++...+.+++..+. .-|++.|.||+|+|.+.+++..
T Consensus 12 ~~l~~~q~~~~~~~-~~~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~ 80 (853)
T KOG2108|consen 12 SLLNKSQRFSALSP-LRRKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIA 80 (853)
T ss_pred hhhhhhhhhhhcCC-Ccccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHH
Confidence 35788888776642 245567777 999999999999999887643 3699999999999999999875
No 56
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.31 E-value=0.00036 Score=86.19 Aligned_cols=70 Identities=17% Similarity=0.185 Sum_probs=56.0
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHH-HHHHHHHcC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~~--------~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+..+++-|.++|-.++...-+++++|.|||||.+... ++..|++.. ..++||++||...+.++.+.+...
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 444444321 248999999999999998887654
No 57
>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=98.29 E-value=6.4e-06 Score=87.20 Aligned_cols=69 Identities=23% Similarity=0.216 Sum_probs=56.8
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..+++.|++|+..++...-.+|.+|.|+|||.+. ..++..+.+. ...++++++||...+.++.+.+...
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 4689999999999998888999999999999874 4555555554 3458999999999999988877654
No 58
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.28 E-value=2e-05 Score=97.94 Aligned_cols=69 Identities=22% Similarity=0.238 Sum_probs=54.8
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHH-HHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY-HMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~-~Llk~-~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+.++++-|.+|+..++...-+|+++|.|||||.+...-+. .+... ...++||++||...|.++.+.+..
T Consensus 26 ~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~ 96 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTD 96 (629)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHH
Confidence 3478999999999999888899999999999987654333 33222 334899999999999999887765
No 59
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.21 E-value=7.1e-06 Score=99.56 Aligned_cols=69 Identities=22% Similarity=0.222 Sum_probs=60.3
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..|.+.|++||..++...-.++++|.|+|||.+++.++..++.....++|+++||...++++.+++.+.
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 368899999999999887789999999999999887777666665559999999999999999998765
No 60
>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=98.18 E-value=3e-05 Score=99.71 Aligned_cols=66 Identities=24% Similarity=0.293 Sum_probs=54.8
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
++++.|.+||..++.. .-.||+|+.|||||.+....+...+..+ .++||++||..-|.+..+.+.+
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g-~qvlvLvPT~~LA~Q~~~~f~~ 522 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG-KQVAVLVPTTLLAQQHFETFKE 522 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC-CeEEEEeCcHHHHHHHHHHHHH
Confidence 5899999999998863 2469999999999998876665555555 4999999999999999887765
No 61
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.17 E-value=8.7e-06 Score=96.83 Aligned_cols=68 Identities=25% Similarity=0.298 Sum_probs=54.3
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHH-HHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~-----~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..+++-|.+|+..++...-+++.+|.|||||.+... ++.+|... +..++|+++||...|.++.+.+..
T Consensus 22 ~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~ 95 (434)
T PRK11192 22 TRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARE 95 (434)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHH
Confidence 467899999999999887899999999999987544 33444332 235899999999999999887654
No 62
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.10 E-value=3e-05 Score=97.32 Aligned_cols=75 Identities=31% Similarity=0.394 Sum_probs=62.4
Q ss_pred CCCCHHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-CCcEEEe
Q 001347 389 PELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GLKVVRL 464 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~---~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~-gl~iVRl 464 (1095)
..|++.|++|++.++. ....|++|+.|||||.+...++...+..+. ++|+++||..-+.++.+++.+. +.++..+
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 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGK-QALVLVPEIALTPQMLARFRARFGAPVAVL 221 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCC-eEEEEeCcHHHHHHHHHHHHHHhCCCEEEE
Confidence 4699999999999886 367999999999999998888877777654 8999999999999999999763 4444433
No 63
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.10 E-value=4.8e-05 Score=99.89 Aligned_cols=66 Identities=24% Similarity=0.292 Sum_probs=54.9
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.+++.|.+|+..++.. .-.||+|+.|||||.+....+...+..+ .++||++||..-|.++.+.+.+
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 7899999999998864 3579999999999998776665555544 4899999999999998887765
No 64
>PTZ00424 helicase 45; Provisional
Probab=98.04 E-value=2.6e-05 Score=91.52 Aligned_cols=70 Identities=24% Similarity=0.265 Sum_probs=56.3
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+..+++.|.+|+..++...-.+|++|.|||||.+....+...+.. ...++|+++||...+.++.+.+...
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 347899999999999988778999999999998766555444443 3458999999999999888776554
No 65
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.03 E-value=3.4e-05 Score=92.60 Aligned_cols=70 Identities=23% Similarity=0.246 Sum_probs=54.7
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+..+++-|.+|+..++...-.++++|.|||||.+....+...+.. ...++|+++||...++++.+.+...
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 347899999999999998889999999999997654333333322 2337999999999999998876643
No 66
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.96 E-value=5.2e-05 Score=95.31 Aligned_cols=67 Identities=30% Similarity=0.380 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+|++.|++|+..++.. .-.||+||.|||||.+....+...+..+ .++|+++||...|.++.+++.+.
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 6999999999998763 2479999999999998887766666554 48999999999999999887754
No 67
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.96 E-value=5.1e-05 Score=94.65 Aligned_cols=67 Identities=30% Similarity=0.413 Sum_probs=55.2
Q ss_pred CCCHHHHHHHHHHhcC---C---cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQR---P---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~---~---lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+|++.|++|+..++.. + ..||+||.|||||.+....+...+..+. ++|+++||...|.++.+.+.+.
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~-qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGY-QVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCC-cEEEECCHHHHHHHHHHHHHHH
Confidence 6999999999998763 2 3699999999999987766655555554 8999999999999998887653
No 68
>PRK02362 ski2-like helicase; Provisional
Probab=97.96 E-value=1.4e-05 Score=101.31 Aligned_cols=70 Identities=23% Similarity=0.290 Sum_probs=56.1
Q ss_pred CCCCCCHHHHHHHHH-HhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 387 GLPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 387 ~~~~LN~sQ~~AV~~-aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
.+.+|++.|.+|+.. .+...-.+|.+|.|+|||.+....+...+.. ..++|+++|+..-|++..+++.+.
T Consensus 20 g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~-~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 20 GIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-GGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHHHHh
Confidence 345799999999988 4557788999999999999876544444333 458999999999999999888754
No 69
>PRK00254 ski2-like helicase; Provisional
Probab=97.93 E-value=3.2e-05 Score=97.87 Aligned_cols=68 Identities=22% Similarity=0.347 Sum_probs=55.3
Q ss_pred CCCCCHHHHHHHHH-HhcCCcEEEECCCCCcHHHHHH-HHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 388 LPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~-aL~~~lsLIqGPPGTGKTtTla-~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..+||+.|.+|+.. .+...-++|.+|.|||||.+.. .++..+.+. ..++|+++|+..-+++..+++..
T Consensus 21 ~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~-~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 21 IEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE-GGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc-CCeEEEEeChHHHHHHHHHHHHH
Confidence 45799999999986 5667789999999999999874 444455443 45999999999999999988764
No 70
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.87 E-value=4.5e-05 Score=90.56 Aligned_cols=69 Identities=20% Similarity=0.186 Sum_probs=54.0
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHH-HHHHHHc--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAI-VYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~i-I~~Llk~--------~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+..+++-|.+|+..++...-.++++|.|||||.+.... +..|... ...++||++||...|.++.+.+..
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 45789999999999999888999999999999875433 3344332 124799999999999998776543
No 71
>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=97.82 E-value=3.5e-05 Score=79.26 Aligned_cols=64 Identities=25% Similarity=0.464 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+|.+.|.+|+..++. .+..+|.+|+|||||.+++.++..+.. ++|+++|+...++++.+.+...
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 578999999999984 478999999999999999998888876 9999999999999999998543
No 72
>PRK01172 ski2-like helicase; Provisional
Probab=97.82 E-value=8.4e-05 Score=93.49 Aligned_cols=66 Identities=20% Similarity=0.263 Sum_probs=54.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+|++.|.+|+..++.+.-++|.+|.|||||.+....+...+..+ .++++++|+..-|++..+.+.+
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
>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=97.81 E-value=5e-05 Score=76.76 Aligned_cols=53 Identities=28% Similarity=0.426 Sum_probs=42.7
Q ss_pred CCcEEEECCCCCcHHH-HHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 405 RPISLIQGPPGTGKTV-TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTt-Tla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
..+++|.=.||+|||+ ++.+++.+-++++. |+||++||...++++.+.|....
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 99999999999999999987653
No 74
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.78 E-value=7.6e-05 Score=89.29 Aligned_cols=65 Identities=29% Similarity=0.385 Sum_probs=57.6
Q ss_pred CCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 389 PELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..|.+.|.+|++.... ..-.+|.-|+|+|||.+.+.++..+.. ++||++|+...+++..+++...
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 788999999999999999999887643 4999999999999999887654
No 75
>PTZ00110 helicase; Provisional
Probab=97.75 E-value=0.00024 Score=87.21 Aligned_cols=70 Identities=24% Similarity=0.237 Sum_probs=54.9
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHH-HHHHHHHHc------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQ------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla-~iI~~Llk~------~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+.++++-|.+|+..++...-+++.+|.|||||.+.. -++.++..+ ....+||++||...|.++.+.+.+.
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 457899999999999987778999999999998643 333444432 1236999999999999998887764
No 76
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.75 E-value=8.9e-05 Score=84.25 Aligned_cols=56 Identities=25% Similarity=0.363 Sum_probs=39.9
Q ss_pred CCCCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHH-HHHHHHHHc-CCCcEEEEcCc
Q 001347 388 LPELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSA-AIVYHMAKQ-GQGQVLVCAPS 443 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~--~lsLIqGPPGTGKTtTla-~iI~~Llk~-~~~rILV~ApS 443 (1095)
+...|.+|+-|+...+.. +++-+.|.+|||||-.+. +-+.+.+.+ ...||+|+=|+
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 567789999999998653 333443333 34467765543
No 77
>PRK13766 Hef nuclease; Provisional
Probab=97.69 E-value=0.00022 Score=91.06 Aligned_cols=67 Identities=27% Similarity=0.351 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
++-+.|++++..++.. -.||..|.|+|||.+...++..++.....+||+++||...+++..+.+.+.
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 579999999999998887777776655679999999999998888877653
No 78
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.66 E-value=0.0002 Score=81.20 Aligned_cols=55 Identities=22% Similarity=0.309 Sum_probs=46.6
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcC
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~Ap 442 (1095)
+.-.++.|+.-++++....+++=.||+|||||+..+......++.+ -.+||++=|
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 3457999999999999999999999999999999988777766654 457888877
No 79
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.66 E-value=0.00018 Score=94.38 Aligned_cols=68 Identities=25% Similarity=0.274 Sum_probs=57.6
Q ss_pred CCCHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
.|-+.|.+||..+.. .+-.||+.+.|||||.|++.++..|++.+ ..+||++++++.-+++..+.+...
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhc
Confidence 577899999987652 34589999999999999999998888763 459999999999999999987765
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=97.65 E-value=0.00028 Score=89.50 Aligned_cols=71 Identities=11% Similarity=0.118 Sum_probs=58.5
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHH-HHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
+..|++-|.+|+..++...-++|..|.|||||....- ++..|.+.+..++|+++||...+.++.+++.+.+
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 3478999999999999888899999999999987543 4444555455689999999999999999887653
No 81
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.63 E-value=0.00027 Score=85.30 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=55.8
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHH-HHHHHHHHcC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla-~iI~~Llk~~--------~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+..+++-|.+|+..++...-++|.+|.|||||.+.. -++..|++.. ..++|+++||...+.++.+.+...
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 347899999999999988788999999999997643 3444555432 348999999999999998877653
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=97.58 E-value=0.00027 Score=93.33 Aligned_cols=67 Identities=34% Similarity=0.388 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
.+.+-|+.++..++...-+++++|.|||||.++.-++..+...+ .++||++||..-|.++.+++...
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 EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAKKG-KRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEeCHHHHHHHHHHHHHHH
Confidence 57889999999999888889999999999986655555554444 58999999999999999988764
No 83
>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=97.57 E-value=0.0007 Score=81.74 Aligned_cols=74 Identities=20% Similarity=0.299 Sum_probs=58.4
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEec
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg 465 (1095)
+..+.+-|.+||..++...-++|..|.|||||.+- .+-.+.. ....||++|+..-+.+..+++...++++..+.
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 45789999999999999878999999999999653 2222322 34799999999999888888888877765553
No 84
>PRK09401 reverse gyrase; Reviewed
Probab=97.57 E-value=0.00035 Score=92.20 Aligned_cols=67 Identities=24% Similarity=0.254 Sum_probs=56.5
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
++++-|+.++..++...-++|++|.|||||..+..++..+... ..++||++||..-|.++.+++...
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 KPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVMSLYLAKK-GKKSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHHHH
Confidence 5789999999999998889999999999997655544444443 458999999999999999998765
No 85
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.56 E-value=0.00023 Score=90.01 Aligned_cols=77 Identities=27% Similarity=0.343 Sum_probs=63.0
Q ss_pred CCCCCHHHHHHHHHHhcC-CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH---hcCCcEEE
Q 001347 388 LPELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS---ATGLKVVR 463 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~-~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~---~~gl~iVR 463 (1095)
..+|...|+.||...+-. ..+||..|-|+|||-++...+..-+..+..+++.++|++.-|.+..+++. ..|+++.-
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 347889999999987764 88999999999999988766655555555699999999999999999877 56776654
Q ss_pred e
Q 001347 464 L 464 (1095)
Q Consensus 464 l 464 (1095)
.
T Consensus 109 ~ 109 (766)
T COG1204 109 S 109 (766)
T ss_pred e
Confidence 3
No 86
>PRK08181 transposase; Validated
Probab=97.56 E-value=0.00059 Score=76.50 Aligned_cols=53 Identities=32% Similarity=0.468 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHh----cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 388 LPELNASQVFAVKSVL----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL----~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
.+.++..|..++..+- .....+|+||||||||+.+..+...+++.+. +|+.+.
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 2456899999999999999999998888764 676665
No 87
>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=97.54 E-value=0.00048 Score=86.15 Aligned_cols=65 Identities=18% Similarity=0.268 Sum_probs=54.6
Q ss_pred CCCCHHHHHHHHHHhcCC---cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 389 PELNASQVFAVKSVLQRP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~---lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..|=+.|++||...+.++ -.+|.-|+|+|||.+.+.++..+ ..++||++||...+++..+.+.+.
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l----~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV----KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh----CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 357789999999988543 57999999999999998877655 248999999999999999988764
No 88
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.48 E-value=0.00062 Score=83.22 Aligned_cols=68 Identities=18% Similarity=0.209 Sum_probs=53.0
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHc--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~--------~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..+++-|.+|+..++...-.++.+|.|||||.+- .-++.++... ...++|+++||...|.++.+.+..
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 4689999999999999888999999999999763 3344444321 234799999999999887766544
No 89
>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=97.46 E-value=0.00093 Score=82.74 Aligned_cols=58 Identities=16% Similarity=0.340 Sum_probs=41.6
Q ss_pred HHHHHhc-CCcEEEECCCCCcHHHHHHH-HHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001347 398 AVKSVLQ-RPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 398 AV~~aL~-~~lsLIqGPPGTGKTtTla~-iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
+|..++. ....+|.+|.|||||..-.. .+..+......+|||+++|..-++++.+.+.
T Consensus 8 ~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 8 NCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred HHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHH
Confidence 3444444 56789999999999965443 3333333345699999999999999987544
No 90
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.45 E-value=0.00098 Score=83.37 Aligned_cols=75 Identities=16% Similarity=0.205 Sum_probs=54.2
Q ss_pred CCCCCCCCCCC-HHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHH---------HHH----c-CCCcEEEEcCcHHH
Q 001347 382 RFGAPGLPELN-ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYH---------MAK----Q-GQGQVLVCAPSNVA 446 (1095)
Q Consensus 382 ~~~~p~~~~LN-~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~---------Llk----~-~~~rILV~ApSN~A 446 (1095)
.|..-.+..|- +-|.+++..++.+..++++|+.|||||+.+-..+.+ .+. . ...+|+|++|+..+
T Consensus 155 ~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreL 234 (675)
T PHA02653 155 PFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVAL 234 (675)
T ss_pred ccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHH
Confidence 34333334444 468888888888999999999999999986544432 111 1 23489999999999
Q ss_pred HHHHHHHHHh
Q 001347 447 VDQLAEKISA 456 (1095)
Q Consensus 447 VD~L~eRL~~ 456 (1095)
|.++.+++.+
T Consensus 235 a~qi~~~i~~ 244 (675)
T PHA02653 235 VRLHSITLLK 244 (675)
T ss_pred HHHHHHHHHH
Confidence 9999888765
No 91
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.45 E-value=0.0015 Score=74.03 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=45.8
Q ss_pred CHHHHHHHHH---Hhc-CCcEEEECCCCCcHHHHHHHHH-HHHHHcCCC----cEEEEcCcHHHHHHHHHHHHh
Q 001347 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 392 N~sQ~~AV~~---aL~-~~lsLIqGPPGTGKTtTla~iI-~~Llk~~~~----rILV~ApSN~AVD~L~eRL~~ 456 (1095)
-+.|.+.++. .+. .+..+|.+|.|||||..+...+ .++...+.. +|++++.|+.-.+.....+.+
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 5788884444 333 6789999999999997765444 444444432 899999999987776655543
No 92
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.45 E-value=0.0015 Score=74.03 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=45.8
Q ss_pred CHHHHHHHHH---Hhc-CCcEEEECCCCCcHHHHHHHHH-HHHHHcCCC----cEEEEcCcHHHHHHHHHHHHh
Q 001347 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 392 N~sQ~~AV~~---aL~-~~lsLIqGPPGTGKTtTla~iI-~~Llk~~~~----rILV~ApSN~AVD~L~eRL~~ 456 (1095)
-+.|.+.++. .+. .+..+|.+|.|||||..+...+ .++...+.. +|++++.|+.-.+.....+.+
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 5788884444 333 6789999999999997765444 444444432 899999999987776655543
No 93
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.41 E-value=0.00085 Score=89.67 Aligned_cols=64 Identities=22% Similarity=0.266 Sum_probs=51.3
Q ss_pred CCCCHHHHHHHHHHhcCC--cEEEECCCC-CcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001347 389 PELNASQVFAVKSVLQRP--ISLIQGPPG-TGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~--lsLIqGPPG-TGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1095)
..++..|..||..++... +.+|.|..| ||||+++..++..+-..+ .+|.++||++.|+..|.+.
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G-~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQG-REVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHhCC-cEEEEEeCCHHHHHHHHhc
Confidence 357889999999999743 666666666 999999997776555545 4999999999999988763
No 94
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.40 E-value=0.00017 Score=70.72 Aligned_cols=51 Identities=27% Similarity=0.473 Sum_probs=31.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-----~~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
+...+|.|+||+|||+++..++..+... ...-+.+.++.......+.+.|.
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 5678999999999999999999888653 22234444444443445555443
No 95
>PRK06526 transposase; Provisional
Probab=97.39 E-value=0.00086 Score=74.61 Aligned_cols=51 Identities=24% Similarity=0.404 Sum_probs=37.7
Q ss_pred CCCCCHHHHHHHHHH---hcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEE
Q 001347 388 LPELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~a---L~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1095)
.+.++..|...+... -.....+|.||||||||+++..+...+.+.+. +|++
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 356788776654332 12456899999999999999999988887764 6655
No 96
>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=0.0008 Score=84.56 Aligned_cols=68 Identities=21% Similarity=0.140 Sum_probs=56.2
Q ss_pred CCHHHHHHHHHHhc----------CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 391 LNASQVFAVKSVLQ----------RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~----------~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
.-..|..||+.++. .+-.||+-+.|||||.|++.++..|++. ...+||+++++..-++++.+.+...+
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 34679999988753 2468999999999999999999888754 44589999999999999999887654
No 97
>PRK14974 cell division protein FtsY; Provisional
Probab=97.38 E-value=0.0015 Score=75.33 Aligned_cols=56 Identities=36% Similarity=0.542 Sum_probs=41.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc-Cc--HHHHHHHHHHHHhcCCcEE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A-pS--N~AVD~L~eRL~~~gl~iV 462 (1095)
.+.++.|+||+|||||++.++..|...+. +|++++ .+ ..|+++|.......+++++
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 36789999999999999999988876554 676554 33 5677787776666666554
No 98
>PRK04296 thymidine kinase; Provisional
Probab=97.36 E-value=0.0004 Score=73.81 Aligned_cols=36 Identities=28% Similarity=0.504 Sum_probs=30.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1095)
.+.+|.||||+|||+.+..++..+...+. +|++..+
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~-~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERGM-KVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcCC-eEEEEec
Confidence 36899999999999999999988877654 8888743
No 99
>PRK14701 reverse gyrase; Provisional
Probab=97.36 E-value=0.0012 Score=89.29 Aligned_cols=67 Identities=28% Similarity=0.340 Sum_probs=54.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
++++-|+.++..++...-+++++|.|||||.+..-+...+...+ .++||++||..-+.++.+++...
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~g-~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALKG-KKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhcC-CeEEEEECHHHHHHHHHHHHHHH
Confidence 47899999999999988889999999999995444433333333 48999999999999999988764
No 100
>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=97.33 E-value=0.0022 Score=79.70 Aligned_cols=74 Identities=20% Similarity=0.284 Sum_probs=58.9
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEec
Q 001347 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg 465 (1095)
..++++-|.+||..++...-++|..|.|+|||.+.. +-.|+. ...++|++|+...+.+..+++...++.+..+.
T Consensus 11 ~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~--lpal~~--~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~ 84 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQ--VPALLL--KGLTVVISPLISLMKDQVDQLRAAGVAAAYLN 84 (591)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHH--HHHHHc--CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEe
Confidence 347899999999999987788999999999998753 222332 34789999999998888888888877765553
No 101
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.33 E-value=0.0011 Score=85.81 Aligned_cols=68 Identities=18% Similarity=0.310 Sum_probs=54.4
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHH-HHHHHHHc-------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-------GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~-------~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..|++-|.+|+..++...-+||++|.|||||.+... ++..|... ...++|+++|+...+.++.+++..
T Consensus 31 ~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 368999999999999888899999999999987653 44455432 123699999999999988887653
No 102
>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=97.33 E-value=0.00096 Score=81.20 Aligned_cols=53 Identities=26% Similarity=0.386 Sum_probs=44.2
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-CCcEE
Q 001347 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GLKVV 462 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~-gl~iV 462 (1095)
||+||.|+|||.+...++...+..+. ++|+++|+..-+.++.+++.+. +.++.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~-~vLvlvP~i~L~~Q~~~~l~~~f~~~v~ 54 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGK-SVLVLVPEIALTPQMIQRFKYRFGSQVA 54 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCcHHHHHHHHHHHHHHhCCcEE
Confidence 68999999999998888887777664 8999999999999999999763 33443
No 103
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.31 E-value=0.00089 Score=75.52 Aligned_cols=76 Identities=20% Similarity=0.216 Sum_probs=63.4
Q ss_pred CCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc--CCcEEE
Q 001347 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT--GLKVVR 463 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~--gl~iVR 463 (1095)
.|++-|+.|-..++. ..-+|||+..|+|||..+-..|.+.++++. +|.+.+|--.-+-+|..||... +.+|.-
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 567999999999999999999998888876 9999999999999999999874 345555
Q ss_pred ecc
Q 001347 464 LCA 466 (1095)
Q Consensus 464 lg~ 466 (1095)
+..
T Consensus 176 Lyg 178 (441)
T COG4098 176 LYG 178 (441)
T ss_pred Eec
Confidence 544
No 104
>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=97.31 E-value=3.4e-05 Score=80.93 Aligned_cols=46 Identities=26% Similarity=0.364 Sum_probs=31.6
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001347 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL 454 (1095)
+|.|+.|.|||+++-..+.+++..+..+|+||||+..++..+.+.+
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~ 46 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFA 46 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHH
Confidence 5899999999999998888888776679999999999999988754
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=97.27 E-value=0.0011 Score=84.58 Aligned_cols=61 Identities=20% Similarity=0.456 Sum_probs=47.1
Q ss_pred HHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 395 Q~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.+..|..++ .++.++|+|++|||||+.+...+..... ...+|+|+.|+..||.++++|+.+
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 344455555 3688999999999999988766554333 235999999999999999999864
No 106
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.27 E-value=0.0024 Score=79.59 Aligned_cols=72 Identities=21% Similarity=0.307 Sum_probs=57.1
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEe
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRl 464 (1095)
..+.+.|++|+..++...-++|.+|.|+|||.+- .+-.|.. ...+||++|+..-+.+..+++...++...-+
T Consensus 24 ~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y--~lpal~~--~g~tlVisPl~sL~~dqv~~l~~~gi~~~~~ 95 (607)
T PRK11057 24 QQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCY--QIPALVL--DGLTLVVSPLISLMKDQVDQLLANGVAAACL 95 (607)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHH--HHHHHHc--CCCEEEEecHHHHHHHHHHHHHHcCCcEEEE
Confidence 4688999999999998888899999999999653 2333333 2479999999999998888888877665433
No 107
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.26 E-value=0.001 Score=85.08 Aligned_cols=61 Identities=18% Similarity=0.385 Sum_probs=45.3
Q ss_pred HHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 395 QVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 395 Q~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.+..|..++. ++.++|+|++|||||+.+...+..-.. ...+|+|+.||..||.++++++.+
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 3444555553 678999999999999988644332211 234899999999999999999864
No 108
>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=97.24 E-value=0.0013 Score=83.19 Aligned_cols=65 Identities=15% Similarity=0.279 Sum_probs=47.9
Q ss_pred CHHHHHHHHHHhc----CCcEEEECCCCCcHHHHH-HHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHh
Q 001347 392 NASQVFAVKSVLQ----RPISLIQGPPGTGKTVTS-AAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 392 N~sQ~~AV~~aL~----~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
=+.|++.+..+.. ....+|.+|.|||||..+ ...+.++...+ ..+|..|+.|+.-..++.+-|.+
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 4688877666543 678999999999999654 44555444333 25999999999988887777665
No 109
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.20 E-value=0.00025 Score=87.78 Aligned_cols=53 Identities=19% Similarity=0.243 Sum_probs=40.1
Q ss_pred eEEeeccCCCCccccEEEEEccccCCcCCCC------------CC-CCCCceeeechhhccceEEE
Q 001347 743 IEVASVDSFQGREKDYIILSCVRSNEHQGIG------------FL-NDPRRLNVALTRARYGIVIL 795 (1095)
Q Consensus 743 V~V~TVdsfQG~E~DvVIlS~VRSn~~~~iG------------FL-~d~RRLNVALTRAK~~LiIV 795 (1095)
+.++|+|.++|.|||+|-+.+.+.......- +. .+++.+|||+||||.++|..
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 7789999999999999999877654321111 11 24588999999999987765
No 110
>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=97.20 E-value=0.0021 Score=68.82 Aligned_cols=56 Identities=30% Similarity=0.440 Sum_probs=40.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcE-EEEcCcH--HHHHHHHHHHHhcCCcEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKVVR 463 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rI-LV~ApSN--~AVD~L~eRL~~~gl~iVR 463 (1095)
+.++.||.|+|||||++.+.+++..++. +| |+++-|. .|+++|..-....++++..
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~~-~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~ 61 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKGK-KVALISADTYRIGAVEQLKTYAEILGVPFYV 61 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEESTSSTHHHHHHHHHHHHHTEEEEE
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhccc-cceeecCCCCCccHHHHHHHHHHHhccccch
Confidence 5688999999999999999999988854 55 4555444 5778877655555555544
No 111
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.17 E-value=0.0014 Score=82.48 Aligned_cols=68 Identities=24% Similarity=0.307 Sum_probs=60.7
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
.+-..|+-=.+..+...-+-|.+|.|+||||....+...+..++ ++++++-||...|.+..+||.+..
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 34568999999999888889999999999999999988888888 499999999999999999998763
No 112
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.16 E-value=0.0018 Score=81.07 Aligned_cols=68 Identities=32% Similarity=0.395 Sum_probs=60.5
Q ss_pred CCCCCHHHHHHHHHHhcC----CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 388 LPELNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~----~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
-..||..|..|+..+... ..+|+.|.+|+|||-+-..+|...+++++ .+|++.|--.-..++.+|+..
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 67999999999999999999999999886 999999988888888888765
No 113
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=97.15 E-value=0.0018 Score=74.94 Aligned_cols=50 Identities=22% Similarity=0.413 Sum_probs=41.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHH-cCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
++|.+|.|+|||.+....+...+. ....+|++++|+...++++.+++...
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 689999999999987766655543 34569999999999999999999875
No 114
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.15 E-value=0.0023 Score=80.62 Aligned_cols=69 Identities=23% Similarity=0.319 Sum_probs=58.4
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
...||.-|.++...+.. +...||.+|-|+|||.+..-.|.+++++ +.-||+.+||+...|.++.++..+
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 445999999999999999887654
No 115
>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=97.09 E-value=0.00084 Score=74.90 Aligned_cols=62 Identities=27% Similarity=0.333 Sum_probs=40.1
Q ss_pred HHHHHHHHhc-------------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCC----cEEEEcCcHHHHHHHHHHHHhc
Q 001347 395 QVFAVKSVLQ-------------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG----QVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 395 Q~~AV~~aL~-------------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~----rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
|++||...+. ..-.||.=.+|+|||.++..++..|...... ++||++|+ ..+.+-.+.+.+.
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 6777766543 2335677789999999999999888776432 49999999 5555655555543
No 116
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.08 E-value=0.0015 Score=81.09 Aligned_cols=68 Identities=31% Similarity=0.358 Sum_probs=56.5
Q ss_pred CCCHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
.+-.-|..||..+.. ++-.||.=.+|||||+|+.++|..|.+.+ .+|||.+|-.|..+++..+.....
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 455789999988763 34488888899999999999999999874 459999999999999988776553
No 117
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.07 E-value=0.0033 Score=80.76 Aligned_cols=62 Identities=27% Similarity=0.356 Sum_probs=45.4
Q ss_pred CCCHHHHH---HHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001347 390 ELNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1095)
Q Consensus 390 ~LN~sQ~~---AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1095)
+.-+.|.+ +|..++. ....+|++++|||||..-.. -.+......+|+|.|+|..-++++..+
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 45578887 7777776 56788999999999975332 223322345999999999999999543
No 118
>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=0.0015 Score=86.12 Aligned_cols=62 Identities=19% Similarity=0.396 Sum_probs=46.6
Q ss_pred HHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 395 Q~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.+..|..++ .+.+++|.|++||||||.+-.++...-.....+|+++-|-..||-.+++|+.+
T Consensus 71 ~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~ 133 (1283)
T TIGR01967 71 KREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAE 133 (1283)
T ss_pred HHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHH
Confidence 345555555 47899999999999999876555443222234788889999999999999876
No 119
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.02 E-value=0.0018 Score=80.14 Aligned_cols=72 Identities=29% Similarity=0.288 Sum_probs=60.2
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 386 p~~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
|..-.|=..|.+.+..|| ...+||..|-|+|||.+++.+++..++- ++.||+++|||.--|.+-..++...+
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 8889999999999999999888766654 66799999999999887777666554
No 120
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.01 E-value=0.0057 Score=67.21 Aligned_cols=52 Identities=17% Similarity=0.166 Sum_probs=38.1
Q ss_pred CCCHHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001347 390 ELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1095)
.-|.....++..... .+..+|+||||||||+.+..+...+.+.+ .+++.+..
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 357777777766543 35689999999999999998887777654 36666554
No 121
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=96.98 E-value=0.006 Score=82.86 Aligned_cols=62 Identities=23% Similarity=0.298 Sum_probs=46.6
Q ss_pred CCHHHHHHHHHHhcC--CcEEEECCCCC-cHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001347 391 LNASQVFAVKSVLQR--PISLIQGPPGT-GKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~~--~lsLIqGPPGT-GKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1095)
.+..|.+|+..+++. .+.+|+|+.|. |+++++..++. +++....+|.++|||++|+..|.+.
T Consensus 414 ~~~~~~~av~~~~q~~~~~~il~g~~G~aG~g~~l~~l~~-~a~~~G~~V~glAPt~~a~~~L~~~ 478 (1747)
T PRK13709 414 RTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVM-MAREQGREVQILAADRRSQMNLKQD 478 (1747)
T ss_pred cchhhhHHHHHHhcccCcEEEEEcCCcchHHHHHHHHHHH-HHHhCCcEEEEEeCcHHHHHHHHHh
Confidence 456889999998874 57889988884 66655555554 4444445999999999999998764
No 122
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.98 E-value=0.017 Score=71.00 Aligned_cols=66 Identities=29% Similarity=0.439 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHHhc---CC---cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQ---RP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~---lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+|+..|+++|+.++. ++ .-||||-=|||||.+++..+...+..+. ++.++|||-.-|.+-.+.+.+
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 3599999999999999888878888775 999999999999888777654
No 123
>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=96.92 E-value=0.0017 Score=81.01 Aligned_cols=55 Identities=29% Similarity=0.409 Sum_probs=49.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1095)
+++.+|.+|=|||||+.+...+...++.+..+||+++.-+.-+.+|.+|+...++
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 124
>PF13173 AAA_14: AAA domain
Probab=96.89 E-value=0.0036 Score=62.02 Aligned_cols=41 Identities=22% Similarity=0.320 Sum_probs=31.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AV 447 (1095)
+++.+|.||.|+||||++..++..+. ...+++.+.......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRD 42 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHH
Confidence 56889999999999999999988776 334666665544333
No 125
>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=96.88 E-value=0.0035 Score=81.04 Aligned_cols=62 Identities=31% Similarity=0.318 Sum_probs=44.4
Q ss_pred CCHHHHH---HHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001347 391 LNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1095)
Q Consensus 391 LN~sQ~~---AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1095)
..+.|.+ +|..++. ....+|.+|.|||||..-..-+...+. ...+|+|.|+|..-.+++.++
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 567889999999999764333323333 345999999999988888764
No 126
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.83 E-value=0.0054 Score=71.76 Aligned_cols=55 Identities=24% Similarity=0.310 Sum_probs=37.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcH---HHHHHHHHHHHhcCC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSN---VAVDQLAEKISATGL 459 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN---~AVD~L~eRL~~~gl 459 (1095)
..++++.||+|+|||||++.++..++.. +..+|.+++.-. .|+++|..-....++
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 4578999999999999999999887654 445776665322 255555543333333
No 127
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.81 E-value=0.0078 Score=78.52 Aligned_cols=63 Identities=25% Similarity=0.238 Sum_probs=45.2
Q ss_pred CCHHHHH---HHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001347 391 LNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1095)
Q Consensus 391 LN~sQ~~---AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1095)
.-+.|.+ +|..++. ....+|.+|.|||||..-.--+..+.....++|+|.|+|..--++|.++
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 5678899999999997432222223333456999999999999999775
No 128
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.77 E-value=0.013 Score=74.56 Aligned_cols=66 Identities=17% Similarity=0.202 Sum_probs=49.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+|.+.|.+++-.++...=.+.+.+.|||||.+.+.-++.-+..+. .++|++||..-|.+..+-+..
T Consensus 92 ~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g~-~v~IVTpTrELA~Qdae~m~~ 157 (970)
T PRK12899 92 DMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTGK-PVHLVTVNDYLAQRDCEWVGS 157 (970)
T ss_pred CCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhcC-CeEEEeCCHHHHHHHHHHHHH
Confidence 478999999988776555899999999999887654443222333 689999999988888776654
No 129
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.75 E-value=0.007 Score=68.42 Aligned_cols=36 Identities=28% Similarity=0.472 Sum_probs=29.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcC
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~Ap 442 (1095)
+.+|.||.|+|||||++.++.++... +..+|.+++.
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 67899999999999999999988776 4347766653
No 130
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.74 E-value=0.0072 Score=71.18 Aligned_cols=56 Identities=21% Similarity=0.241 Sum_probs=37.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEE-EEcCc--HHHHHHHHHHHHhcCCcE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVL-VCAPS--NVAVDQLAEKISATGLKV 461 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rIL-V~ApS--N~AVD~L~eRL~~~gl~i 461 (1095)
.+.++.||.|+|||||++.++.++... ...+|+ +.+-| ..|+++|.......++++
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 44445 556666554443345443
No 131
>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=96.73 E-value=0.0047 Score=60.04 Aligned_cols=55 Identities=29% Similarity=0.445 Sum_probs=38.8
Q ss_pred HHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001347 393 ASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1095)
Q Consensus 393 ~sQ~~AV~~aL~---~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1095)
+.+..++...+. ....+|.||||||||+++..++..+...+ .+|+.+..+.....
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 46789999999999998888888776443 46777766555443
No 132
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.70 E-value=0.0092 Score=71.32 Aligned_cols=53 Identities=30% Similarity=0.403 Sum_probs=35.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE-cCcH--HHHHHHHHHHHhcCCc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC-APSN--VAVDQLAEKISATGLK 460 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~-ApSN--~AVD~L~eRL~~~gl~ 460 (1095)
+.++.|++|+|||||++.++.+|.+.+. +|+++ +.+. .|.+++..-....+++
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 5788999999999999999988877665 65554 4332 3445554433333333
No 133
>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=96.68 E-value=0.0048 Score=78.33 Aligned_cols=67 Identities=18% Similarity=0.136 Sum_probs=49.1
Q ss_pred CCHHHHHHHHHHhcCC-cEEEECCCCCcHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 391 LNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~~~-lsLIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
.++-|.+++..++... ..+++.|.|||||.+++.-+..+... ...++++++||..-|+++.+.+.+.
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 68889999999998664222222111 2335666889999999999887664
No 134
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=96.68 E-value=0.011 Score=69.04 Aligned_cols=59 Identities=22% Similarity=0.385 Sum_probs=46.1
Q ss_pred HHHHHHHHhcCC--cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 395 QVFAVKSVLQRP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 395 Q~~AV~~aL~~~--lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
|.+|++.+.... .++|.+|+|+|||.+....+. . ...+.++++|++..+++..+++.+.
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 888999888754 689999999999987543322 2 2347899999999999988887764
No 135
>PRK12377 putative replication protein; Provisional
Probab=96.67 E-value=0.0078 Score=66.84 Aligned_cols=49 Identities=31% Similarity=0.439 Sum_probs=36.4
Q ss_pred CHHHHHHHHHHhc--------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 392 NASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 392 N~sQ~~AV~~aL~--------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
++.|+.|+..+.. ....+|+||||||||+++.+++..+.+.+. +|++++
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 4667666654431 245799999999999999999999987754 665554
No 136
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=96.63 E-value=0.0082 Score=71.13 Aligned_cols=123 Identities=24% Similarity=0.263 Sum_probs=84.3
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-CC---cEEEec
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GL---KVVRLC 465 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~-gl---~iVRlg 465 (1095)
+--..|...+..++.. .+||.=|-|=|||.+++.++...+...+++||++|||.-.|.+=++.+.+. ++ +++.+
T Consensus 15 e~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~l- 92 (542)
T COG1111 15 EPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAAL- 92 (542)
T ss_pred cHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeee-
Confidence 3345788888888765 689999999999999998887555554449999999999999887776542 22 11111
Q ss_pred cccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCc
Q 001347 466 AKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDP 545 (1095)
Q Consensus 466 ~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~~ 545 (1095)
.++.+... ..+....++|+++|....-+.
T Consensus 93 ----------------------------------------tGev~p~~-----------R~~~w~~~kVfvaTPQvveND 121 (542)
T COG1111 93 ----------------------------------------TGEVRPEE-----------REELWAKKKVFVATPQVVEND 121 (542)
T ss_pred ----------------------------------------cCCCChHH-----------HHHHHhhCCEEEeccHHHHhH
Confidence 11221111 123456788999998765544
Q ss_pred c----ccCCCCCEEEEECCCCCCc
Q 001347 546 R----LANFRFRQVLIDESTQATE 565 (1095)
Q Consensus 546 ~----L~~~~Fd~VIIDEAsQ~tE 565 (1095)
. +.-..+.+||+|||-.++-
T Consensus 122 l~~Grid~~dv~~lifDEAHRAvG 145 (542)
T COG1111 122 LKAGRIDLDDVSLLIFDEAHRAVG 145 (542)
T ss_pred HhcCccChHHceEEEechhhhccC
Confidence 3 3334799999999998876
No 137
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=96.61 E-value=0.0033 Score=65.54 Aligned_cols=52 Identities=27% Similarity=0.422 Sum_probs=40.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~ 460 (1095)
.+||.||||||||+++..+++..++.+. ++++++.. ...+++.+++...+++
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 3689999999999999999998887765 88888765 4566777777665543
No 138
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.54 E-value=0.014 Score=68.50 Aligned_cols=55 Identities=25% Similarity=0.412 Sum_probs=39.9
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEE-EcCcHH--HHHHHHHHHHhcCCcE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV-CAPSNV--AVDQLAEKISATGLKV 461 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV-~ApSN~--AVD~L~eRL~~~gl~i 461 (1095)
...+|.||+|+|||||++.+...+..++. +|++ .+-+.. |++++.......++.+
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 46789999999999999999998887665 5654 444543 7777776544444444
No 139
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.53 E-value=0.0034 Score=82.66 Aligned_cols=61 Identities=18% Similarity=0.363 Sum_probs=44.4
Q ss_pred HHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 396 VFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 396 ~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
++.|..++ .+.+++|.|++||||||.+-.++..+-.....+|.++-|-..|+-++++|+.+
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 57899999999999999766555433222234677888999999999999875
No 140
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=96.52 E-value=0.0098 Score=72.62 Aligned_cols=25 Identities=8% Similarity=-0.000 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCC
Q 001347 976 PSLENSNSQPSVGGPLTQPGFVNNM 1000 (1095)
Q Consensus 976 ~~~~~~~~~~~~~~~~~~~~~~~~~ 1000 (1095)
|-...|-+-+-+-+||+-.-...-.
T Consensus 611 P~gLkpKK~~k~e~~Mrr~nW~kI~ 635 (1102)
T KOG1924|consen 611 PFGLKPKKVYKPEVPMRRFNWSKIV 635 (1102)
T ss_pred CCCCCccccCCCCCccccCCccccC
Confidence 4445577777888888877664433
No 141
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.50 E-value=0.0095 Score=65.98 Aligned_cols=50 Identities=30% Similarity=0.392 Sum_probs=39.3
Q ss_pred CCHHHHHHHHHHhc------C--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 391 LNASQVFAVKSVLQ------R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~------~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
.++.|+.|+..+.. . ...++.|+||||||+++.+++.+|.+.+. +|++++
T Consensus 77 ~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~-~v~~it 134 (244)
T PRK07952 77 ECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGK-SVLIIT 134 (244)
T ss_pred CCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEEE
Confidence 35678777766543 1 46899999999999999999999988764 777774
No 142
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=96.49 E-value=0.037 Score=67.76 Aligned_cols=69 Identities=26% Similarity=0.272 Sum_probs=53.2
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHH--cCCCc-EEEEcCcHHHHHHHHHHHHhc
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAK--QGQGQ-VLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk--~~~~r-ILV~ApSN~AVD~L~eRL~~~ 457 (1095)
...++-|..||-.++...=.+++++.|||||..- .-++..+.. ..... .||++||...|.++.+-+...
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 344445442 22222 899999999999999877653
No 143
>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=96.48 E-value=0.017 Score=63.92 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHh---c--CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 392 NASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 392 N~sQ~~AV~~aL---~--~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
...+++|+.... . .++.+|.||+|+|||+++..++..+
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l 67 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRL 67 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhc
Confidence 456666666542 2 4478999999999999988776554
No 144
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=96.48 E-value=0.011 Score=72.30 Aligned_cols=12 Identities=33% Similarity=0.404 Sum_probs=7.0
Q ss_pred CCCCceeeechh
Q 001347 776 NDPRRLNVALTR 787 (1095)
Q Consensus 776 ~d~RRLNVALTR 787 (1095)
..+.||++-+|-
T Consensus 447 ~yr~~l~id~~~ 458 (1102)
T KOG1924|consen 447 KYRFRLDIDLTE 458 (1102)
T ss_pred chhhcccCcHHH
Confidence 345667766653
No 145
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.46 E-value=0.013 Score=70.08 Aligned_cols=47 Identities=32% Similarity=0.414 Sum_probs=32.9
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHH-HcCCCcEEEE-cCcHH--HHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVC-APSNV--AVDQLAE 452 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Ll-k~~~~rILV~-ApSN~--AVD~L~e 452 (1095)
.+.++.||+|+|||||++.++..+. ..+..+|+++ +.+.. |+++|..
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~ 272 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKT 272 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHH
Confidence 4678899999999999999998887 4443466554 44433 4455544
No 146
>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=96.46 E-value=0.026 Score=67.27 Aligned_cols=55 Identities=27% Similarity=0.452 Sum_probs=37.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEE-EEcCcH--HHHHHHHHHHHhcCCcE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL-VCAPSN--VAVDQLAEKISATGLKV 461 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rIL-V~ApSN--~AVD~L~eRL~~~gl~i 461 (1095)
.+.++.|++|+|||||++.++.++.+.+. +|+ |++-+. .|+++|..--...++.+
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~-kV~lV~~D~~R~aA~eQLk~~a~~~~vp~ 158 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGF-KPCLVCADTFRAGAFDQLKQNATKARIPF 158 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEcCcccchhHHHHHHHHhhccCCeE
Confidence 35789999999999999999998877665 655 445444 46666644333334443
No 147
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.44 E-value=0.02 Score=71.20 Aligned_cols=71 Identities=24% Similarity=0.185 Sum_probs=54.2
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh----cCCcEEEe
Q 001347 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA----TGLKVVRL 464 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~----~gl~iVRl 464 (1095)
..+-|..++-.++... +.+...|+|||.+.+..++.....+ ..++|+|||..-|.+..+-+.. .++++.-+
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 4578999998888766 8899999999998876665544445 4899999999999888777654 35554433
No 148
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=96.42 E-value=0.032 Score=70.71 Aligned_cols=60 Identities=23% Similarity=0.344 Sum_probs=43.9
Q ss_pred CHHHHH---HHHHHhcC------CcEEEECCCCCcHHHHHHHHHH--HHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001347 392 NASQVF---AVKSVLQR------PISLIQGPPGTGKTVTSAAIVY--HMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1095)
Q Consensus 392 N~sQ~~---AV~~aL~~------~lsLIqGPPGTGKTtTla~iI~--~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1095)
=+.|.+ +|..++.. ...+|.+|.|||||.- +++- .+.....++|+|-|.|..--++|.+|
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 3322 12233445999999999999999766
No 149
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.37 E-value=0.02 Score=74.22 Aligned_cols=72 Identities=25% Similarity=0.397 Sum_probs=52.9
Q ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHHHHHHHHHHcCC-CcEEEEcCcHHHHHHHHHHHHhcCCcE
Q 001347 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAEKISATGLKV 461 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~-~rILV~ApSN~AVD~L~eRL~~~gl~i 461 (1095)
.|-+.|..++..++.. +-+||-=.-|.|||..+..++..++..+. .+|||++|+.-.-....|-..+.++..
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW~~El~~kF~l~~ 226 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQWLVEMLRRFNLRF 226 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHHHHHHHHHhCCCe
Confidence 6889999999888763 34788889999999999888888776653 599999998655444333333444443
No 150
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=96.30 E-value=0.005 Score=75.81 Aligned_cols=45 Identities=24% Similarity=0.484 Sum_probs=39.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
...+|.|-+|||||+.|..+...+ +.+|+++|..||.||-.+|..
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 457999999999999998887765 788999999999999887763
No 151
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.28 E-value=0.0079 Score=75.19 Aligned_cols=25 Identities=28% Similarity=0.327 Sum_probs=21.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|+.||+|||||+++..+.+.|.-
T Consensus 40 AyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 40 AYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4689999999999998888877753
No 152
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=96.24 E-value=0.03 Score=70.50 Aligned_cols=68 Identities=24% Similarity=0.256 Sum_probs=49.9
Q ss_pred CCCHHHHHHHHH---HhcCC-cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKS---VLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~---aL~~~-lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+.-+.|++.+.. ++.++ ..+|.+|-|||||.-....+.......+.+|++++.|+..-+++.++....
T Consensus 15 ~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 15 EPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 345678765544 45544 599999999999987655444444444469999999999999999987553
No 153
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.23 E-value=0.011 Score=72.24 Aligned_cols=25 Identities=28% Similarity=0.353 Sum_probs=21.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|+.||||||||+++..++..|.-
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 4689999999999998888877754
No 154
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.17 E-value=0.038 Score=71.97 Aligned_cols=72 Identities=15% Similarity=0.197 Sum_probs=56.1
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEe
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRl 464 (1095)
..|.+-|++||..++...-+|+..|.|+|||.+-. +-.|+. + ..+||++|+...+..-..+|...+++...+
T Consensus 459 ~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQ--LPAL~~-~-GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L 530 (1195)
T PLN03137 459 HSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQ--LPALIC-P-GITLVISPLVSLIQDQIMNLLQANIPAASL 530 (1195)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHH--HHHHHc-C-CcEEEEeCHHHHHHHHHHHHHhCCCeEEEE
Confidence 47889999999999998889999999999996532 222332 2 479999999999876667777777766554
No 155
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.14 E-value=0.011 Score=73.16 Aligned_cols=25 Identities=28% Similarity=0.359 Sum_probs=21.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|++||+|||||+++..+...|.-
T Consensus 40 A~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 40 AYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4699999999999999888887754
No 156
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.12 E-value=0.022 Score=72.69 Aligned_cols=63 Identities=17% Similarity=0.299 Sum_probs=50.2
Q ss_pred HHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 395 QVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 395 Q~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
.+..|..++. +.+++|.|++|+||||-+-..++..--...++|.++=|-..||..+++|+.+.
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 4445555554 78999999999999999887776554445568999999999999999999863
No 157
>COG4889 Predicted helicase [General function prediction only]
Probab=96.11 E-value=0.026 Score=70.10 Aligned_cols=75 Identities=24% Similarity=0.296 Sum_probs=52.1
Q ss_pred CCCCHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH-Hhc--CCc
Q 001347 389 PELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI-SAT--GLK 460 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL-~~~--gl~ 460 (1095)
.++-+.|+.|+..++. .+=-||-+ +|||||.|...|...|.+ .+||.++||-...-+-+... .+. .+.
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 3678999999999875 22245555 699999999998888876 59999999987665443332 222 334
Q ss_pred EEEeccc
Q 001347 461 VVRLCAK 467 (1095)
Q Consensus 461 iVRlg~~ 467 (1095)
.+.+|+.
T Consensus 236 a~aVcSD 242 (1518)
T COG4889 236 ASAVCSD 242 (1518)
T ss_pred eEEEecC
Confidence 4455543
No 158
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.10 E-value=0.01 Score=73.89 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=21.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
.|++||+|+|||+++..++..|.-
T Consensus 41 yLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 41 YLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred EEEECCCCCCHHHHHHHHHHhhhh
Confidence 689999999999999888877765
No 159
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.00 E-value=0.0055 Score=58.80 Aligned_cols=43 Identities=30% Similarity=0.570 Sum_probs=31.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1095)
....+|.||||||||+++..++..+.... ..+++++.+.....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~~~~~~~~~ 44 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG-GGVIYIDGEDILEE 44 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC-CCEEEECCEEcccc
Confidence 35689999999999999998887775543 25666666554443
No 160
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=96.00 E-value=0.025 Score=71.40 Aligned_cols=65 Identities=17% Similarity=0.279 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.|-+.|.+++.... ..+ .+++-+.|||||.|.+.-++.....+ ..|+|+|||..-|.+..+.+..
T Consensus 68 glrpydVQlig~l~l~~G-~Iaem~TGeGKTLta~Lpa~l~aL~g-~~V~VVTpn~yLA~Rdae~m~~ 133 (762)
T TIGR03714 68 GMFPYDVQVLGAIVLHQG-NIAEMKTGEGKTLTATMPLYLNALTG-KGAMLVTTNDYLAKRDAEEMGP 133 (762)
T ss_pred CCCccHHHHHHHHHhcCC-ceeEecCCcchHHHHHHHHHHHhhcC-CceEEeCCCHHHHHHHHHHHHH
Confidence 34555555555443 344 69999999999998765543333333 4799999999988888776643
No 161
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.00 E-value=0.012 Score=70.78 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=21.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|+.||||||||+++..++..|..
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCc
Confidence 3699999999999999888877654
No 162
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=95.88 E-value=0.093 Score=63.28 Aligned_cols=36 Identities=22% Similarity=0.151 Sum_probs=27.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1095)
+..+|.|++|||||+++.++...+.+. +..+|+.++
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 457899999999999998888777654 344666554
No 163
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.87 E-value=0.046 Score=65.70 Aligned_cols=35 Identities=23% Similarity=0.180 Sum_probs=28.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1095)
..+|.||||||||+++.++...+.+.. ..+|+.++
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~ 167 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT 167 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 589999999999999999998887753 34677665
No 164
>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=95.87 E-value=0.021 Score=64.33 Aligned_cols=56 Identities=36% Similarity=0.500 Sum_probs=40.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc---CcHHHHHHHHHHHHhcCCcEE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA---PSNVAVDQLAEKISATGLKVV 462 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A---pSN~AVD~L~eRL~~~gl~iV 462 (1095)
.+.++.||+|+|||||++.++..+.+.+. +|++++ +...|.+++.......++.++
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 776664 334556777666555555544
No 165
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=95.82 E-value=0.015 Score=63.06 Aligned_cols=53 Identities=32% Similarity=0.590 Sum_probs=40.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1095)
..++||.|+||||||+.+..+++.-+++ +. +++.++..... +++.+++...+.
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge-~vlyvs~ee~~-~~l~~~~~s~g~ 72 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGE-KVLYVSFEEPP-EELIENMKSFGW 72 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT---EEEEESSS-H-HHHHHHHHTTTS
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC-cEEEEEecCCH-HHHHHHHHHcCC
Confidence 5679999999999999999998887777 65 88888865444 778887777654
No 166
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.74 E-value=0.026 Score=65.01 Aligned_cols=68 Identities=22% Similarity=0.183 Sum_probs=56.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHcCC-CcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~~-~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..+.-|++||=.+|...-++..+--|||||-+- .=|+..|+.+++ ...||+|||...|-+|.+-....
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 568899999999999999999999999999764 456677777643 47999999999999999876654
No 167
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.73 E-value=0.013 Score=74.60 Aligned_cols=25 Identities=24% Similarity=0.286 Sum_probs=21.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|+.||||||||+++..++..|..
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhccC
Confidence 4689999999999999888877753
No 168
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.73 E-value=0.042 Score=66.77 Aligned_cols=37 Identities=30% Similarity=0.418 Sum_probs=29.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1095)
..+.+|.||.|+|||||+..++..+...+ ..+|.+++
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 35788899999999999999998877653 34676554
No 169
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.72 E-value=0.031 Score=65.09 Aligned_cols=40 Identities=18% Similarity=0.370 Sum_probs=30.9
Q ss_pred CEEEEECCCCCCchh--hhhhccccCceEEEecCcCCCCceee
Q 001347 553 RQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIM 593 (1095)
Q Consensus 553 d~VIIDEAsQ~tE~e--~LIpL~~~~krlILVGD~~QLpPvv~ 593 (1095)
.+++|||....+-.+ .++|.+ ....++|||-.-.=|....
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 568999998888754 677775 4578999999988776643
No 170
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=95.70 E-value=0.052 Score=70.05 Aligned_cols=68 Identities=22% Similarity=0.329 Sum_probs=58.6
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
.|=..|.+|++.+.....+||+-|.|||||-+ +.-++.++++.+..+-|++-|||.-|..=++|+.+.
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 46678999999998888999999999999976 467778888888889999999999998777877653
No 171
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=95.68 E-value=0.011 Score=66.35 Aligned_cols=27 Identities=44% Similarity=0.615 Sum_probs=23.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
-+..|.+||||||||+|+..+.++|.-
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 467899999999999999988887754
No 172
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.64 E-value=0.019 Score=63.96 Aligned_cols=51 Identities=27% Similarity=0.314 Sum_probs=38.0
Q ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
..+..+++|+..+.. ..-.++.||||||||++++++...|++.+. +|++++
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 344556666655542 346789999999999999999999995554 777765
No 173
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=95.63 E-value=0.0079 Score=73.92 Aligned_cols=58 Identities=24% Similarity=0.253 Sum_probs=45.0
Q ss_pred CCCCHHHHHHHHHH----hc--CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001347 389 PELNASQVFAVKSV----LQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~a----L~--~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1095)
..||++|+.....+ .. .+++. .|.+|||||+..-+++..+...+ ..++.+|.|+.|+-
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-YGFGGTGKTYLLKTLIAALRSRG-KIVLNVASSGIAAL 179 (540)
T ss_pred hhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHHhcCC-ceEEEeeecchhhh
Confidence 36999999766632 22 24455 89999999999999998887774 47888899888874
No 174
>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=95.63 E-value=0.2 Score=66.60 Aligned_cols=154 Identities=10% Similarity=0.028 Sum_probs=93.3
Q ss_pred CCCEEEEECCCCCCchhh--hhhccccCceEEEecCcCCCCceeecHHHHhhcc-h---HHHHHHHHHcCCccEeeeeec
Q 001347 551 RFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGL-A---QSLFERLVLLGLKPIRLQVQY 624 (1095)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e~--LIpL~~~~krlILVGD~~QLpPvv~s~~a~~~gl-~---~SLFERL~~~g~~~i~L~~qY 624 (1095)
+-..|+|||+++.+..|. +-.|...+++|++++|.+|..+. ... ....+ . ..|.+-....+.+...+..+|
T Consensus 185 ~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~~-~~~--~~~~LF~~s~~~L~~la~~~~i~v~~~~~~~ 261 (1076)
T TIGR02774 185 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAYK-SSF--SEGNLYQASVKFLHDLAQKYQTKAEFISSTH 261 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCccccc-cCC--CcccchHHHHHHHHHHHHHcCCCcccCcccc
Confidence 567899999999998764 34455578899999999885531 000 00011 1 222222223355556666889
Q ss_pred cCCCCCCCccccccccCcccccccccccccCCCCCCC--CCC-CCCeEEEEcCCceeecccCCCccCHHHHHHHHHHHHH
Q 001347 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW--PVP-NRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTT 701 (1095)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L~~~~~~~~r~~~~~~~~~--p~~-~~Pv~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~ 701 (1095)
|.+++|..+.+.++-...... .++ ... ...+.++... .-..|++.|...|.+
T Consensus 262 R~~~~L~~Le~~~~~~~~~~~-------------~~~~~~~~~~~~I~i~~a~------------n~~~Eve~va~~I~~ 316 (1076)
T TIGR02774 262 ESKDSFDKLSRLLEASHDFSE-------------LALDLDDKDKDNLTIWSCL------------TQKEEVEHVARSIRQ 316 (1076)
T ss_pred ccCHHHHHHHHHHhhcccCCc-------------ccccCCCCCCCceEEEEcC------------CHHHHHHHHHHHHHH
Confidence 998888777653321100000 000 000 0112222211 125799999999999
Q ss_pred HHHcCCCCCcEEEEccchhH-HHHHHHHHHhc
Q 001347 702 FLRSGVVPSQIGVITPYEGQ-RAYIVNYMSRN 732 (1095)
Q Consensus 702 Ll~~gv~~~dIGIITPY~aQ-v~~L~~~L~~~ 732 (1095)
|++.|+.+.||+|+++...+ ...|...+.+.
T Consensus 317 lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~~~ 348 (1076)
T TIGR02774 317 KLYEGYRYKDILVLLGDVDSYQLQLGKIFDQY 348 (1076)
T ss_pred HHHcCCChhheEEEcCCHHHHHHHHHHHHhhc
Confidence 99999999999999998777 66777766553
No 175
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.63 E-value=0.076 Score=63.90 Aligned_cols=35 Identities=31% Similarity=0.475 Sum_probs=28.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
...+|.||+|+|||+++..+...+.+.+ .+|+.+.
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 4578999999999999999988887654 4777665
No 176
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.57 E-value=0.037 Score=67.57 Aligned_cols=26 Identities=35% Similarity=0.492 Sum_probs=21.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
..|+.||||||||+++..++..|...
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 35999999999999998888777643
No 177
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.50 E-value=0.028 Score=69.54 Aligned_cols=25 Identities=28% Similarity=0.468 Sum_probs=21.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|+.||+|||||+++..++..|.-
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcc
Confidence 4689999999999999888877653
No 178
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.50 E-value=0.032 Score=64.19 Aligned_cols=55 Identities=31% Similarity=0.453 Sum_probs=39.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc-Cc--HHHHHHHHHHHHhcCCcEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A-pS--N~AVD~L~eRL~~~gl~iV 462 (1095)
+.+|.||+|+|||||++.++..+...+. +|++++ .+ ..|++++.......++.++
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 777654 44 3456776655444555544
No 179
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.49 E-value=0.023 Score=70.65 Aligned_cols=25 Identities=28% Similarity=0.376 Sum_probs=21.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|++||+|||||+++..++..|.-
T Consensus 40 a~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 40 AYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4699999999999999888877764
No 180
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=95.47 E-value=0.072 Score=56.07 Aligned_cols=38 Identities=24% Similarity=0.302 Sum_probs=32.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1095)
+++..|.+++|.|||+.+..++...+..+. +|+++=|-
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 89888443
No 181
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.43 E-value=0.11 Score=64.60 Aligned_cols=65 Identities=15% Similarity=0.098 Sum_probs=53.1
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 393 ~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
-.+.+++-..+.+..+++..|=|.|||+++..++.+|+.....+|+++|+....+.++.+++...
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 35666677777799999999999999999987777776533469999999999999998887653
No 182
>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=95.42 E-value=0.021 Score=62.72 Aligned_cols=54 Identities=24% Similarity=0.400 Sum_probs=42.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~ 460 (1095)
..++||.|+||||||+.+..+++.-++++. ++++++.. ...+++.+++...+.+
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 467899999999999999998887776654 88888854 4666788887766553
No 183
>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=95.42 E-value=0.023 Score=63.68 Aligned_cols=50 Identities=22% Similarity=0.419 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
.+.+.|.++++.++. .++++|.||+||||||++..++..+.. ...+|+.+
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 367888888887775 578999999999999999988877643 22345543
No 184
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=95.41 E-value=0.035 Score=63.57 Aligned_cols=39 Identities=18% Similarity=0.318 Sum_probs=26.8
Q ss_pred CCEEEEECCCCCCchh--hhhhccccCceEEEecCcCCCCce
Q 001347 552 FRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPV 591 (1095)
Q Consensus 552 Fd~VIIDEAsQ~tE~e--~LIpL~~~~krlILVGD~~QLpPv 591 (1095)
=.+++|||.-..+..+ +++|.+ .+.-++|+|-.-.-|.+
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 3567899987766643 567765 35678999987764444
No 185
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.36 E-value=0.11 Score=66.36 Aligned_cols=62 Identities=19% Similarity=0.235 Sum_probs=43.5
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 392 N~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.+-|..+.-..+ .+ .+....-|+|||.+.+..++.....+ ..|+|+|||..-|.+..+.+..
T Consensus 80 ~~vQl~~~~~l~-~G-~Iaem~TGeGKTL~a~lp~~l~al~G-~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 80 YDVQLIGALVLH-EG-NIAEMQTGEGKTLTATMPLYLNALEG-KGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred chHHHHhHHHHc-CC-ceeeecCCCcchHHHHHHHHHHHHcC-CCeEEEeCCHHHHHHHHHHHHH
Confidence 345655555443 33 28999999999998765554333334 4899999999999888777654
No 186
>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=95.36 E-value=0.095 Score=54.47 Aligned_cols=59 Identities=15% Similarity=0.204 Sum_probs=41.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH----HHHHHHHHHHHhcCCcEEEecc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN----VAVDQLAEKISATGLKVVRLCA 466 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN----~AVD~L~eRL~~~gl~iVRlg~ 466 (1095)
.++..|..++|+|||+.+..+....+.++. +|+++=|-. ..=.++.+++ .++++.+.+.
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 367889999999999999999988888775 888844322 2223445555 2577777654
No 187
>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=95.35 E-value=0.035 Score=58.57 Aligned_cols=45 Identities=31% Similarity=0.519 Sum_probs=32.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
..-.+|.|+||||||++++.++..+++.+. +|+.+. +.+|.++|.
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 345789999999999999999999998664 777765 344555554
No 188
>PRK08116 hypothetical protein; Validated
Probab=95.32 E-value=0.056 Score=60.78 Aligned_cols=34 Identities=32% Similarity=0.419 Sum_probs=28.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
..+|+|+||||||+++.+++..|.+++ .+|+++.
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 378999999999999999999998874 3676665
No 189
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.31 E-value=0.026 Score=69.95 Aligned_cols=25 Identities=24% Similarity=0.339 Sum_probs=21.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|+.||||||||+++..++..|.-
T Consensus 39 AyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 39 AYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCC
Confidence 5699999999999998888877643
No 190
>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=0.021 Score=61.07 Aligned_cols=37 Identities=32% Similarity=0.562 Sum_probs=28.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
+++.+|.||+||||||++..++..+......+|+..-
T Consensus 1 ~GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 4688999999999999999888877655444565543
No 191
>PRK05973 replicative DNA helicase; Provisional
Probab=95.29 E-value=0.029 Score=61.92 Aligned_cols=53 Identities=19% Similarity=0.342 Sum_probs=43.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1095)
..++||.|+||+|||+.+..++...++++. ++++.+.--. .+++.+|+...++
T Consensus 64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge-~vlyfSlEes-~~~i~~R~~s~g~ 116 (237)
T PRK05973 64 GDLVLLGARPGHGKTLLGLELAVEAMKSGR-TGVFFTLEYT-EQDVRDRLRALGA 116 (237)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHHhcCC-eEEEEEEeCC-HHHHHHHHHHcCC
Confidence 568999999999999999999988887754 7888876554 5788888877654
No 192
>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=95.24 E-value=0.041 Score=57.07 Aligned_cols=34 Identities=38% Similarity=0.630 Sum_probs=27.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
+.++.|+||+|||+++..++..+.+.+. +|+++.
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 4689999999999999999988887754 665544
No 193
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.22 E-value=0.05 Score=66.86 Aligned_cols=24 Identities=25% Similarity=0.397 Sum_probs=20.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
..|+.||||+|||+++..++..|.
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 40 AYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 368999999999998887777664
No 194
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.20 E-value=0.038 Score=69.05 Aligned_cols=26 Identities=35% Similarity=0.579 Sum_probs=22.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
+..|+.||||||||+++..++..|.-
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhcC
Confidence 34699999999999999888887754
No 195
>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=95.17 E-value=0.015 Score=56.60 Aligned_cols=22 Identities=45% Similarity=0.800 Sum_probs=19.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
.||.||||||||+++..++..+
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 4899999999999998888765
No 196
>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=95.15 E-value=0.032 Score=55.82 Aligned_cols=41 Identities=24% Similarity=0.462 Sum_probs=32.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1095)
+++|.|+||||||+++..++..+...+. +|++........+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~-~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGG-KVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCC-EEEEEECCcchHH
Confidence 3689999999999999999988877544 7888777555443
No 197
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.06 E-value=0.035 Score=60.96 Aligned_cols=53 Identities=21% Similarity=0.392 Sum_probs=39.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1095)
..+++|.|+||||||+++..++..+++.+. +++.++..... +++.+.+.+.+.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~-~~~yi~~e~~~-~~~~~~~~~~g~ 76 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNGY-SVSYVSTQLTT-TEFIKQMMSLGY 76 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEeCCCCH-HHHHHHHHHhCC
Confidence 568999999999999999999888887764 77777755443 555555554443
No 198
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=95.06 E-value=0.038 Score=59.94 Aligned_cols=54 Identities=20% Similarity=0.334 Sum_probs=44.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~ 460 (1095)
..+++|.|+||+|||+.+..+++..++++. +++.++... ..+++.+++...+.+
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~-~~~y~s~e~-~~~~l~~~~~~~~~~ 69 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGE-KAMYISLEE-REERILGYAKSKGWD 69 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCC-eEEEEECCC-CHHHHHHHHHHcCCC
Confidence 457899999999999999999888777754 888887765 578888888776554
No 199
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.06 E-value=0.062 Score=67.24 Aligned_cols=26 Identities=23% Similarity=0.385 Sum_probs=21.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
..|+.||+|+|||+++..++..|.-.
T Consensus 40 a~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 40 AYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhccc
Confidence 46999999999999998888776543
No 200
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=95.05 E-value=0.044 Score=67.81 Aligned_cols=26 Identities=31% Similarity=0.415 Sum_probs=21.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
...|+.||+|||||+++..++..+.-
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~c 64 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVNC 64 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35788999999999999888777653
No 201
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.04 E-value=0.2 Score=65.74 Aligned_cols=149 Identities=18% Similarity=0.266 Sum_probs=87.3
Q ss_pred CCCHHHHHHHHHHhc---CC-cEEEECCCCCcHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc--CCcE
Q 001347 390 ELNASQVFAVKSVLQ---RP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~-lsLIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AVD~L~eRL~~~--gl~i 461 (1095)
.|=+.|.++|.-++. ++ -.|+-=-.|.|||..+..++.+|... ...++||++|....- +-.+-+.+. .+++
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL~-nW~~Ei~kw~p~l~v 247 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTLG-NWMNEIRRFCPVLRA 247 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHHH-HHHHHHHHHCCCCce
Confidence 577899999988763 33 35666679999999988888877653 235899999986644 444434432 1233
Q ss_pred EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccc
Q 001347 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVG 541 (1095)
Q Consensus 462 VRlg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~ 541 (1095)
+.+.....+ ...+. . ........+||++|...
T Consensus 248 ~~~~G~~~e-------------------------R~~~~-----------------~------~~~~~~~~dVvITSYe~ 279 (1033)
T PLN03142 248 VKFHGNPEE-------------------------RAHQR-----------------E------ELLVAGKFDVCVTSFEM 279 (1033)
T ss_pred EEEeCCHHH-------------------------HHHHH-----------------H------HHhcccCCCcceecHHH
Confidence 322111000 00000 0 00001234566555443
Q ss_pred cCC--ccccCCCCCEEEEECCCCCCchhhhhh----ccccCceEEEecCcCC
Q 001347 542 AGD--PRLANFRFRQVLIDESTQATEPECLIP----LVLGAKQVVLVGDHCQ 587 (1095)
Q Consensus 542 a~~--~~L~~~~Fd~VIIDEAsQ~tE~e~LIp----L~~~~krlILVGD~~Q 587 (1095)
+.. ..+....|++||||||..+--....+. ......+++|-|=|-|
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 202
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.04 E-value=0.034 Score=62.55 Aligned_cols=35 Identities=34% Similarity=0.602 Sum_probs=29.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEE
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1095)
+++.||.||-|||||||++++|.++-+.....||-
T Consensus 125 ~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlT 159 (353)
T COG2805 125 RGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILT 159 (353)
T ss_pred CceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEE
Confidence 78999999999999999999999887765544443
No 203
>PRK09183 transposase/IS protein; Provisional
Probab=95.00 E-value=0.054 Score=60.58 Aligned_cols=53 Identities=23% Similarity=0.379 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHH--h-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 388 LPELNASQVFAVKSV--L-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~a--L-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
.+.+|..|...+... + ....++|.||||||||+++..+...+...+. +|+.+.
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 457888887777543 1 2456889999999999999998777666553 777654
No 204
>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=94.94 E-value=0.035 Score=61.97 Aligned_cols=39 Identities=23% Similarity=0.319 Sum_probs=33.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1095)
..+++|.|+||||||+.+..++...++++. +++.++.-.
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge-~vlyis~Ee 74 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGN-PVLFVTVES 74 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCC-cEEEEEecC
Confidence 568999999999999999999988887754 888888753
No 205
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=94.94 E-value=0.33 Score=58.11 Aligned_cols=79 Identities=20% Similarity=0.245 Sum_probs=56.8
Q ss_pred CCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHH-HHHHHHHHHHHHcC----------CCcEEEEcCcHHHHHHHHHHHH
Q 001347 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKT-VTSAAIVYHMAKQG----------QGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 387 ~~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKT-tTla~iI~~Llk~~----------~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
+...-++-|+.||=-.++++-.|-.+-.||||| -.+.-++.++...+ ...-+++|||...+.+|-+-..
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 344567899999998888888888899999999 34444444444332 2367899999999999987654
Q ss_pred h----cCCcEEEec
Q 001347 456 A----TGLKVVRLC 465 (1095)
Q Consensus 456 ~----~gl~iVRlg 465 (1095)
+ .++++|++.
T Consensus 344 kf~~~lg~r~vsvi 357 (673)
T KOG0333|consen 344 KFGKPLGIRTVSVI 357 (673)
T ss_pred HhcccccceEEEEe
Confidence 4 356666653
No 206
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=94.93 E-value=0.05 Score=62.71 Aligned_cols=50 Identities=20% Similarity=0.401 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEE
Q 001347 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLV 439 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV 439 (1095)
.+++.|.+.+..++. +...||.|++||||||++.+++..+... +..+|++
T Consensus 128 ~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 467888888887776 4567899999999999999988877654 2335544
No 207
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=94.89 E-value=0.072 Score=68.07 Aligned_cols=47 Identities=17% Similarity=0.242 Sum_probs=35.6
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+.+.+.|+|||.+.+.-++..+..+. .|+|+|||..-|.+..+-+..
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~al~G~-~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNAISGR-GVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred cccccCCCCchHHHHHHHHHHHhcCC-CEEEEcCCHHHHHHHHHHHHH
Confidence 56779999999987655543333343 799999999998888877654
No 208
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=94.87 E-value=0.062 Score=62.74 Aligned_cols=26 Identities=27% Similarity=0.523 Sum_probs=22.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
..||.||+|+|||+++..++..|+..
T Consensus 47 a~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 47 ALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred eEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 48999999999999999998888763
No 209
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=94.86 E-value=0.053 Score=62.45 Aligned_cols=53 Identities=26% Similarity=0.324 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcC
Q 001347 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~Ap 442 (1095)
.+++.|.+.+..++. +...+|.|++||||||++.+++..+... +..+|+++-.
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd 186 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIED 186 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcC
Confidence 367788888887765 6678999999999999999988776543 3346665443
No 210
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.85 E-value=0.14 Score=59.30 Aligned_cols=57 Identities=30% Similarity=0.465 Sum_probs=45.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHH--HHHHHHHHHhcCCcEE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVA--VDQLAEKISATGLKVV 462 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~A--VD~L~eRL~~~gl~iV 462 (1095)
.+.++.|--|+|||||+..+++++-+++.+.-||||-|=.| -|+|..--.+.+++++
T Consensus 102 sVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~y 160 (483)
T KOG0780|consen 102 SVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFY 160 (483)
T ss_pred cEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeE
Confidence 36778999999999999999999999988889999888664 5777665555545443
No 211
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.82 E-value=0.054 Score=69.57 Aligned_cols=25 Identities=28% Similarity=0.468 Sum_probs=21.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
.+|+.||+|||||+++..+++.|.-
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 4689999999999999888877753
No 212
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.79 E-value=0.064 Score=61.38 Aligned_cols=58 Identities=28% Similarity=0.347 Sum_probs=43.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH--HHHHHHHHHHHhcCCcEEEe
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVVRL 464 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN--~AVD~L~eRL~~~gl~iVRl 464 (1095)
+.|+.|..|+|||||+..++++|.+++.+-+|+.+-|= .|+++|..--.+.+.+++.-
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 46889999999999999999999988874444454454 45677776656677777653
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=94.78 E-value=0.14 Score=64.68 Aligned_cols=61 Identities=21% Similarity=0.203 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 393 ~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+-|..+....+ .+. +.+...|+|||.+.+..++.....+ ..|+|+|||..-|.+..+-+..
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 35555544433 333 8899999999987654443222234 4899999999999888876654
No 214
>PRK06893 DNA replication initiation factor; Validated
Probab=94.77 E-value=0.082 Score=57.88 Aligned_cols=36 Identities=19% Similarity=0.263 Sum_probs=28.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
++..+|+||||||||+.+..+...+.+++. +++.+.
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 555444
No 215
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.76 E-value=0.052 Score=59.32 Aligned_cols=55 Identities=31% Similarity=0.512 Sum_probs=43.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcE
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKV 461 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~i 461 (1095)
..+++|.|+||||||+.+..+++..++++. +++.++.... .+.+.+++...++++
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~-~~~y~~~e~~-~~~~~~~~~~~g~~~ 79 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQGK-KVYVITTENT-SKSYLKQMESVKIDI 79 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCCC-EEEEEEcCCC-HHHHHHHHHHCCCCh
Confidence 567999999999999999999888777654 8888888754 467777777766543
No 216
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=94.75 E-value=0.054 Score=55.99 Aligned_cols=41 Identities=24% Similarity=0.436 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhc------CCcEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001347 393 ASQVFAVKSVLQ------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 393 ~sQ~~AV~~aL~------~~lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
++|.+.+...+. ....+|.|++|+|||+++.++...+.+.+
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 355666666661 46789999999999999999888887764
No 217
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.74 E-value=0.095 Score=66.36 Aligned_cols=53 Identities=28% Similarity=0.351 Sum_probs=36.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH-cCCCcEEEEc-CcHH--HHHHHHHHHHhcC
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCA-PSNV--AVDQLAEKISATG 458 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~A-pSN~--AVD~L~eRL~~~g 458 (1095)
.++++.||.|+|||||++.+...+.. .+..+|++++ .+-. |++++..-....+
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~g 242 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILG 242 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCC
Confidence 47889999999999999999987754 4444775554 3443 5566655433333
No 218
>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=94.73 E-value=0.058 Score=61.60 Aligned_cols=52 Identities=25% Similarity=0.365 Sum_probs=39.5
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001347 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1095)
.+++.|.+.+..++. +...+|.||+||||||++..++..+.+. +..+|+++-
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 5678999999999999999988777654 344666644
No 219
>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=94.73 E-value=0.14 Score=60.62 Aligned_cols=29 Identities=24% Similarity=0.267 Sum_probs=22.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHH-HHHcC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYH-MAKQG 433 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~-Llk~~ 433 (1095)
+-..++.||+|||||++..++..+ .+..+
T Consensus 209 ~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 209 NYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred CCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 456889999999999999887665 44443
No 220
>PRK10867 signal recognition particle protein; Provisional
Probab=94.72 E-value=0.06 Score=64.44 Aligned_cols=55 Identities=29% Similarity=0.408 Sum_probs=38.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEE-EEcCcHH--HHHHHHHHHHhcCCcEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVL-VCAPSNV--AVDQLAEKISATGLKVV 462 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rIL-V~ApSN~--AVD~L~eRL~~~gl~iV 462 (1095)
+.++.|++|+|||||++.++.+|.+. +. +|+ |.+-+.. |+++|.......+++++
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~-kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~ 160 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKK-KVLLVAADVYRPAAIEQLKTLGEQIGVPVF 160 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCC-cEEEEEccccchHHHHHHHHHHhhcCCeEE
Confidence 56789999999999999999999887 54 555 5555544 34566544444555544
No 221
>PRK04328 hypothetical protein; Provisional
Probab=94.72 E-value=0.049 Score=60.48 Aligned_cols=54 Identities=26% Similarity=0.447 Sum_probs=41.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~ 460 (1095)
..++||.|+||||||+....+++.-++++. ++++++...... .+.+++...+.+
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge-~~lyis~ee~~~-~i~~~~~~~g~d 76 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE-PGVYVALEEHPV-QVRRNMRQFGWD 76 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEEeeCCHH-HHHHHHHHcCCC
Confidence 567899999999999999999888777765 788887655444 477777666543
No 222
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.72 E-value=0.062 Score=64.10 Aligned_cols=68 Identities=19% Similarity=0.262 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHHcC-----------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~~-----------~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..++-|+.+|..+....=.++.|+-|+|||.. +.=++.++.+.+ ..++|++|||+..|+++.++..+.
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 56788999998888766679999999999974 445666666652 248999999999999999987664
No 223
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.71 E-value=0.02 Score=64.65 Aligned_cols=27 Identities=37% Similarity=0.679 Sum_probs=23.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
+++.|++||||||||+...+++..|.-
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLSI 203 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLSI 203 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhhee
Confidence 789999999999999998888777643
No 224
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=94.69 E-value=0.16 Score=59.81 Aligned_cols=49 Identities=27% Similarity=0.351 Sum_probs=35.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHH-HcCCCcEEEEcC---cHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCAP---SNVAVDQLAEK 453 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Ll-k~~~~rILV~Ap---SN~AVD~L~eR 453 (1095)
.++..+.||-|-|||||++.+++... ..++.+|-+++- ---|+.+|..-
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Y 255 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTY 255 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHH
Confidence 57889999999999999999998887 445557766542 22355555443
No 225
>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=94.67 E-value=0.091 Score=65.30 Aligned_cols=48 Identities=25% Similarity=0.458 Sum_probs=41.3
Q ss_pred hcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 403 LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 403 L~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
|.-...||.|-+|+|||+.|..+...| .-||+.-|..|+.||..+|..
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 334568999999999999998777655 789999999999999999984
No 226
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.64 E-value=0.1 Score=63.31 Aligned_cols=24 Identities=29% Similarity=0.436 Sum_probs=20.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
..|++||||||||+++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 37 SILLVGASGVGKTTCARIISLCLN 60 (491)
T ss_pred eEEEECCCCccHHHHHHHHHHHHc
Confidence 579999999999998877776654
No 227
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.61 E-value=0.05 Score=57.12 Aligned_cols=52 Identities=31% Similarity=0.520 Sum_probs=38.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..+++|.||||+|||+++..++..++.. .+.+||++..-+. ..++.+|+...
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 6789999999999999999999988852 3458999988777 55677777653
No 228
>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=94.60 E-value=0.078 Score=61.74 Aligned_cols=27 Identities=22% Similarity=0.420 Sum_probs=22.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
+.+.+|.||||||||+++..++..|-.
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 467899999999999998888777644
No 229
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.58 E-value=0.079 Score=65.82 Aligned_cols=38 Identities=18% Similarity=0.253 Sum_probs=26.7
Q ss_pred HHHHHHHHHhcC----CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 394 SQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 394 sQ~~AV~~aL~~----~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
...+.+..++.. ...|+.||+|||||+++..++..|.-
T Consensus 23 ~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 23 HVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 334444444432 34689999999999999888877653
No 230
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.58 E-value=0.26 Score=58.30 Aligned_cols=56 Identities=29% Similarity=0.472 Sum_probs=40.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc--HHHHHHHHHHHHhcCCcEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS--NVAVDQLAEKISATGLKVV 462 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS--N~AVD~L~eRL~~~gl~iV 462 (1095)
+.+..|-=|+|||||+..++++|.+++.+..||+|-+ -.|.|+|..--.+.++++.
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 3567899999999999999999999766445555554 4466777665445555544
No 231
>PRK09694 helicase Cas3; Provisional
Probab=94.56 E-value=0.1 Score=67.41 Aligned_cols=67 Identities=19% Similarity=0.371 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..++-|+.+.......++++|.+|-|+|||..+...+..|+.. ...+|+++.||...++.|.+|+.+
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 345999999999999999999875
No 232
>PRK10436 hypothetical protein; Provisional
Probab=94.51 E-value=0.052 Score=65.51 Aligned_cols=41 Identities=29% Similarity=0.510 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHH
Q 001347 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
.|.+.|.+.++.++. +++.||.||.|||||||+..++.++.
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~ 243 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLN 243 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhC
Confidence 467788888888764 78999999999999999988877654
No 233
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=94.46 E-value=0.2 Score=62.18 Aligned_cols=36 Identities=25% Similarity=0.133 Sum_probs=28.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1095)
+..+|.|++|||||+++.++...+.+. ...+|+.+.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit 351 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS 351 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence 347999999999999999999888764 334666655
No 234
>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=94.46 E-value=0.12 Score=55.74 Aligned_cols=50 Identities=18% Similarity=0.235 Sum_probs=34.7
Q ss_pred CCHHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 391 LNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~---~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
-|..-.++++..+. ....+|.||||||||+++..+...+.+.+. +++.+.
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 457899999999999999988887765543 555544
No 235
>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=94.45 E-value=0.047 Score=66.38 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHH
Q 001347 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
.+++.|.+.++.++. .++++|.||.|||||||+..++..+.
T Consensus 225 g~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~ 267 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLN 267 (486)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccC
Confidence 468899999988775 57899999999999999988776654
No 236
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=94.45 E-value=0.11 Score=56.43 Aligned_cols=51 Identities=18% Similarity=0.208 Sum_probs=36.8
Q ss_pred CCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
.-|.....+++.... ....+|.|+||||||+.+..+..++...+. ++.++.
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 444443
No 237
>PF05729 NACHT: NACHT domain
Probab=94.42 E-value=0.037 Score=55.92 Aligned_cols=28 Identities=25% Similarity=0.501 Sum_probs=25.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
++.+|.|+||+|||+++..++..+....
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 3679999999999999999999888774
No 238
>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=94.41 E-value=0.066 Score=59.62 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=41.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..+++|.|+||+|||+++..++..++.....+|++++.-. ..+++..|+..
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 5689999999999999999999888877345899988755 44667777654
No 239
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=94.39 E-value=0.1 Score=67.57 Aligned_cols=66 Identities=24% Similarity=0.300 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+|++.|++|+..+....-++|.+|-|+|||.+.-..++.-++.++ ++..++|...-.++....+..
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 799999988888776666543
No 240
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.36 E-value=0.11 Score=66.11 Aligned_cols=36 Identities=22% Similarity=0.445 Sum_probs=24.5
Q ss_pred CCCEEEEECCCCCCchh--hhhhccccCceEEEecCcCC
Q 001347 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQ 587 (1095)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e--~LIpL~~~~krlILVGD~~Q 587 (1095)
+..+|||||+...+..+ .|++.. ...+++++|+...
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 3467889987643
No 241
>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=94.36 E-value=0.068 Score=62.05 Aligned_cols=41 Identities=22% Similarity=0.347 Sum_probs=31.1
Q ss_pred CHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 392 N~sQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
-+.|.+.+...+. .+..+|.||||||||+++..++.++...
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 3566666666553 2578999999999999999988887543
No 242
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.34 E-value=0.06 Score=64.58 Aligned_cols=42 Identities=26% Similarity=0.430 Sum_probs=36.4
Q ss_pred CCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 391 LNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
+++.|.+.+..++. .++.|+.||-|||||||+-..+..+...
T Consensus 242 ~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~ 285 (500)
T COG2804 242 MSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTP 285 (500)
T ss_pred CCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence 48889999999887 5789999999999999999888777554
No 243
>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=94.33 E-value=0.096 Score=62.65 Aligned_cols=57 Identities=32% Similarity=0.448 Sum_probs=38.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH-cCCCcEEEEcCcHH--HHHHHHHHHHhcCCcEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNV--AVDQLAEKISATGLKVVR 463 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~ApSN~--AVD~L~eRL~~~gl~iVR 463 (1095)
+.++.|++|+|||||++.++.++.. .+..-.||.+-+.. |.++|.......++++..
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 45433445555554 455555544445555443
No 244
>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=94.33 E-value=0.054 Score=65.86 Aligned_cols=54 Identities=22% Similarity=0.311 Sum_probs=43.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~ 460 (1095)
..++||.||||||||+++...++..++++. ++|++++ -...+++.+|....+++
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 457999999999999999999999988765 8888885 45566788887776653
No 245
>PRK08727 hypothetical protein; Validated
Probab=94.30 E-value=0.21 Score=54.92 Aligned_cols=35 Identities=26% Similarity=0.358 Sum_probs=29.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
...+|.||+|||||+.+.++...+.+.+. +++.+.
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 46899999999999999999988877654 776665
No 246
>PRK06851 hypothetical protein; Provisional
Probab=94.29 E-value=0.034 Score=64.97 Aligned_cols=48 Identities=27% Similarity=0.441 Sum_probs=40.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCC-CcEEEEcCcHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAE 452 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~-~rILV~ApSN~AVD~L~e 452 (1095)
..+++|.|+||||||+++..++..+.+.+. -..+.|+..|.++|-|.-
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvii 78 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVII 78 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEEe
Confidence 678999999999999999999999887653 247889999989886543
No 247
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=94.29 E-value=0.1 Score=61.89 Aligned_cols=26 Identities=31% Similarity=0.595 Sum_probs=21.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
-.|++||||+|||+++..++..|.-.
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 248
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=94.29 E-value=0.084 Score=66.53 Aligned_cols=25 Identities=32% Similarity=0.464 Sum_probs=20.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|+.||+|||||+++..++..|.-
T Consensus 42 AYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 42 AYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhcc
Confidence 4689999999999999888776653
No 249
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=94.28 E-value=0.06 Score=58.55 Aligned_cols=27 Identities=37% Similarity=0.645 Sum_probs=23.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
-+..+|.|||||||||.+..++..|+-
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 356899999999999999988887764
No 250
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.26 E-value=0.063 Score=59.75 Aligned_cols=44 Identities=34% Similarity=0.628 Sum_probs=37.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ 449 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~ 449 (1095)
..++||.|+||||||+.+.+.+...++.+. +++.++..-.+.+-
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge-~vlyvs~~e~~~~l 66 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREGE-PVLYVSTEESPEEL 66 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcCC-cEEEEEecCCHHHH
Confidence 678999999999999999999999998855 88888876655543
No 251
>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=94.26 E-value=0.061 Score=65.43 Aligned_cols=55 Identities=18% Similarity=0.237 Sum_probs=43.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~ 460 (1095)
...+||.|+||||||+.+..+++.-+++...++|.+++- ...+++.+...+.+++
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 567999999999999999999887666633488888875 5667788877776653
No 252
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.23 E-value=0.15 Score=62.55 Aligned_cols=58 Identities=19% Similarity=0.359 Sum_probs=43.5
Q ss_pred HHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 399 VKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 399 V~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+..+-.+.+.+|.|.-|+||||=+-..++..--...++|.++=|-..||-.++.|+..
T Consensus 60 l~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAe 117 (674)
T KOG0922|consen 60 LYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAE 117 (674)
T ss_pred HHHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHH
Confidence 3344458999999999999999776544322112334699999999999999999875
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=94.21 E-value=0.039 Score=53.43 Aligned_cols=23 Identities=30% Similarity=0.761 Sum_probs=19.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+.+|.|+|||||||++..+...+
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 36899999999999988877665
No 254
>PRK06921 hypothetical protein; Provisional
Probab=94.21 E-value=0.13 Score=57.87 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=30.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1095)
....+++|+||||||+++.+++..++++....|+.++.
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 255
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=94.20 E-value=0.098 Score=70.61 Aligned_cols=47 Identities=17% Similarity=0.399 Sum_probs=36.4
Q ss_pred EECCCCCcHHHHHHH-HHHHHHHcC-----------CCcEEEEcCcHHHHHHHHHHHHh
Q 001347 410 IQGPPGTGKTVTSAA-IVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 410 IqGPPGTGKTtTla~-iI~~Llk~~-----------~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
|.+|.|||||.+..- ++..|++.. ..++|+++|+..-+.++.++|..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 568999999998754 666666531 34899999999999888887753
No 256
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=94.19 E-value=0.38 Score=59.74 Aligned_cols=58 Identities=16% Similarity=0.093 Sum_probs=46.3
Q ss_pred HHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 399 VKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 399 V~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+-....++.+++.-|==.|||.+++.+|..++.. ...+|+++|+..+.++.+.++|..
T Consensus 248 ~~~~fkqk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~ 306 (738)
T PHA03368 248 AVRHFRQRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGA 306 (738)
T ss_pred HHHHhhccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHH
Confidence 3344557889999999999999998766655544 456999999999999988888765
No 257
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.18 E-value=0.098 Score=60.54 Aligned_cols=36 Identities=31% Similarity=0.412 Sum_probs=30.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
....++.|++|||||+++.+++..+++.+. +|+.++
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 466899999999999999999999988765 676665
No 258
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=94.05 E-value=0.11 Score=60.15 Aligned_cols=26 Identities=23% Similarity=0.451 Sum_probs=22.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
..|+.||+|+|||+++..++..|+-.
T Consensus 24 a~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 24 AYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred eeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 47899999999999999999887754
No 259
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=94.04 E-value=0.29 Score=63.79 Aligned_cols=73 Identities=25% Similarity=0.341 Sum_probs=56.6
Q ss_pred CCCHHHHHHHHHHhc---C-Cc--EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHH----HHHHHHhcCC
Q 001347 390 ELNASQVFAVKSVLQ---R-PI--SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ----LAEKISATGL 459 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~-~l--sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~----L~eRL~~~gl 459 (1095)
+-+++|..||+.+.. + .+ -||+|--|=|||-++...+...+..+ ++|.|++||-.-|++ +.+|.....+
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 679999999999875 2 22 49999999999999988887777666 499999999999875 5555555555
Q ss_pred cEEE
Q 001347 460 KVVR 463 (1095)
Q Consensus 460 ~iVR 463 (1095)
+|-.
T Consensus 673 ~I~~ 676 (1139)
T COG1197 673 RIEV 676 (1139)
T ss_pred eEEE
Confidence 4433
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=94.03 E-value=0.087 Score=57.20 Aligned_cols=53 Identities=21% Similarity=0.409 Sum_probs=38.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1095)
..+++|.|+||||||+++..++...++.+. +++.++. ...++++.++....++
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 567899999999999999998877776654 6666665 3334566666555443
No 261
>PRK14873 primosome assembly protein PriA; Provisional
Probab=93.99 E-value=0.21 Score=63.03 Aligned_cols=48 Identities=27% Similarity=0.333 Sum_probs=42.1
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
++.+.+|+|||.+...++...+..++ .+||+.|.-.-+.++.+|+.+.
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 262
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=93.97 E-value=0.19 Score=62.97 Aligned_cols=47 Identities=30% Similarity=0.341 Sum_probs=35.5
Q ss_pred EEEECCC-----CCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001347 408 SLIQGPP-----GTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 408 sLIqGPP-----GTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
.|.+|-= |.|||.|++..++..+..+. .|-|+|+|.-.|.+=.+.+.
T Consensus 89 ~Ll~G~VaEM~TGEGKTLvA~l~a~l~AL~G~-~VhvvT~NdyLA~RDae~m~ 140 (764)
T PRK12326 89 RLLAGDVIEMATGEGKTLAGAIAAAGYALQGR-RVHVITVNDYLARRDAEWMG 140 (764)
T ss_pred HHhCCCcccccCCCCHHHHHHHHHHHHHHcCC-CeEEEcCCHHHHHHHHHHHH
Confidence 4556766 99999998877765555554 89999999988876666554
No 263
>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=93.96 E-value=0.082 Score=56.51 Aligned_cols=39 Identities=33% Similarity=0.568 Sum_probs=31.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1095)
..+++|.||||||||+.+..++....+.+. +++.++..+
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 567999999999999999999988887754 666665543
No 264
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=93.95 E-value=0.45 Score=50.90 Aligned_cols=40 Identities=15% Similarity=0.290 Sum_probs=34.6
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001347 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1095)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1095)
..+..+|.+++|+|||+.+..++...+..+. +|+++=|-.
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 4789999999999999999999988888876 899886643
No 265
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.83 E-value=0.11 Score=60.99 Aligned_cols=56 Identities=23% Similarity=0.337 Sum_probs=41.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcE-EEEcCcH--HHHHHHHHHHHhcCCcE
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKV 461 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rI-LV~ApSN--~AVD~L~eRL~~~gl~i 461 (1095)
..+.+|.||.|+|||||++.+...+.+++. +| +|++-+- .|++++.......++.+
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 457889999999999999999988877765 55 4555555 35778877665555543
No 266
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=93.82 E-value=0.1 Score=56.98 Aligned_cols=50 Identities=24% Similarity=0.284 Sum_probs=39.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
..+++|.|+||+|||+.+..++.+++.+...+||.++.-.... ++.+|+.
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 4589999999999999999999999887445999998766544 4555553
No 267
>PLN03025 replication factor C subunit; Provisional
Probab=93.80 E-value=0.079 Score=60.85 Aligned_cols=40 Identities=30% Similarity=0.532 Sum_probs=28.8
Q ss_pred CHHHHHHHHHHhcC---CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 392 N~sQ~~AV~~aL~~---~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
|+...+.++.++.. +..|++||||||||+++..++..+..
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~ 60 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG 60 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhc
Confidence 34445555554442 45789999999999999988887753
No 268
>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=93.79 E-value=0.085 Score=65.38 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+.+.|.+.+..++. +++.||.||.|||||||+..++..+
T Consensus 299 g~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 467888888888765 6899999999999999998887765
No 269
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=93.79 E-value=0.15 Score=61.13 Aligned_cols=62 Identities=24% Similarity=0.281 Sum_probs=51.5
Q ss_pred CHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 392 NASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 392 N~sQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..+|-+||+.... ...-.+.|.-|||||.|++.+|..+ +.+.||+|++...|.+|..-+++.
T Consensus 14 aGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~----~rPtLV~AhNKTLAaQLy~Efk~f 80 (663)
T COG0556 14 AGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV----QRPTLVLAHNKTLAAQLYSEFKEF 80 (663)
T ss_pred CCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh----CCCeEEEecchhHHHHHHHHHHHh
Confidence 3468888888764 3467899999999999999888765 348999999999999999988875
No 270
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.74 E-value=0.088 Score=64.15 Aligned_cols=53 Identities=23% Similarity=0.424 Sum_probs=39.8
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHHH-HHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 404 QRPISLIQGPPGTGKTVTSAAIVYHM-AKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~L-lk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.+.+.+|.|-+||||||-|=..++.- ...+.++|-++-|-..||-.++.|+.+
T Consensus 279 e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~ 332 (902)
T KOG0923|consen 279 EHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAE 332 (902)
T ss_pred hCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHH
Confidence 37889999999999999765433221 112344688888999999999999875
No 271
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=93.72 E-value=0.079 Score=52.81 Aligned_cols=22 Identities=41% Similarity=0.732 Sum_probs=19.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
++|.||||||||+++..+...+
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 6899999999999998888776
No 272
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=93.68 E-value=0.16 Score=62.21 Aligned_cols=25 Identities=24% Similarity=0.336 Sum_probs=21.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|+.||||||||+++..++..|..
T Consensus 38 ayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 38 AYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred eEEEECCCCCcHHHHHHHHHHHhcC
Confidence 4589999999999999988888764
No 273
>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=93.66 E-value=0.084 Score=56.88 Aligned_cols=36 Identities=33% Similarity=0.546 Sum_probs=30.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
..+++|.|+||||||+++..++..+.+++. ++++++
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 274
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.64 E-value=0.16 Score=60.35 Aligned_cols=35 Identities=26% Similarity=0.446 Sum_probs=27.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHH-HcCCCcEEEEc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCA 441 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Ll-k~~~~rILV~A 441 (1095)
.+.+|.||+|+|||||++.++..+. ..+ .+|++++
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G-~~V~Lit 259 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMG-KSVSLYT 259 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcC-CeEEEec
Confidence 4578999999999999999997664 444 3665554
No 275
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=93.60 E-value=0.014 Score=73.91 Aligned_cols=64 Identities=33% Similarity=0.435 Sum_probs=53.2
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHH
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAE 452 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AVD~L~e 452 (1095)
+.-++.|..|...++...++++.|+||||||++++.++..+++. ...+|..++++++++....+
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 45578999999999989999999999999999999999888873 23478888888877766655
No 276
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=93.60 E-value=0.14 Score=60.25 Aligned_cols=41 Identities=32% Similarity=0.432 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001347 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 393 ~sQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
+.|.+.+...+. .+..+|.||||||||+++..++..+....
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 277
>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=93.60 E-value=0.06 Score=60.03 Aligned_cols=27 Identities=26% Similarity=0.380 Sum_probs=21.9
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
...++.||||||||+++..+...+...
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~~ 69 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKEM 69 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence 347899999999999998887776543
No 278
>KOG4284 consensus DEAD box protein [Transcription]
Probab=93.52 E-value=0.07 Score=64.75 Aligned_cols=68 Identities=18% Similarity=0.284 Sum_probs=50.5
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHH-HHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001347 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY-HMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (1095)
Q Consensus 392 N~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~-~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1095)
+.-|..||-.++..==.+||+-.|||||-+-+.++. .|.-+ ....++|++||..-+-++.+-+...+.
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 567889998887766679999999999976544433 33222 345899999999998888887766543
No 279
>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=93.51 E-value=0.084 Score=59.04 Aligned_cols=25 Identities=28% Similarity=0.416 Sum_probs=21.0
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHH
Q 001347 404 QRPISLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~ 428 (1095)
.+...+|.||||||||+++..+...
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~~ 44 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVARK 44 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 3667899999999999998877653
No 280
>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=93.50 E-value=0.049 Score=54.19 Aligned_cols=22 Identities=27% Similarity=0.691 Sum_probs=18.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~ 428 (1095)
++++.|||||||||++..+...
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 4789999999999998766544
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=93.45 E-value=0.1 Score=55.22 Aligned_cols=40 Identities=25% Similarity=0.300 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+++.|.+.++.++. ...++|.||+|+||||++..++..+
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 477889999988876 5678999999999999998766543
No 282
>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=93.45 E-value=0.1 Score=60.13 Aligned_cols=40 Identities=20% Similarity=0.259 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.++++-..+|...+. ++..+|.||||||||+++..++..|
T Consensus 48 ~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 48 LFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 467777777777764 6779999999999999988777665
No 283
>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=93.39 E-value=0.13 Score=46.71 Aligned_cols=33 Identities=33% Similarity=0.561 Sum_probs=28.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
.+|.|.+|+|||+++..++..|.+.+. +++++.
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 578899999999999999999988654 888776
No 284
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=93.38 E-value=0.65 Score=58.72 Aligned_cols=67 Identities=19% Similarity=0.240 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHh
Q 001347 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.+++.|.+|++.... ....+|++.=|=|||..+--.++.+.... ..+|+|+|||-.+++.|.+-+.+
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 578899998876532 44889999999999998864444444443 45999999999999999886543
No 285
>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=93.37 E-value=0.16 Score=59.76 Aligned_cols=36 Identities=25% Similarity=0.423 Sum_probs=28.8
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEE
Q 001347 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLV 439 (1095)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV 439 (1095)
.++++||.||+||||||++..++.++.+.. ..+|+.
T Consensus 148 ~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 148 AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 378999999999999999999998887643 334544
No 286
>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=93.36 E-value=0.079 Score=61.65 Aligned_cols=37 Identities=30% Similarity=0.617 Sum_probs=29.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
.++.+|.||+|+|||||+..++..+.+....+|+.+-
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 287
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.36 E-value=0.23 Score=58.94 Aligned_cols=44 Identities=32% Similarity=0.395 Sum_probs=35.0
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc---CcHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA---PSNVAVDQLAE 452 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A---pSN~AVD~L~e 452 (1095)
+.+.|.-|-||+|.++.|.+||+.++- +|||.| |---|+++|+-
T Consensus 381 i~fvGVNGVGKSTNLAKIayWLlqNkf-rVLIAACDTFRsGAvEQLrt 427 (587)
T KOG0781|consen 381 ISFVGVNGVGKSTNLAKIAYWLLQNKF-RVLIAACDTFRSGAVEQLRT 427 (587)
T ss_pred EEEEeecCccccchHHHHHHHHHhCCc-eEEEEeccchhhhHHHHHHH
Confidence 457899999999999999999988764 898875 34456777653
No 288
>PRK05642 DNA replication initiation factor; Validated
Probab=93.32 E-value=0.25 Score=54.35 Aligned_cols=35 Identities=14% Similarity=0.317 Sum_probs=27.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
+..+|+||+|||||+.+..+..++.+.+. +|+.+.
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 46789999999999999888877766543 666655
No 289
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=93.18 E-value=0.12 Score=56.16 Aligned_cols=38 Identities=34% Similarity=0.569 Sum_probs=31.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1095)
..+++|.|+||||||+++..++...++.+. +++.+..-
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 66666544
No 290
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.06 E-value=0.73 Score=51.98 Aligned_cols=54 Identities=24% Similarity=0.392 Sum_probs=37.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC-cH--HHHHHHHHHHHhcCCc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP-SN--VAVDQLAEKISATGLK 460 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap-SN--~AVD~L~eRL~~~gl~ 460 (1095)
...++.|++|+|||+++..+...+...+. +|.+++. +. .+++++.......+++
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 57899999999999999999888766544 5555443 43 3666666654444433
No 291
>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=93.03 E-value=0.066 Score=58.48 Aligned_cols=33 Identities=21% Similarity=0.418 Sum_probs=20.2
Q ss_pred CCEEEEECCCCCCch--hhhhhccccCceE-EEecCc
Q 001347 552 FRQVLIDESTQATEP--ECLIPLVLGAKQV-VLVGDH 585 (1095)
Q Consensus 552 Fd~VIIDEAsQ~tE~--e~LIpL~~~~krl-ILVGD~ 585 (1095)
-++++|||....+.. +.|.|.+- ..++ |++|--
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 468899999988874 46666654 3444 667754
No 292
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=93.01 E-value=0.28 Score=56.57 Aligned_cols=44 Identities=14% Similarity=0.205 Sum_probs=31.5
Q ss_pred CCCEEEEECCCCCCchh--hhhhccc---cCceEEEecC-cCCCCceeec
Q 001347 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGD-HCQLGPVIMC 594 (1095)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e--~LIpL~~---~~krlILVGD-~~QLpPvv~s 594 (1095)
.+++||||||..+++.. .|+...- ....+||+.+ +.+|.|++.|
T Consensus 113 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS 162 (319)
T PRK08769 113 IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRS 162 (319)
T ss_pred CcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHh
Confidence 57899999999998733 4554432 2346888887 5678888765
No 293
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=93.00 E-value=0.14 Score=51.15 Aligned_cols=29 Identities=41% Similarity=0.666 Sum_probs=24.1
Q ss_pred CCcEE-EECCCCCcHHHHHHHHHHHHHHcC
Q 001347 405 RPISL-IQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 405 ~~lsL-IqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
++++| ..|++|||||.+...|+.+|.+.+
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 45544 799999999999999999988874
No 294
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=92.99 E-value=0.3 Score=57.39 Aligned_cols=26 Identities=27% Similarity=0.414 Sum_probs=23.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
-.|+.||+|+||++++..++..|+-.
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 295
>PHA00350 putative assembly protein
Probab=92.98 E-value=0.16 Score=60.15 Aligned_cols=32 Identities=25% Similarity=0.394 Sum_probs=23.7
Q ss_pred cEEEECCCCCcHHHHHHH-HHHHHHHcCCCcEEEE
Q 001347 407 ISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~-iI~~Llk~~~~rILV~ 440 (1095)
+.+|.|.||||||..++. .|...++.+ |++++
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 579999999999998875 455556655 55554
No 296
>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=92.88 E-value=0.18 Score=52.89 Aligned_cols=57 Identities=30% Similarity=0.440 Sum_probs=35.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC--cHHHHHHHHHHHHhcCCcEEEecc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP--SNVAVDQLAEKISATGLKVVRLCA 466 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap--SN~AVD~L~eRL~~~gl~iVRlg~ 466 (1095)
|+++|.|..||||||++.+++. ......++.|+.. -...+| .+.+.+.+..++.+.+
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 3334457777652 222233 2334445666666644
No 297
>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=92.86 E-value=0.1 Score=58.26 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=32.5
Q ss_pred HHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 394 sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
...+.+..++. ....+|.|++||||||++..++..+-.. ..+|+++-
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 34444444432 6789999999999999998887655443 34666654
No 298
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=92.84 E-value=0.36 Score=55.90 Aligned_cols=27 Identities=26% Similarity=0.295 Sum_probs=22.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
...|+.||+|+|||+++..++..++-.
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 357999999999999999888877644
No 299
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=92.82 E-value=0.14 Score=58.55 Aligned_cols=41 Identities=29% Similarity=0.497 Sum_probs=29.8
Q ss_pred CHHHHHHHHHHhcC---CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 392 N~sQ~~AV~~aL~~---~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
++...+.+..++.. +..+|.||||||||+++..++..+...
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 34455555555543 268999999999999999888777543
No 300
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.80 E-value=0.15 Score=62.33 Aligned_cols=54 Identities=26% Similarity=0.409 Sum_probs=43.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~ 460 (1095)
..+++|.|+||||||+.+..++...++.+. +++++++... .+++.+++...+++
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 8888887764 66777777766543
No 301
>PRK11823 DNA repair protein RadA; Provisional
Probab=92.77 E-value=0.18 Score=60.87 Aligned_cols=53 Identities=28% Similarity=0.486 Sum_probs=40.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1095)
..+++|.|+||+|||+.+..++..+.+.+ .++|.++.-. ..+++..|..+.+.
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 55789999999999999999998887655 4888887644 44567776655443
No 302
>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=92.72 E-value=0.096 Score=50.69 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=19.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+|.|+|||||||++.++...+
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 4799999999999999888776
No 303
>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=92.72 E-value=0.5 Score=51.53 Aligned_cols=51 Identities=27% Similarity=0.281 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHhcC-----CcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001347 391 LNASQVFAVKSVLQR-----PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~~-----~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1095)
-|+.=..|++.+... ...+|+||+|+|||+.+.++...+.+. +..+|+.+.
T Consensus 15 ~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 15 SNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp TTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred cHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 354444555544431 357899999999999999999888775 444676665
No 304
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=92.66 E-value=0.19 Score=59.12 Aligned_cols=52 Identities=27% Similarity=0.454 Sum_probs=40.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
..+++|.|+||+|||+++..++..+.+.+. +||+++... ..+++..|..+.+
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g~-~VlYvs~EE-s~~qi~~Ra~rlg 133 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRGG-KVLYVSGEE-SPEQIKLRADRLG 133 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcCC-eEEEEECCc-CHHHHHHHHHHcC
Confidence 567899999999999999999988887654 888887654 3456776665544
No 305
>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=92.64 E-value=0.15 Score=57.89 Aligned_cols=24 Identities=42% Similarity=0.627 Sum_probs=19.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+..+|.||||||||+++..+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 348999999999999988776543
No 306
>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=92.60 E-value=0.14 Score=53.63 Aligned_cols=46 Identities=28% Similarity=0.413 Sum_probs=35.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+++|.||||||||+.+..++.. .+ .+++.++-....-+++.+|+.+
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~-~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LG-GPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cC-CCeEEEEccCcCCHHHHHHHHH
Confidence 4799999999999998877654 23 4777777666666678888765
No 307
>PRK08939 primosomal protein DnaI; Reviewed
Probab=92.58 E-value=0.16 Score=58.30 Aligned_cols=35 Identities=29% Similarity=0.254 Sum_probs=29.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1095)
-.+|.|++|||||+++.+++..+.+.+. +++++..
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~g~-~v~~~~~ 192 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKKGV-SSTLLHF 192 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEEEH
Confidence 4789999999999999999999997765 5655543
No 308
>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=92.52 E-value=0.21 Score=57.55 Aligned_cols=43 Identities=21% Similarity=0.221 Sum_probs=33.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1095)
..+++|.||||||||+++..++....+.+. +++.+..-+..-.
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~-~v~yId~E~~~~~ 97 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGG-TAAFIDAEHALDP 97 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEEcccchhHH
Confidence 358999999999999999999988887754 6776655443333
No 309
>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=92.51 E-value=0.11 Score=58.95 Aligned_cols=27 Identities=30% Similarity=0.466 Sum_probs=22.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
..++.||||||||+++..+...+.+.+
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 578999999999999888777776543
No 310
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.49 E-value=0.34 Score=60.36 Aligned_cols=26 Identities=27% Similarity=0.409 Sum_probs=21.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
+..|++||||||||+++..++..|..
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhccc
Confidence 34788999999999999888877753
No 311
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=92.39 E-value=0.073 Score=62.89 Aligned_cols=23 Identities=43% Similarity=0.616 Sum_probs=20.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
=.|+.||||||||+.|++++.+|
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred cceeeCCCCCCHHHHHHHHHhhc
Confidence 47999999999999999998776
No 312
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=92.31 E-value=0.46 Score=54.71 Aligned_cols=27 Identities=26% Similarity=0.576 Sum_probs=23.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
+..|+.||+|+||++++..++..|+-.
T Consensus 27 ha~Lf~G~~G~Gk~~~A~~~a~~llc~ 53 (314)
T PRK07399 27 PAYLFAGPEGVGRKLAALCFIEGLLSQ 53 (314)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 568999999999999999998887654
No 313
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=92.28 E-value=0.52 Score=56.84 Aligned_cols=37 Identities=24% Similarity=0.227 Sum_probs=29.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcC
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~Ap 442 (1095)
+..+|.||||||||+++..+...+.+.. ..+|+.+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 3578999999999999999998887763 345666543
No 314
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=92.26 E-value=0.45 Score=56.70 Aligned_cols=70 Identities=20% Similarity=0.241 Sum_probs=52.9
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHH
Q 001347 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 386 p~~~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~-----~~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
..+..+++-|...+.-+|...=+|..+--|||||.. +.-.+..+++. +.-.+|||+||..-|-++..-+.
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 345688999999999888877889999999999974 33444455544 23369999999998887765443
No 315
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=92.25 E-value=0.47 Score=60.62 Aligned_cols=68 Identities=19% Similarity=0.330 Sum_probs=56.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHH-HHHHHHHHcC-C-----CcEEEEcCcHHHHHHHHHHHHh
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG-Q-----GQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla-~iI~~Llk~~-~-----~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.++++-|+.|+..+.....+||.+|-|||||-++. -++..|++.+ . -.+|.++|=..-...|..||..
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 47899999999999998999999999999998764 5566677662 1 2589999999998889888865
No 316
>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=92.20 E-value=0.23 Score=58.13 Aligned_cols=29 Identities=38% Similarity=0.578 Sum_probs=25.5
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
..++++|.||.|||||||+..++..+...
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~ 161 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEA 161 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence 37899999999999999999988877654
No 317
>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=92.19 E-value=0.32 Score=56.20 Aligned_cols=40 Identities=25% Similarity=0.293 Sum_probs=32.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~ 445 (1095)
..++.|.||||||||+++..++....+.+. +++.+..-+.
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 458999999999999999999988887764 6777665443
No 318
>PF12846 AAA_10: AAA-like domain
Probab=92.14 E-value=0.19 Score=55.92 Aligned_cols=57 Identities=25% Similarity=0.423 Sum_probs=42.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEecc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~ 466 (1095)
++.++|.|++|+|||+++..++.+++..+. .|++.=+...-.+ +++. .+.+++.+..
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 456899999999999999999999998875 8888877755554 2222 4455665543
No 319
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.10 E-value=0.2 Score=61.27 Aligned_cols=55 Identities=16% Similarity=0.257 Sum_probs=43.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~ 460 (1095)
..++||.|+||||||+.+..+++..+++...++|.++... ..+++.+++...+++
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 5678999999999999999998887776334888887655 556777777766654
No 320
>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=92.09 E-value=0.24 Score=43.90 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=19.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
..|.|+||+|||+++..+...|
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999998888777
No 321
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.05 E-value=0.23 Score=59.58 Aligned_cols=40 Identities=25% Similarity=0.527 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHH
Q 001347 391 LNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 391 LN~sQ~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
..+...+.+..++ ..+..++.||||||||+++..+...+.
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 477889999999999999877766553
No 322
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=92.03 E-value=0.46 Score=59.32 Aligned_cols=151 Identities=23% Similarity=0.289 Sum_probs=90.1
Q ss_pred CCCHHHHHHHHHHh---cCCcEEEEC-CCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEe
Q 001347 390 ELNASQVFAVKSVL---QRPISLIQG-PPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL---~~~lsLIqG-PPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRl 464 (1095)
.|-+.|.--|.-.+ ..++.-|.| -=|=|||--+++.+..|.+. .+++-||++|+-.-=+.++| +.+.... +++
T Consensus 399 ~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleNWlrE-f~kwCPs-l~V 476 (941)
T KOG0389|consen 399 QLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLENWLRE-FAKWCPS-LKV 476 (941)
T ss_pred cccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhHHHHHHH-HHHhCCc-eEE
Confidence 47788887776643 355544444 67999998888877777766 35688999998765554444 3332211 111
Q ss_pred ccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCC
Q 001347 465 CAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGD 544 (1095)
Q Consensus 465 g~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~~a~VI~~T~~~a~~ 544 (1095)
.. ++ . +. ++ .+.++....+ --..++|+++|-..++.
T Consensus 477 e~--------------Yy------G--------------------Sq-~E--R~~lR~~i~~-~~~~ydVllTTY~la~~ 512 (941)
T KOG0389|consen 477 EP--------------YY------G--------------------SQ-DE--RRELRERIKK-NKDDYDVLLTTYNLAAS 512 (941)
T ss_pred Ee--------------cc------C--------------------cH-HH--HHHHHHHHhc-cCCCccEEEEEeecccC
Confidence 00 00 0 00 00 0001111111 11268999999776553
Q ss_pred c-----cccCCCCCEEEEECCCCCCch-----hhhhhccccCceEEEecCcCC
Q 001347 545 P-----RLANFRFRQVLIDESTQATEP-----ECLIPLVLGAKQVVLVGDHCQ 587 (1095)
Q Consensus 545 ~-----~L~~~~Fd~VIIDEAsQ~tE~-----e~LIpL~~~~krlILVGD~~Q 587 (1095)
. .+++.+|++||.||+-++--. .-|+.+. ...|++|-|=|-|
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 377889999999999876541 2243332 4579999999999
No 323
>PRK04195 replication factor C large subunit; Provisional
Probab=92.02 E-value=0.17 Score=61.49 Aligned_cols=39 Identities=26% Similarity=0.405 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 391 LNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.++.+.+.+...+. .+..||.||||||||+++..++..+
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 4578999999999999988776654
No 324
>PRK13768 GTPase; Provisional
Probab=92.02 E-value=0.18 Score=56.10 Aligned_cols=34 Identities=29% Similarity=0.488 Sum_probs=28.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
+.+|.|++|+||||++..+...+..++. +|+++.
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 5789999999999999999988877664 777764
No 325
>PRK06851 hypothetical protein; Provisional
Probab=91.83 E-value=0.19 Score=58.83 Aligned_cols=44 Identities=25% Similarity=0.432 Sum_probs=32.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCC-cEEEEcCcHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG-QVLVCAPSNVAVD 448 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~-rILV~ApSN~AVD 448 (1095)
.+..+|.|+||||||+++..++..+.+++.. -+.-|+.-+...|
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 6779999999999999999999999887652 2333444443333
No 326
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.82 E-value=0.41 Score=58.15 Aligned_cols=69 Identities=20% Similarity=0.151 Sum_probs=50.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHH-c------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAK-Q------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk-~------~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..+++-|....-.++...=.+..+--|||||.- +.=+|.+|.+ + ....|||++||...|.++.+-..+.
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 456788888888888877778889999999963 2333444443 1 1337999999999999998866554
No 327
>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=91.79 E-value=0.27 Score=59.37 Aligned_cols=52 Identities=25% Similarity=0.415 Sum_probs=39.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
..+++|.|+||+|||+++..++..+.+.+. +||.++.-. ..+++..|..+.+
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 567999999999999999999988887654 788887644 3456666655443
No 328
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=91.72 E-value=0.23 Score=63.23 Aligned_cols=39 Identities=31% Similarity=0.492 Sum_probs=28.9
Q ss_pred HHHHHHHHHHhc--------CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 393 ASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 393 ~sQ~~AV~~aL~--------~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
+.|.+.|..+|. ..+.+|.|+||||||.|+..++..|..
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 566666666553 123469999999999999998877754
No 329
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=91.68 E-value=0.68 Score=51.37 Aligned_cols=59 Identities=20% Similarity=0.308 Sum_probs=38.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH-HHHHHHHHHHHhcCCcEEEe
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN-VAVDQLAEKISATGLKVVRL 464 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN-~AVD~L~eRL~~~gl~iVRl 464 (1095)
...+|++|..|||||+++.+++..+...+- |++=+.... .....|.+.|.....+.+-+
T Consensus 52 annvLL~G~rGtGKSSlVkall~~y~~~GL-RlIev~k~~L~~l~~l~~~l~~~~~kFIlf 111 (249)
T PF05673_consen 52 ANNVLLWGARGTGKSSLVKALLNEYADQGL-RLIEVSKEDLGDLPELLDLLRDRPYKFILF 111 (249)
T ss_pred CcceEEecCCCCCHHHHHHHHHHHHhhcCc-eEEEECHHHhccHHHHHHHHhcCCCCEEEE
Confidence 356899999999999999998888777663 544444333 23344555555444444433
No 330
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=91.68 E-value=0.37 Score=54.91 Aligned_cols=39 Identities=31% Similarity=0.453 Sum_probs=27.5
Q ss_pred CCHHHHHHHHHHhcC----CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 391 LNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~~----~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.++..++.+...+.+ .+.++.||||||||+++..+...+
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV 67 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence 455666666665542 356679999999999988776654
No 331
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=91.67 E-value=0.37 Score=56.70 Aligned_cols=64 Identities=23% Similarity=0.275 Sum_probs=41.9
Q ss_pred CHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCc--EEEEcCcHHHHHHHHHHHH
Q 001347 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQ--VLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 392 N~sQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~r--ILV~ApSN~AVD~L~eRL~ 455 (1095)
=++|.+.+..++. ....+|.|+||||||.|+..+..++....... +-|=|..+.--.++..+|.
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~ 94 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKIL 94 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHH
Confidence 3567777766653 12378999999999999999998887663322 4444444444445555444
No 332
>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=91.62 E-value=0.18 Score=52.76 Aligned_cols=25 Identities=36% Similarity=0.689 Sum_probs=21.0
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
.+|+|+||+||||++..++..|.+.
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 5899999999999999999887665
No 333
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=91.60 E-value=0.24 Score=50.25 Aligned_cols=34 Identities=26% Similarity=0.548 Sum_probs=26.9
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
++..|.|+.||||||++..++..|.+++. +|.++
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~-~v~~i 34 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGY-RVAVI 34 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEE
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCC-ceEEE
Confidence 35789999999999999999999988765 55543
No 334
>PRK13531 regulatory ATPase RavA; Provisional
Probab=91.59 E-value=0.24 Score=59.91 Aligned_cols=33 Identities=18% Similarity=0.460 Sum_probs=25.9
Q ss_pred HHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHH
Q 001347 398 AVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 398 AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
++..++.+..+||.||||||||+++..+...+.
T Consensus 32 ll~aalag~hVLL~GpPGTGKT~LAraLa~~~~ 64 (498)
T PRK13531 32 CLLAALSGESVFLLGPPGIAKSLIARRLKFAFQ 64 (498)
T ss_pred HHHHHccCCCEEEECCCChhHHHHHHHHHHHhc
Confidence 344455688999999999999999877776553
No 335
>CHL00181 cbbX CbbX; Provisional
Probab=91.57 E-value=0.17 Score=57.60 Aligned_cols=26 Identities=31% Similarity=0.394 Sum_probs=21.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
..|+.||||||||+++..+...+...
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 37899999999999998887776554
No 336
>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=91.52 E-value=0.15 Score=53.27 Aligned_cols=23 Identities=35% Similarity=0.647 Sum_probs=18.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+.+|.|||||||||.+..+...+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 46899999999999988776544
No 337
>PHA00729 NTP-binding motif containing protein
Probab=91.51 E-value=0.16 Score=55.78 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=21.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
..+|.|+||||||+++..+...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 478999999999999998887764
No 338
>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=91.50 E-value=0.22 Score=53.78 Aligned_cols=37 Identities=27% Similarity=0.355 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 393 ASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 393 ~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+.-++|+.-+.. ..-.||.||||||||+++..+...|
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~lL 46 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPSLL 46 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHHhC
Confidence 445666665544 5678999999999999876665433
No 339
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=91.44 E-value=0.24 Score=57.13 Aligned_cols=24 Identities=42% Similarity=0.649 Sum_probs=20.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+..+|.||||||||+++..+...+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 468999999999999988776654
No 340
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.43 E-value=0.23 Score=60.22 Aligned_cols=36 Identities=28% Similarity=0.468 Sum_probs=28.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1095)
.++++.||.|+|||||++.+...+... +..+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 478899999999999999999887544 444676554
No 341
>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=91.36 E-value=0.16 Score=52.85 Aligned_cols=25 Identities=36% Similarity=0.509 Sum_probs=21.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.++.+|.|||||||||++..++..+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4678999999999999988877654
No 342
>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=91.29 E-value=0.25 Score=56.38 Aligned_cols=36 Identities=31% Similarity=0.425 Sum_probs=29.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
..+..|.|+||+|||+++..++..+.+.+. +|.+++
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 777755
No 343
>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=91.22 E-value=0.21 Score=55.54 Aligned_cols=33 Identities=36% Similarity=0.633 Sum_probs=25.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
.=|+||||.||+|.+.+++..+.+.+. +|-|+|
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 348999999999999999999988765 666654
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=91.22 E-value=0.19 Score=48.45 Aligned_cols=24 Identities=33% Similarity=0.657 Sum_probs=21.1
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHc
Q 001347 409 LIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
.|.|+||+|||+++..++..|++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKH 25 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHH
Confidence 689999999999999988887754
No 345
>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=91.19 E-value=0.3 Score=49.96 Aligned_cols=33 Identities=33% Similarity=0.509 Sum_probs=27.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
..+.|++|+|||+++..+...+.+.+. +|+++.
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 568899999999999999988877764 777765
No 346
>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=91.06 E-value=0.4 Score=56.95 Aligned_cols=35 Identities=26% Similarity=0.266 Sum_probs=28.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1095)
..+|.||+|||||+++.++...+.+.. ..+|+.+.
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 578999999999999999988887763 34676664
No 347
>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=91.03 E-value=0.32 Score=50.28 Aligned_cols=35 Identities=26% Similarity=0.324 Sum_probs=28.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1095)
..|.|++|||||+++..++..|..++ .+|.++-+.
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 56889999999999999999887665 378777654
No 348
>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=90.98 E-value=0.39 Score=51.84 Aligned_cols=40 Identities=25% Similarity=0.331 Sum_probs=30.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-----CCcEEEEcCcH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN 444 (1095)
..++.|.|+||+|||+++..++...+..+ ..+++.++.-+
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 349
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=90.86 E-value=0.26 Score=57.73 Aligned_cols=22 Identities=45% Similarity=0.783 Sum_probs=18.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
.||.||||||||+++..+...+
T Consensus 159 vLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 159 VLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred EEEECCCCCCHHHHHHHHHHhC
Confidence 7899999999999888776643
No 350
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.78 E-value=0.63 Score=55.93 Aligned_cols=69 Identities=22% Similarity=0.257 Sum_probs=52.8
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHcCC-------CcEEEEcCcHHHHHHHHHHHHhc
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQ-------GQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~~-------~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
..++.-|+++|=.+|...=+||...-|||||-.= .-+|..|....+ .=-||++||...+-++.+-+.+.
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 3578899999999999888999999999999753 345555555422 13799999999998887765543
No 351
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=90.77 E-value=4.6 Score=52.47 Aligned_cols=56 Identities=27% Similarity=0.504 Sum_probs=45.0
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH---HHHHHHHhcC---CcEEEe
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATG---LKVVRL 464 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD---~L~eRL~~~g---l~iVRl 464 (1095)
-+|-|-.|||||+.+.+-+...++.+ .+|..++|+-..-. ++++++...| +.|.|+
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 47889999999999999999999888 49999999887664 6777776665 445554
No 352
>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=90.65 E-value=0.38 Score=52.85 Aligned_cols=50 Identities=22% Similarity=0.394 Sum_probs=36.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH-----------cCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK-----------QGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk-----------~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
+.+|.||||||||+++..++..+.. ....+||+++-=..+ +++.+|+...
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~i 63 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEAI 63 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHHH
Confidence 6799999999999999998877653 134578888854433 4677777654
No 353
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=90.59 E-value=0.27 Score=60.26 Aligned_cols=25 Identities=36% Similarity=0.650 Sum_probs=20.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
..+.|+.||||||||+|+..+...|
T Consensus 45 ~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 45 KRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHh
Confidence 3478999999999999997776655
No 354
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=90.58 E-value=0.27 Score=43.16 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=22.4
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
++++|.|+.|+||||++-++...|.-
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 47999999999999999888876653
No 355
>PRK09354 recA recombinase A; Provisional
Probab=90.56 E-value=0.56 Score=54.69 Aligned_cols=42 Identities=21% Similarity=0.238 Sum_probs=32.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AV 447 (1095)
..+++|.||||||||+++..++....+.+. +++.+..-+..-
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~-~~~yId~E~s~~ 101 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGG-TAAFIDAEHALD 101 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEECCccchH
Confidence 458999999999999999999988877764 666666544333
No 356
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=90.55 E-value=1.1 Score=46.98 Aligned_cols=24 Identities=29% Similarity=0.520 Sum_probs=20.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
..++|.|-||+||||++......+
T Consensus 5 kvvvitGVpGvGKTTVl~~~~~~l 28 (189)
T COG2019 5 KVVVITGVPGVGKTTVLKIALKEL 28 (189)
T ss_pred eEEEEEcCCCCChHHHHHHHHHHH
Confidence 467899999999999987776665
No 357
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=90.55 E-value=0.33 Score=57.57 Aligned_cols=23 Identities=43% Similarity=0.684 Sum_probs=19.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
-.||.||||||||+++.++...+
T Consensus 167 gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred ceEEECCCCCChHHHHHHHHHHh
Confidence 37899999999999987776543
No 358
>smart00350 MCM minichromosome maintenance proteins.
Probab=90.49 E-value=3.9 Score=50.30 Aligned_cols=21 Identities=29% Similarity=0.319 Sum_probs=17.5
Q ss_pred cEEEECCCCCcHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVY 427 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~ 427 (1095)
..||.|+||||||+++..+..
T Consensus 238 ~vLL~G~pGtGKs~lar~l~~ 258 (509)
T smart00350 238 NILLLGDPGTAKSQLLKYVEK 258 (509)
T ss_pred eEEEeCCCChhHHHHHHHHHH
Confidence 589999999999998765544
No 359
>PRK08233 hypothetical protein; Provisional
Probab=90.48 E-value=0.19 Score=52.14 Aligned_cols=24 Identities=25% Similarity=0.343 Sum_probs=20.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+..|.|+|||||||++..++..|
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 457889999999999988777665
No 360
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=90.47 E-value=0.33 Score=56.26 Aligned_cols=34 Identities=38% Similarity=0.502 Sum_probs=28.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
+.-|.|+||+||||++..++..+...+. +|.|++
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 4668999999999999999988877654 676665
No 361
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=90.47 E-value=0.2 Score=51.98 Aligned_cols=22 Identities=36% Similarity=0.650 Sum_probs=18.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
..|.|||||||||+...+..++
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999988777665
No 362
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=90.38 E-value=0.34 Score=52.99 Aligned_cols=37 Identities=27% Similarity=0.334 Sum_probs=28.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHc----CCCcEEEEcCcH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQ----GQGQVLVCAPSN 444 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~----~~~rILV~ApSN 444 (1095)
+||.||||+||||.+..+...+... .++||.++--++
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 7999999999999999888776554 344666665444
No 363
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=90.36 E-value=3 Score=50.26 Aligned_cols=63 Identities=21% Similarity=0.338 Sum_probs=42.8
Q ss_pred CCHHHHHH---HHHHhc-CCcEEEECCCCCcHHHHHHHHH-HHHHHc--CCCcEEEEcCcHHHHHHHHHH
Q 001347 391 LNASQVFA---VKSVLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQ--GQGQVLVCAPSNVAVDQLAEK 453 (1095)
Q Consensus 391 LN~sQ~~A---V~~aL~-~~lsLIqGPPGTGKTtTla~iI-~~Llk~--~~~rILV~ApSN~AVD~L~eR 453 (1095)
.=++|.+- ++.+|. ++..|+-=|.|||||..+..++ .+.+.. ...|++.|+-|-.-++...+.
T Consensus 17 iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~E 86 (755)
T KOG1131|consen 17 IYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEE 86 (755)
T ss_pred cCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHH
Confidence 34566554 455565 7899999999999998876655 333333 345899999987655544443
No 364
>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=90.36 E-value=0.3 Score=54.10 Aligned_cols=40 Identities=25% Similarity=0.560 Sum_probs=31.4
Q ss_pred HhcCCc-EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001347 402 VLQRPI-SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1095)
Q Consensus 402 aL~~~l-sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1095)
++..++ .+|.|++|||||+++..+++.+.+.- ..|.++++
T Consensus 9 l~~~~fr~viIG~sGSGKT~li~~lL~~~~~~f-~~I~l~t~ 49 (241)
T PF04665_consen 9 LLKDPFRMVIIGKSGSGKTTLIKSLLYYLRHKF-DHIFLITP 49 (241)
T ss_pred hcCCCceEEEECCCCCCHHHHHHHHHHhhcccC-CEEEEEec
Confidence 344553 57999999999999999998876654 47888776
No 365
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=90.29 E-value=0.9 Score=52.63 Aligned_cols=44 Identities=23% Similarity=0.259 Sum_probs=30.7
Q ss_pred CCCEEEEECCCCCCchh--hhhhccc---cCceEEEecC-cCCCCceeec
Q 001347 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGD-HCQLGPVIMC 594 (1095)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e--~LIpL~~---~~krlILVGD-~~QLpPvv~s 594 (1095)
.++++|||||..+++.. .|+...- ...-+||+-+ +.+|.|++.|
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 68899999999998733 4544442 2346677766 5689999865
No 366
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=90.27 E-value=0.97 Score=57.98 Aligned_cols=47 Identities=23% Similarity=0.269 Sum_probs=34.1
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+.+-.-|+|||.+++..++.....+. .|-|+|||..-|.+-.+-+..
T Consensus 98 Iaem~TGeGKTLva~lpa~l~aL~G~-~V~IvTpn~yLA~rd~e~~~~ 144 (830)
T PRK12904 98 IAEMKTGEGKTLVATLPAYLNALTGK-GVHVVTVNDYLAKRDAEWMGP 144 (830)
T ss_pred hhhhhcCCCcHHHHHHHHHHHHHcCC-CEEEEecCHHHHHHHHHHHHH
Confidence 56668999999987655542233344 789999999988877776654
No 367
>PRK13342 recombination factor protein RarA; Reviewed
Probab=90.27 E-value=0.41 Score=57.14 Aligned_cols=23 Identities=39% Similarity=0.595 Sum_probs=18.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~ 428 (1095)
+..+|+||||||||+++..+...
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~ 59 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGA 59 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 35788999999999988776554
No 368
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=90.26 E-value=1.1 Score=53.22 Aligned_cols=51 Identities=22% Similarity=0.324 Sum_probs=32.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEc--CcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA--PSNVAVDQLAEKIS 455 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A--pSN~AVD~L~eRL~ 455 (1095)
....+|.||||+|||+++..+...+..+. ...+.|+. ....-+.+|.+.+.
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 45789999999999998777666655442 11232222 22245666666654
No 369
>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=90.24 E-value=0.34 Score=59.23 Aligned_cols=24 Identities=42% Similarity=0.707 Sum_probs=20.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
-.|+.||||||||+++..++..|.
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhhc
Confidence 379999999999998888777664
No 370
>PRK05541 adenylylsulfate kinase; Provisional
Probab=90.23 E-value=0.37 Score=50.15 Aligned_cols=29 Identities=24% Similarity=0.307 Sum_probs=23.9
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCC
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~ 434 (1095)
.+.+|.|+||+||||++..+...|.....
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l~~~~~ 36 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLKLKYS 36 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 46789999999999999888888765544
No 371
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=90.22 E-value=0.33 Score=56.12 Aligned_cols=20 Identities=50% Similarity=0.878 Sum_probs=16.4
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVY 427 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~ 427 (1095)
+|+.||||||||..+.+.+.
T Consensus 188 VLLYGPPGTGKTLLAkAVA~ 207 (406)
T COG1222 188 VLLYGPPGTGKTLLAKAVAN 207 (406)
T ss_pred eEeeCCCCCcHHHHHHHHHh
Confidence 79999999999987665543
No 372
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=90.19 E-value=0.4 Score=54.38 Aligned_cols=39 Identities=36% Similarity=0.532 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhcC---CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 393 ASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 393 ~sQ~~AV~~aL~~---~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
+.+.+.+...+.. +..+|.||||||||+++..+...+..
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~ 64 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYG 64 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcC
Confidence 3455555555542 35799999999999999888777643
No 373
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.17 E-value=0.46 Score=55.20 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=28.7
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEE
Q 001347 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1095)
Q Consensus 397 ~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1095)
..+..++. ....||.|++||||||++.+++..+-. ..+|++
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 44444443 677999999999999999887765532 235554
No 374
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=90.05 E-value=1.2 Score=57.47 Aligned_cols=43 Identities=26% Similarity=0.274 Sum_probs=30.9
Q ss_pred CCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.-|.|||.+++..++..+..+ ..|-|+|+|...|.+=.+.+..
T Consensus 103 ~TGEGKTLvA~l~a~l~al~G-~~VhvvT~ndyLA~RD~e~m~~ 145 (913)
T PRK13103 103 RTGEGKTLVGTLAVYLNALSG-KGVHVVTVNDYLARRDANWMRP 145 (913)
T ss_pred cCCCCChHHHHHHHHHHHHcC-CCEEEEeCCHHHHHHHHHHHHH
Confidence 689999997665554444444 4899999999888766665543
No 375
>PRK12608 transcription termination factor Rho; Provisional
Probab=90.03 E-value=0.39 Score=56.39 Aligned_cols=50 Identities=26% Similarity=0.326 Sum_probs=37.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCC---cEEEEcCcHHHHHHHHHHHHh
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQG---QVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~---rILV~ApSN~AVD~L~eRL~~ 456 (1095)
-.+|.||||||||+++..++..+..+.+. -++++.....-+.++.+.+..
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 46999999999999999999888775321 355566666667777776653
No 376
>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=89.98 E-value=0.43 Score=51.43 Aligned_cols=32 Identities=34% Similarity=0.469 Sum_probs=27.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
..|.|..|+||||+.+.++..|.+.++ ||||+
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~-rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGK-KVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCC-cEEEE
Confidence 345599999999999999999999876 88887
No 377
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=89.98 E-value=0.29 Score=51.33 Aligned_cols=46 Identities=26% Similarity=0.349 Sum_probs=32.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..+|.||||||||+.+..++..+ + .+++.++.....-+++.+|+..
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~-~~~~~iat~~~~~~e~~~ri~~ 48 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---G-LQVLYIATAQPFDDEMAARIAH 48 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---C-CCcEeCcCCCCChHHHHHHHHH
Confidence 57999999999999987776543 2 2566666544556678888754
No 378
>PRK13764 ATPase; Provisional
Probab=89.97 E-value=0.34 Score=60.25 Aligned_cols=28 Identities=32% Similarity=0.433 Sum_probs=24.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
....||.|||||||||++.+++.++...
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~ 284 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYADM 284 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhhC
Confidence 5678999999999999999988777543
No 379
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=89.94 E-value=0.62 Score=49.83 Aligned_cols=53 Identities=21% Similarity=0.346 Sum_probs=37.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC---cHHHHHHHHHHHHhcCCcEEEec
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP---SNVAVDQLAEKISATGLKVVRLC 465 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap---SN~AVD~L~eRL~~~gl~iVRlg 465 (1095)
.-|-||||+|||+++..++..|.++ .++.|++. |+.=++.|.+. .+.+++.+.
T Consensus 16 i~v~Gp~GSGKTaLie~~~~~L~~~--~~~aVI~~Di~t~~Da~~l~~~---~g~~i~~v~ 71 (202)
T COG0378 16 IGVGGPPGSGKTALIEKTLRALKDE--YKIAVITGDIYTKEDADRLRKL---PGEPIIGVE 71 (202)
T ss_pred EEecCCCCcCHHHHHHHHHHHHHhh--CCeEEEeceeechhhHHHHHhC---CCCeeEEec
Confidence 4478999999999999999998776 47777764 54444444432 666666653
No 380
>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=89.93 E-value=0.24 Score=50.01 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=18.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~ 428 (1095)
+.+|.|+||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4689999999999998876654
No 381
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=89.93 E-value=0.39 Score=57.70 Aligned_cols=23 Identities=39% Similarity=0.678 Sum_probs=19.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
-+||.||||||||+++..+...+
T Consensus 219 gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 219 GVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 47899999999999988776643
No 382
>PRK08118 topology modulation protein; Reviewed
Probab=89.93 E-value=0.26 Score=51.42 Aligned_cols=22 Identities=18% Similarity=0.394 Sum_probs=17.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+|.||||+||||++..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5899999999998776665543
No 383
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=89.89 E-value=0.4 Score=52.99 Aligned_cols=33 Identities=21% Similarity=0.518 Sum_probs=25.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
+.+|.|+|||||||.+..+..++-..+. ++.++
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 4689999999999999999887765443 44444
No 384
>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=89.88 E-value=0.49 Score=46.51 Aligned_cols=44 Identities=34% Similarity=0.515 Sum_probs=31.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
.+++|.+|+|||++...+...+.+.+. +|+++---. +.+.+++.
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~-~V~~id~D~---~~~~~~~~ 45 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGK-PVLAIDADP---DDLPERLS 45 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEECCc---hhhHHHHh
Confidence 579999999999999999888877655 666543222 55555544
No 385
>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=89.88 E-value=0.23 Score=54.93 Aligned_cols=29 Identities=28% Similarity=0.593 Sum_probs=20.6
Q ss_pred EECCCCCcHHHHHHHHHHHHHHcCCCcEEE
Q 001347 410 IQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1095)
Q Consensus 410 IqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1095)
|.|||||||||.+..+..++...+. ++.+
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 6899999999999888887755443 4444
No 386
>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=89.78 E-value=0.46 Score=50.15 Aligned_cols=33 Identities=27% Similarity=0.439 Sum_probs=24.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
+..|.|+|||||||++..++..|...+. ++.++
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 387
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=89.77 E-value=0.15 Score=56.78 Aligned_cols=67 Identities=28% Similarity=0.303 Sum_probs=54.6
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 392 N~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~--~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
+.-|+.||..++...-++.|+-.|||||.|.+.-+.+-++.. ..++||++||...+-++.+-+...+
T Consensus 51 S~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg 119 (400)
T KOG0328|consen 51 SAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALG 119 (400)
T ss_pred hHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhc
Confidence 567999999999988899999999999988765555544432 2479999999999999988877653
No 388
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.72 E-value=0.3 Score=52.60 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=23.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
++.++.|+||+|||+.+.+++..|-+..
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i 29 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEI 29 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence 4678999999999999999988776654
No 389
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=89.71 E-value=0.47 Score=51.58 Aligned_cols=40 Identities=20% Similarity=0.239 Sum_probs=28.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-----CCcEEEEcCcH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN 444 (1095)
..++.|.|+||||||+.+..++....... ..+++.+..-+
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 56789999999999999999887654332 24566555433
No 390
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=89.68 E-value=0.92 Score=59.26 Aligned_cols=78 Identities=21% Similarity=0.324 Sum_probs=60.7
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc----------CCCcEEEEcCcHHHHHHHHH----H
Q 001347 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ----------GQGQVLVCAPSNVAVDQLAE----K 453 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~----------~~~rILV~ApSN~AVD~L~e----R 453 (1095)
..||..|-....+++. ....|+.||.|.|||-+++.-+.+-+.. .+.+|...||....|+++.. |
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 4599999988888886 5789999999999999887555544443 23489999999999988865 6
Q ss_pred HHhcCCcEEEecc
Q 001347 454 ISATGLKVVRLCA 466 (1095)
Q Consensus 454 L~~~gl~iVRlg~ 466 (1095)
+...|++|..+..
T Consensus 388 la~~GI~V~ElTg 400 (1674)
T KOG0951|consen 388 LAPLGITVLELTG 400 (1674)
T ss_pred ccccCcEEEEecc
Confidence 6667887776544
No 391
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=89.61 E-value=0.26 Score=50.62 Aligned_cols=21 Identities=38% Similarity=0.515 Sum_probs=16.1
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1095)
.+|.|+|||||||++..+..+
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 479999999999998877755
No 392
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=89.57 E-value=1.3 Score=57.11 Aligned_cols=47 Identities=26% Similarity=0.260 Sum_probs=34.3
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
+.+-.-|+|||.+++..++..+..+. .|.|+|+|.-.|.+..+-+..
T Consensus 99 IaEm~TGEGKTL~a~lp~~l~al~g~-~VhIvT~ndyLA~RD~e~m~~ 145 (908)
T PRK13107 99 IAEMRTGEGKTLTATLPAYLNALTGK-GVHVITVNDYLARRDAENNRP 145 (908)
T ss_pred cccccCCCCchHHHHHHHHHHHhcCC-CEEEEeCCHHHHHHHHHHHHH
Confidence 45568999999987765544343443 799999999888777776544
No 393
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=89.56 E-value=0.45 Score=54.95 Aligned_cols=46 Identities=28% Similarity=0.494 Sum_probs=32.2
Q ss_pred HHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001347 401 SVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1095)
Q Consensus 401 ~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1095)
..+..+.+|+.||||||||+.+..++..+- .+...+-|++.-.+.|
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 344588999999999999999887776653 2234555555555554
No 394
>PHA02244 ATPase-like protein
Probab=89.56 E-value=0.48 Score=55.53 Aligned_cols=32 Identities=16% Similarity=0.302 Sum_probs=23.8
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHH
Q 001347 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 397 ~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~ 428 (1095)
..+..++. ...++|.||||||||+++.++...
T Consensus 110 ~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 110 ADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 34444444 456889999999999998877765
No 395
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.56 E-value=0.35 Score=58.78 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=20.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
.|++||||||||+++..++..+..
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcc
Confidence 689999999999998888776643
No 396
>PRK00889 adenylylsulfate kinase; Provisional
Probab=89.45 E-value=0.5 Score=49.15 Aligned_cols=34 Identities=26% Similarity=0.318 Sum_probs=26.4
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
.+.+|.|+||+||||++..+...+...+ .+++++
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 4678999999999999998888776544 356554
No 397
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.43 E-value=0.37 Score=56.50 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=20.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
..|+.||||||||+++..++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 358999999999999888877664
No 398
>PRK14530 adenylate kinase; Provisional
Probab=89.41 E-value=0.32 Score=52.57 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=20.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+..+|.|||||||||++..+...+
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHh
Confidence 3457899999999999988776554
No 399
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=89.35 E-value=1 Score=51.36 Aligned_cols=72 Identities=19% Similarity=0.239 Sum_probs=43.8
Q ss_pred CHHHHHHHHHHhc-C--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCcEEEecc
Q 001347 392 NASQVFAVKSVLQ-R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1095)
Q Consensus 392 N~sQ~~AV~~aL~-~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl~iVRlg~ 466 (1095)
|+...+..+..+. . .+.-|.|+||+||||++..++..|... .++.|+.---... +=.+||...+.+++.+..
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 125567777887777643
No 400
>PTZ00301 uridine kinase; Provisional
Probab=89.33 E-value=0.5 Score=51.35 Aligned_cols=27 Identities=30% Similarity=0.457 Sum_probs=22.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
-+..|.|||||||||++..++..|.+.
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~~ 30 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMAH 30 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence 457799999999999998888777654
No 401
>PRK03839 putative kinase; Provisional
Probab=89.33 E-value=0.31 Score=50.93 Aligned_cols=22 Identities=36% Similarity=0.582 Sum_probs=18.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+|.|+||+||||+...+...+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6889999999999877666554
No 402
>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=89.32 E-value=0.46 Score=50.46 Aligned_cols=32 Identities=31% Similarity=0.547 Sum_probs=23.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
+..|.||+|+||||++..+...+ ...++.++.
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l---~~~~~~v~~ 32 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL---GNPKVVIIS 32 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh---CCCCeEEEE
Confidence 36799999999999998877665 223555544
No 403
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=89.27 E-value=1.4 Score=56.45 Aligned_cols=45 Identities=27% Similarity=0.308 Sum_probs=33.1
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001347 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL 454 (1095)
+..=.-|.|||.+++..++..+..+. .|-|+|+|..-|.+=.+.+
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 44447899999998766665555554 8999999988776555544
No 404
>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=89.26 E-value=0.21 Score=50.06 Aligned_cols=37 Identities=24% Similarity=0.363 Sum_probs=22.5
Q ss_pred CEEEEECCCCCCc-hh-hhhhccccCceEEEecCcCCCCc
Q 001347 553 RQVLIDESTQATE-PE-CLIPLVLGAKQVVLVGDHCQLGP 590 (1095)
Q Consensus 553 d~VIIDEAsQ~tE-~e-~LIpL~~~~krlILVGD~~QLpP 590 (1095)
.+|++||...++. .+ .|+-+ ...+++-+-|....||.
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 12222 23567777788887776
No 405
>PRK06762 hypothetical protein; Provisional
Probab=89.23 E-value=0.33 Score=49.95 Aligned_cols=40 Identities=23% Similarity=0.485 Sum_probs=27.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL 454 (1095)
.+.+|.|+|||||||++..+...+ +. .+.++. .|.+...+
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 367899999999999988777665 32 444443 36665543
No 406
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.18 E-value=0.39 Score=49.94 Aligned_cols=26 Identities=35% Similarity=0.590 Sum_probs=22.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcC
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
..|+|+||+||||.+..++..|...+
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g 33 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKG 33 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcC
Confidence 57999999999999998888777664
No 407
>PRK00131 aroK shikimate kinase; Reviewed
Probab=89.15 E-value=0.35 Score=49.53 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
....+|.|+||||||+++..+...|
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 3467899999999999988877665
No 408
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=88.99 E-value=1.5 Score=55.57 Aligned_cols=64 Identities=23% Similarity=0.296 Sum_probs=52.2
Q ss_pred CCCHHHHHHHHHHhc---C--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 390 ELNASQVFAVKSVLQ---R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
.|+..|..+++..+. . ...+|.|.+|+|||.+++.++..+ +.++||++++...|+++.+.|...
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 689999999988653 2 246799999999999988765442 348999999999999999998765
No 409
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=88.98 E-value=0.29 Score=59.08 Aligned_cols=27 Identities=33% Similarity=0.577 Sum_probs=22.5
Q ss_pred hcCCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 403 LQRPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 403 L~~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+...+.||+||+|+|||||+..+...|
T Consensus 108 l~~~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 108 LGSRILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred CCceEEEEeCCCCCCchhHHHHHHHhh
Confidence 346799999999999999998776654
No 410
>PRK07667 uridine kinase; Provisional
Probab=88.95 E-value=0.55 Score=50.02 Aligned_cols=36 Identities=25% Similarity=0.257 Sum_probs=26.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1095)
++.|.|+|||||||++..+...|-+.+. ++.++..-
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~-~~~~i~~D 54 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGI-PFHIFHID 54 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEEcC
Confidence 5679999999999999888877765444 55555433
No 411
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=88.92 E-value=0.91 Score=52.94 Aligned_cols=44 Identities=18% Similarity=0.209 Sum_probs=30.6
Q ss_pred CCCEEEEECCCCCCchh--hhhhccc---cCceEEEecCc-CCCCceeec
Q 001347 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGDH-CQLGPVIMC 594 (1095)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~e--~LIpL~~---~~krlILVGD~-~QLpPvv~s 594 (1095)
.++++|||||..+++.. .|+...- ....+||+... .+|.|++.|
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 68899999999998733 4444432 23457777665 778888765
No 412
>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=88.89 E-value=0.32 Score=51.00 Aligned_cols=21 Identities=33% Similarity=0.697 Sum_probs=17.6
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1095)
.+|.|||||||||++..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988766654
No 413
>PRK14531 adenylate kinase; Provisional
Probab=88.88 E-value=0.35 Score=50.94 Aligned_cols=23 Identities=35% Similarity=0.551 Sum_probs=18.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
-.+|.|||||||||....+...+
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 46899999999999977766543
No 414
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=88.86 E-value=0.47 Score=56.90 Aligned_cols=25 Identities=40% Similarity=0.695 Sum_probs=21.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
+.|.|||||||||++..++..+.+.
T Consensus 72 vavvGPpGtGKsTLirSlVrr~tk~ 96 (1077)
T COG5192 72 VAVVGPPGTGKSTLIRSLVRRFTKQ 96 (1077)
T ss_pred EEeecCCCCChhHHHHHHHHHHHHh
Confidence 4489999999999999999877654
No 415
>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=88.83 E-value=0.35 Score=50.42 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=20.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+.+|.||+|+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 367899999999999998776554
No 416
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=88.81 E-value=0.44 Score=54.00 Aligned_cols=34 Identities=32% Similarity=0.490 Sum_probs=28.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
+.=|+|+||.||+|++-.++..|.+.+. ||-|+|
T Consensus 53 viGITG~PGaGKSTli~~L~~~l~~~G~-rVaVlA 86 (323)
T COG1703 53 VIGITGVPGAGKSTLIEALGRELRERGH-RVAVLA 86 (323)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHHCCc-EEEEEE
Confidence 4459999999999999999999988876 766655
No 417
>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=88.78 E-value=0.64 Score=47.01 Aligned_cols=25 Identities=24% Similarity=0.466 Sum_probs=21.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
..+.++.|+.|+|||+.+..++..|
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 4588999999999999998888766
No 418
>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=88.74 E-value=0.63 Score=55.78 Aligned_cols=51 Identities=20% Similarity=0.226 Sum_probs=39.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..+++|.|+||+|||+.+..++.+++.....+||+++.-.. .+++.+|+..
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 45899999999999999999999887654458988877654 4456666654
No 419
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=88.65 E-value=0.37 Score=52.71 Aligned_cols=32 Identities=28% Similarity=0.600 Sum_probs=23.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
-+|.||||+||||-....-..|...+. ++.++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr-~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGR-PVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCC-ceEEE
Confidence 479999999999988777665555554 44443
No 420
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=88.61 E-value=0.75 Score=55.04 Aligned_cols=61 Identities=21% Similarity=0.182 Sum_probs=37.5
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHcC----CCcEEEEcCcHHHHHHHHH
Q 001347 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQG----QGQVLVCAPSNVAVDQLAE 452 (1095)
Q Consensus 392 N~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~----~~rILV~ApSN~AVD~L~e 452 (1095)
++-|..-|=-+|...=.+-.+.-|||||-.- .-++..|+-++ ..||||++||...+-++..
T Consensus 205 TpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~s 270 (691)
T KOG0338|consen 205 TPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHS 270 (691)
T ss_pred CchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHH
Confidence 3455555544443332344567899998643 34455555543 2489999999987766554
No 421
>PRK06620 hypothetical protein; Validated
Probab=88.57 E-value=0.35 Score=52.56 Aligned_cols=19 Identities=37% Similarity=0.522 Sum_probs=16.4
Q ss_pred CcEEEECCCCCcHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAA 424 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~ 424 (1095)
+..+|+||||||||+.+..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3479999999999998874
No 422
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=88.57 E-value=1.2 Score=56.38 Aligned_cols=63 Identities=22% Similarity=0.276 Sum_probs=50.8
Q ss_pred CCHHHHHHHHHHhc---C--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 391 LNASQVFAVKSVLQ---R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 391 LN~sQ~~AV~~aL~---~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
-...|..|++.... . ...+|.|..|||||.|++.++..+ +.++||++++...|.+|.+-|...
T Consensus 10 ~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~----~~p~Lvi~~n~~~A~ql~~el~~f 77 (655)
T TIGR00631 10 PAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV----NRPTLVIAHNKTLAAQLYNEFKEF 77 (655)
T ss_pred CChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh----CCCEEEEECCHHHHHHHHHHHHHh
Confidence 35688888887653 2 256799999999999999877653 348999999999999999988765
No 423
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=88.50 E-value=0.45 Score=55.46 Aligned_cols=45 Identities=22% Similarity=0.370 Sum_probs=30.5
Q ss_pred HHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 394 sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
...+.+..+.. +...||.||.||||||++..++..+-. ..+|+.+
T Consensus 150 ~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~~--~~rivti 195 (344)
T PRK13851 150 DLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIPP--QERLITI 195 (344)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccCC--CCCEEEE
Confidence 34444444443 678999999999999999887765532 2355543
No 424
>PRK14532 adenylate kinase; Provisional
Probab=88.48 E-value=0.34 Score=50.93 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=17.5
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1095)
.+|.|||||||||....++..
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999998776543
No 425
>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=88.39 E-value=0.59 Score=51.05 Aligned_cols=34 Identities=18% Similarity=0.209 Sum_probs=23.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1095)
.-|.||+|+||||++..++..|... ...+|.++.
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~ 36 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELIT 36 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEe
Confidence 5688999999999988777665432 223555544
No 426
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=88.37 E-value=1.8 Score=54.17 Aligned_cols=147 Identities=22% Similarity=0.281 Sum_probs=87.2
Q ss_pred CCCHHHHHHHHHHhc---CCcEEE-ECCCCCcHHHHHHHHHHHHHH-c-CCCcEEEEcCcHHHHHHHHHHHHhc--CCcE
Q 001347 390 ELNASQVFAVKSVLQ---RPISLI-QGPPGTGKTVTSAAIVYHMAK-Q-GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~lsLI-qGPPGTGKTtTla~iI~~Llk-~-~~~rILV~ApSN~AVD~L~eRL~~~--gl~i 461 (1095)
.|-+.|.+-+.-..+ +++-.| ---=|=|||.-...++.+|.. . -+++.||++|--..- +....+.+. .+++
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~-NW~~Ef~rf~P~l~~ 245 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLD-NWMNEFKRFTPSLNV 245 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHH-HHHHHHHHhCCCcce
Confidence 577788877766543 555444 446799999755555555554 3 356899999965444 444444443 3444
Q ss_pred EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHHh--ccccccccc
Q 001347 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQ--SADVICCTC 539 (1095)
Q Consensus 462 VRlg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~L~kl~~lk~e~~els~~~~k~y~~l~~~~e~~iL~--~a~VI~~T~ 539 (1095)
+.+.....+ + ....+.++. ..+|+++|.
T Consensus 246 ~~~~Gdk~e---------------------------------------------R-----~~~~r~~~~~~~fdV~iTsY 275 (971)
T KOG0385|consen 246 VVYHGDKEE---------------------------------------------R-----AALRRDIMLPGRFDVCITSY 275 (971)
T ss_pred EEEeCCHHH---------------------------------------------H-----HHHHHHhhccCCCceEeehH
Confidence 444221100 0 000111111 345666554
Q ss_pred cccCC--ccccCCCCCEEEEECCCCCCchhhhhh-cc---ccCceEEEecCcCC
Q 001347 540 VGAGD--PRLANFRFRQVLIDESTQATEPECLIP-LV---LGAKQVVLVGDHCQ 587 (1095)
Q Consensus 540 ~~a~~--~~L~~~~Fd~VIIDEAsQ~tE~e~LIp-L~---~~~krlILVGD~~Q 587 (1095)
-.+.. ..|..+.+.++|||||..+--..+++. ++ ....++.|-|=|-|
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 44332 247778999999999999877655432 22 24679999999999
No 427
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=88.36 E-value=0.58 Score=53.73 Aligned_cols=41 Identities=20% Similarity=0.310 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHHhc-----------CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 389 PELNASQVFAVKSVLQ-----------RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-----------~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
..|+++|++++..++. ....+|.|+||||||++...+...|
T Consensus 106 ~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 106 EQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred hcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 4799999988877763 3568899999999999987766554
No 428
>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=88.35 E-value=0.97 Score=51.04 Aligned_cols=25 Identities=28% Similarity=0.367 Sum_probs=20.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
..++|.||+|+||||++..++..+.
T Consensus 112 ~~~~i~g~~g~GKttl~~~l~~~~~ 136 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLRDLARILS 136 (270)
T ss_pred eEEEEEcCCCCCHHHHHHHHhCccC
Confidence 3579999999999999888776543
No 429
>PRK06696 uridine kinase; Validated
Probab=88.35 E-value=0.62 Score=50.71 Aligned_cols=32 Identities=25% Similarity=0.385 Sum_probs=24.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1095)
+..|.|++||||||++..++..|-..+. .+++
T Consensus 24 iI~I~G~sgsGKSTlA~~L~~~l~~~g~-~v~~ 55 (223)
T PRK06696 24 RVAIDGITASGKTTFADELAEEIKKRGR-PVIR 55 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEE
Confidence 5779999999999999888877755432 4444
No 430
>PRK04040 adenylate kinase; Provisional
Probab=88.34 E-value=0.38 Score=51.24 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=20.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+.+|.|+|||||||++..+...|
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHh
Confidence 57899999999999988877765
No 431
>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=88.31 E-value=0.44 Score=49.74 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
..+.++.|+||+||||++..+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 3578999999999999988776553
No 432
>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=88.30 E-value=0.32 Score=49.90 Aligned_cols=21 Identities=24% Similarity=0.575 Sum_probs=17.4
Q ss_pred EEECCCCCcHHHHHHHHHHHH
Q 001347 409 LIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L 429 (1095)
+|.|||||||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 688999999998887776654
No 433
>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=88.29 E-value=0.67 Score=47.34 Aligned_cols=27 Identities=22% Similarity=0.479 Sum_probs=22.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
+.+|.|+||||||+++..+...+...+
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g 27 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRG 27 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 368999999999999988888776544
No 434
>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=88.20 E-value=0.86 Score=48.03 Aligned_cols=34 Identities=26% Similarity=0.404 Sum_probs=26.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
.+.+|.|++|+||||.+..+..+|-..+. +++++
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~-~v~~~ 37 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGY-DVLFT 37 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 46789999999999999998888766554 55544
No 435
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=88.14 E-value=2.2 Score=54.19 Aligned_cols=75 Identities=21% Similarity=0.363 Sum_probs=49.6
Q ss_pred CHHHHHHHHHHhc---CC-cEEEECCCCCcHHHHHHHHHHHHHHc-----------------------------------
Q 001347 392 NASQVFAVKSVLQ---RP-ISLIQGPPGTGKTVTSAAIVYHMAKQ----------------------------------- 432 (1095)
Q Consensus 392 N~sQ~~AV~~aL~---~~-lsLIqGPPGTGKTtTla~iI~~Llk~----------------------------------- 432 (1095)
=+.|+.-+..++. +. -.|+--|-|||||.-+..-...+.+.
T Consensus 23 Y~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p~~~s~~~g~~s~e~~e 102 (945)
T KOG1132|consen 23 YPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIPTQPSDSGGEKSEEAGE 102 (945)
T ss_pred chHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccCCCCccCCCCchhhhcC
Confidence 4577776666654 22 35889999999997664333222110
Q ss_pred ------CCCcEEEEcCcHHHHHHHHHHHHhcCC--cEEEecc
Q 001347 433 ------GQGQVLVCAPSNVAVDQLAEKISATGL--KVVRLCA 466 (1095)
Q Consensus 433 ------~~~rILV~ApSN~AVD~L~eRL~~~gl--~iVRlg~ 466 (1095)
+..+|..++-|++-..++..-+.+.+. +++-+++
T Consensus 103 ~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y~vkmtVLgS 144 (945)
T KOG1132|consen 103 PIACYTGIPKIYYASRTHSQLTQVVRELRRTGYRVKMTVLGS 144 (945)
T ss_pred ccccccCCceEEEecchHHHHHHHHHHHhhcCCCCceEEeec
Confidence 013699999999999998888887654 4445544
No 436
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=88.12 E-value=1.1 Score=54.51 Aligned_cols=78 Identities=28% Similarity=0.365 Sum_probs=56.3
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHH-HHHHHHHHcCCCcEEEEcCcHH----HHHHHHHHHHhcCCcE
Q 001347 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNV----AVDQLAEKISATGLKV 461 (1095)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla-~iI~~Llk~~~~rILV~ApSN~----AVD~L~eRL~~~gl~i 461 (1095)
+.+|-+-|..||++-|- ..-.+|.-+-+||||.+.- +=|..++..+ ++.|.+.|--. --+++.+|..+.++++
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 4456777889999998653 2345555544 48888777544 4467888888888886
Q ss_pred -EEecc
Q 001347 462 -VRLCA 466 (1095)
Q Consensus 462 -VRlg~ 466 (1095)
+|+|.
T Consensus 293 airVG~ 298 (830)
T COG1202 293 AIRVGM 298 (830)
T ss_pred EEEech
Confidence 77764
No 437
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=88.09 E-value=2.1 Score=54.40 Aligned_cols=56 Identities=25% Similarity=0.396 Sum_probs=43.3
Q ss_pred CCCHHHHHHHHHHhcC--------C--cEEEECCCCCcHHHHHHHHHHHHHHc-CC-----CcEEEEcCcHH
Q 001347 390 ELNASQVFAVKSVLQR--------P--ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQ-----GQVLVCAPSNV 445 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--------~--lsLIqGPPGTGKTtTla~iI~~Llk~-~~-----~rILV~ApSN~ 445 (1095)
.|=+.|++.++....+ . =.++.=-||+|||...+.+++.++++ +. .+.||+||+-.
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 4677899999876531 1 14556679999999999999999988 44 58999999754
No 438
>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=88.02 E-value=0.6 Score=52.03 Aligned_cols=34 Identities=38% Similarity=0.561 Sum_probs=29.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
+.++.|.+|+|||++.+.+...+.+.+. +||++.
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 5788999999999999999999988875 788775
No 439
>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=87.98 E-value=0.8 Score=54.75 Aligned_cols=51 Identities=25% Similarity=0.319 Sum_probs=40.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..+++|-|+||+|||+.+..++..+......+|++++.=. ..++|..|+..
T Consensus 194 g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-~~~~l~~Rl~~ 244 (421)
T TIGR03600 194 GDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEM-SAEQLGERLLA 244 (421)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCC-CHHHHHHHHHH
Confidence 5689999999999999999999888744345898887543 56677777654
No 440
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=87.98 E-value=0.64 Score=52.56 Aligned_cols=35 Identities=26% Similarity=0.280 Sum_probs=28.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1095)
+..|.|+.||||||++..++..|.+++ +|.++=..
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 56665443
No 441
>PRK05480 uridine/cytidine kinase; Provisional
Probab=87.94 E-value=0.63 Score=49.91 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=20.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+..|.|++||||||++..+...+
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 367899999999999887777665
No 442
>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=87.89 E-value=0.46 Score=47.24 Aligned_cols=23 Identities=30% Similarity=0.631 Sum_probs=19.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+.+|.|+||||||+++..+...+
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35799999999999988777654
No 443
>PRK02496 adk adenylate kinase; Provisional
Probab=87.88 E-value=0.44 Score=49.98 Aligned_cols=22 Identities=32% Similarity=0.729 Sum_probs=18.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6889999999999888776554
No 444
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=87.87 E-value=0.7 Score=48.78 Aligned_cols=39 Identities=21% Similarity=0.257 Sum_probs=29.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1095)
.+++.|.|+.||||||++..++..|...+. +|-++-++.
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 356789999999999999999988765443 566555433
No 445
>PLN02200 adenylate kinase family protein
Probab=87.79 E-value=0.43 Score=52.65 Aligned_cols=24 Identities=33% Similarity=0.560 Sum_probs=19.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+.+|.|+|||||||.+..++..+
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999988776543
No 446
>PRK14527 adenylate kinase; Provisional
Probab=87.76 E-value=0.45 Score=50.37 Aligned_cols=25 Identities=24% Similarity=0.622 Sum_probs=20.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
..+.+|.||||+||||.+..+...+
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999999999887766543
No 447
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=87.70 E-value=0.55 Score=57.47 Aligned_cols=26 Identities=27% Similarity=0.280 Sum_probs=22.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
...|++||||||||+++..++..|.-
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35899999999999999888877753
No 448
>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=87.67 E-value=1.1 Score=46.72 Aligned_cols=59 Identities=19% Similarity=0.246 Sum_probs=37.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH-----HHHHHHHhcCCcEEEecc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCA 466 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD-----~L~eRL~~~gl~iVRlg~ 466 (1095)
+..|.|++|||||+++..++..|...+. +|-++-+.+.-.+ .-..|+.+.+...+.+..
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 5679999999999999999988866553 6666544332222 122344455555554433
No 449
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=87.62 E-value=1.3 Score=54.55 Aligned_cols=53 Identities=25% Similarity=0.417 Sum_probs=36.9
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
.+.+++|.|--|+||||-++..++.-=-..++-|-++-|-..||-.++.|+..
T Consensus 370 ~n~vvvivgETGSGKTTQl~QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~ 422 (1042)
T KOG0924|consen 370 ENQVVVIVGETGSGKTTQLAQYLYEDGYADNGMIGCTQPRRVAAISVAKRVAE 422 (1042)
T ss_pred hCcEEEEEecCCCCchhhhHHHHHhcccccCCeeeecCchHHHHHHHHHHHHH
Confidence 38899999999999999876544321111233355555677888888988865
No 450
>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=87.60 E-value=0.7 Score=47.83 Aligned_cols=33 Identities=27% Similarity=0.480 Sum_probs=28.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
+.+..+-+|+||||+.+.+...+.+.+. +||++
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 4677899999999999999999988765 77775
No 451
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=87.59 E-value=0.39 Score=57.14 Aligned_cols=22 Identities=50% Similarity=0.806 Sum_probs=18.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~ 428 (1095)
-.|+.||||||||+++..++..
T Consensus 181 gvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 181 GVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred eEEEECCCCCCHHHHHHHHHHh
Confidence 4789999999999988776554
No 452
>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=87.57 E-value=0.7 Score=53.01 Aligned_cols=47 Identities=32% Similarity=0.564 Sum_probs=35.4
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc--CcHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA--PSNVAVDQLAEK 453 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A--pSN~AVD~L~eR 453 (1095)
++.++.|.-|+||||++++++.++.+.+. ++|+++ |.+...|-+-.+
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~-rtLlvS~Dpa~~L~d~l~~~ 50 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGK-RTLLVSTDPAHSLSDVLGQK 50 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS--EEEEESSTTTHHHHHHTS-
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCC-CeeEeecCCCccHHHHhCCc
Confidence 46789999999999999999999998875 888884 455555544443
No 453
>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=87.54 E-value=0.69 Score=52.18 Aligned_cols=35 Identities=23% Similarity=0.513 Sum_probs=22.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
++.+|.|-||+|||+.+..+...+...+ .+|.++.
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 5789999999999988888887776633 3555544
No 454
>PRK07261 topology modulation protein; Provisional
Probab=87.53 E-value=0.46 Score=49.68 Aligned_cols=20 Identities=25% Similarity=0.356 Sum_probs=17.1
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVY 427 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~ 427 (1095)
.+|.|+||+||||.+..+..
T Consensus 3 i~i~G~~GsGKSTla~~l~~ 22 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQ 22 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 58999999999999877643
No 455
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=87.49 E-value=0.75 Score=52.89 Aligned_cols=51 Identities=14% Similarity=0.258 Sum_probs=33.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-----CCcEEEEcCcH-HHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN-VAVDQLAEKIS 455 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN-~AVD~L~eRL~ 455 (1095)
..+++|.|+||||||+++..++....... ..+++.+..-+ --.+.|.+.+.
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~ 158 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAE 158 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHH
Confidence 56799999999999999999887654321 12555555433 23455555443
No 456
>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=48.50 Aligned_cols=20 Identities=35% Similarity=0.705 Sum_probs=17.0
Q ss_pred EECCCCCcHHHHHHHHHHHH
Q 001347 410 IQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 410 IqGPPGTGKTtTla~iI~~L 429 (1095)
|.|||||||||.+..+...+
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 457
>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=87.44 E-value=0.66 Score=51.44 Aligned_cols=32 Identities=28% Similarity=0.579 Sum_probs=27.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
++++ |..|+||||+.+.+...|.+.+. |||++
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 89999999999999999998765 88887
No 458
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=87.36 E-value=3.3 Score=54.66 Aligned_cols=51 Identities=20% Similarity=0.184 Sum_probs=42.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1095)
--+||=--|||||.|+..++..|++. ...+|++++--+.--+++.+-+...
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 48999999999999999999888877 3458999999888888888766543
No 459
>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=87.36 E-value=0.87 Score=47.49 Aligned_cols=34 Identities=32% Similarity=0.585 Sum_probs=27.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1095)
++++.+-.|+|||++.+.++..|.+++. +||++=
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 4678899999999999999999999665 666653
No 460
>PRK14528 adenylate kinase; Provisional
Probab=87.36 E-value=0.49 Score=50.12 Aligned_cols=23 Identities=26% Similarity=0.570 Sum_probs=18.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
..+|.||||+||||++..+...+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36899999999999987765443
No 461
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=87.36 E-value=0.94 Score=49.91 Aligned_cols=58 Identities=19% Similarity=0.238 Sum_probs=40.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH---HHHHHHHhcCCcEEEec
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATGLKVVRLC 465 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD---~L~eRL~~~gl~iVRlg 465 (1095)
+.-|.|++|+||||++..++..|..++. +|.++-+++.-.| .=..|+.+.|..++-+.
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G~-~V~viK~~~~~~d~~~~Dt~r~~~aGA~~v~~~ 63 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERGY-RVATAKHTHHEFDKPDTDTYRFKKAGAEVVVVS 63 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCCC-eEEEEEecccCCCCCCchHHHHHHcCCcEEEEe
Confidence 4568999999999999999999877654 8888865544322 12334555555555543
No 462
>COG3911 Predicted ATPase [General function prediction only]
Probab=87.29 E-value=0.48 Score=48.61 Aligned_cols=21 Identities=38% Similarity=0.575 Sum_probs=18.0
Q ss_pred CcEEEECCCCCcHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIV 426 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI 426 (1095)
.+++|.|+||.||||.++++.
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa 30 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALA 30 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHH
Confidence 478999999999999887654
No 463
>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=87.28 E-value=0.49 Score=50.27 Aligned_cols=27 Identities=37% Similarity=0.596 Sum_probs=22.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1095)
+.-|.||+|+||||++..+...|-+.+
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 356999999999999988887776543
No 464
>PRK00279 adk adenylate kinase; Reviewed
Probab=87.09 E-value=0.51 Score=51.01 Aligned_cols=21 Identities=33% Similarity=0.635 Sum_probs=17.4
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1095)
.+|.||||+||||++..+...
T Consensus 3 I~v~G~pGsGKsT~a~~la~~ 23 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEK 23 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999987766544
No 465
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=87.04 E-value=0.38 Score=58.67 Aligned_cols=22 Identities=45% Similarity=0.779 Sum_probs=19.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
+|++||||||||..+-+++.+|
T Consensus 226 vLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 226 VLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred eeeeCCCCccHHHHHHHHhhhc
Confidence 7999999999999988887665
No 466
>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=86.94 E-value=0.83 Score=57.28 Aligned_cols=43 Identities=21% Similarity=0.349 Sum_probs=29.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AV 447 (1095)
....++.||||||||+++..++..|-...-..++++..++.-.
T Consensus 37 ~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~ 79 (608)
T TIGR00764 37 KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPN 79 (608)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCc
Confidence 5688999999999999988877665433213455555443333
No 467
>PHA02624 large T antigen; Provisional
Probab=86.88 E-value=0.65 Score=57.38 Aligned_cols=36 Identities=28% Similarity=0.341 Sum_probs=27.8
Q ss_pred HHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHH
Q 001347 394 SQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 394 sQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
.=..+++..+. +...|+.||||||||+.+..++..|
T Consensus 416 ~~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 416 VIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 34455565554 5689999999999999999888765
No 468
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=86.86 E-value=1 Score=46.79 Aligned_cols=33 Identities=24% Similarity=0.418 Sum_probs=24.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
+..|+|-||+||||++.++...|...+. ++.++
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~g~-~~~~L 36 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFARGI-KVYLL 36 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS--EEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEe
Confidence 4678999999999887777777776654 44443
No 469
>PRK06547 hypothetical protein; Provisional
Probab=86.83 E-value=0.77 Score=48.29 Aligned_cols=23 Identities=35% Similarity=0.511 Sum_probs=18.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~ 428 (1095)
.+.+|.|++||||||++..+...
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 35678899999999998777654
No 470
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=86.83 E-value=1.5 Score=51.54 Aligned_cols=61 Identities=21% Similarity=0.325 Sum_probs=46.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH-----HHHHHHHhcCCcEEEeccc
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCAK 467 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD-----~L~eRL~~~gl~iVRlg~~ 467 (1095)
++.-|.|++||||||++..++..|.+++. +|.++-++....| .=..|+.+.|...+-+...
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 46789999999999999999999877665 8888887776543 1245666677766665443
No 471
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=86.82 E-value=0.48 Score=55.44 Aligned_cols=23 Identities=30% Similarity=0.380 Sum_probs=19.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
..+|+||||||||..+..++..+
T Consensus 150 gllL~GPPGcGKTllAraiA~el 172 (413)
T PLN00020 150 ILGIWGGKGQGKSFQCELVFKKM 172 (413)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHc
Confidence 57899999999999887776654
No 472
>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=86.73 E-value=1.1 Score=46.78 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=26.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
+.+|.|++|+||||.+..+..+|-..+. ++.++
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 4689999999999999999888865554 55444
No 473
>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=86.72 E-value=0.67 Score=54.14 Aligned_cols=26 Identities=46% Similarity=0.690 Sum_probs=20.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
.+..||.||||||||-++..+...|-
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 46789999999999999988887663
No 474
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=86.61 E-value=0.94 Score=51.09 Aligned_cols=24 Identities=38% Similarity=0.609 Sum_probs=18.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+.+|+.||||.||||.+.-++..|
T Consensus 53 DHvLl~GPPGlGKTTLA~IIA~Em 76 (332)
T COG2255 53 DHVLLFGPPGLGKTTLAHIIANEL 76 (332)
T ss_pred CeEEeeCCCCCcHHHHHHHHHHHh
Confidence 568999999999998765555444
No 475
>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=86.57 E-value=0.53 Score=50.69 Aligned_cols=21 Identities=33% Similarity=0.661 Sum_probs=17.2
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1095)
.+|.|||||||||.+..+...
T Consensus 2 I~i~G~pGsGKsT~a~~La~~ 22 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEK 22 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 579999999999987766543
No 476
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=86.45 E-value=0.54 Score=61.21 Aligned_cols=75 Identities=23% Similarity=0.360 Sum_probs=55.0
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh-----cCCcEEE
Q 001347 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA-----TGLKVVR 463 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~-----~gl~iVR 463 (1095)
+.|+-|.+.+..... ++.++|-.|.|||||.++-.++.. .....++...+|...-++.+.+-..+ .|+.+++
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 457788777776654 678999999999999876544433 33456899999999999888765543 3566777
Q ss_pred ecc
Q 001347 464 LCA 466 (1095)
Q Consensus 464 lg~ 466 (1095)
++.
T Consensus 1221 l~g 1223 (1674)
T KOG0951|consen 1221 LTG 1223 (1674)
T ss_pred cCC
Confidence 654
No 477
>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=86.41 E-value=0.89 Score=52.56 Aligned_cols=40 Identities=25% Similarity=0.357 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHhcC----CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 392 NASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 392 N~sQ~~AV~~aL~~----~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
++...+.+...+.+ ...|+.||||+|||+++..++..|..
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 44555555555542 34789999999999998888877653
No 478
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=86.40 E-value=0.49 Score=59.72 Aligned_cols=20 Identities=55% Similarity=0.853 Sum_probs=16.8
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVY 427 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~ 427 (1095)
+|+.||||||||..+.+++-
T Consensus 347 vLL~GPPGTGKTLLAKAiAG 366 (774)
T KOG0731|consen 347 VLLVGPPGTGKTLLAKAIAG 366 (774)
T ss_pred eEEECCCCCcHHHHHHHHhc
Confidence 69999999999997766653
No 479
>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=86.38 E-value=0.49 Score=57.78 Aligned_cols=21 Identities=48% Similarity=0.805 Sum_probs=18.3
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1095)
.|+.||||||||+++..++..
T Consensus 91 iLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 91 VLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 789999999999998877654
No 480
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=86.38 E-value=0.82 Score=52.84 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=41.2
Q ss_pred CCCCHHHHHHHHHHhcCC-cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001347 389 PELNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~-lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1095)
..++..|.+.+..+.... -.||.|+-||||||++.++....-. ..||+.+=-|
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 368999999999888755 6899999999999999887765433 2377776543
No 481
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=86.36 E-value=0.85 Score=53.01 Aligned_cols=24 Identities=29% Similarity=0.360 Sum_probs=19.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001347 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
+-+|+.|+||||||+++..+...|
T Consensus 30 ~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHHC
Confidence 569999999999999877666544
No 482
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=86.35 E-value=1.4 Score=55.24 Aligned_cols=67 Identities=24% Similarity=0.449 Sum_probs=48.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHH---c--CCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAK---Q--GQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk---~--~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
|-+-++|+ .+.++-.+++++|.|--|+||||-+=..++..=- + .++=|-|+-|-..||-.|++|+..
T Consensus 256 PI~aeEq~-IMEaIn~n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~ 327 (1172)
T KOG0926|consen 256 PIVAEEQR-IMEAINENPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAF 327 (1172)
T ss_pred chhHHHHH-HHHHhhcCCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHH
Confidence 34556663 4555555899999999999999988766654311 1 133588999999999999999753
No 483
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.33 E-value=0.71 Score=56.99 Aligned_cols=25 Identities=24% Similarity=0.315 Sum_probs=21.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1095)
..|++||||||||+++..++..|..
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4789999999999999888877753
No 484
>PRK05748 replicative DNA helicase; Provisional
Probab=86.32 E-value=1.1 Score=54.24 Aligned_cols=50 Identities=16% Similarity=0.258 Sum_probs=39.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1095)
..+++|-|.||+|||+.+..++..++.....+|++.+.-.. .++|..|+.
T Consensus 203 G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms-~~~l~~R~l 252 (448)
T PRK05748 203 NDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMG-AESLVMRML 252 (448)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCC-HHHHHHHHH
Confidence 46899999999999999999999887654458988876543 446777764
No 485
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=86.31 E-value=2 Score=52.43 Aligned_cols=69 Identities=22% Similarity=0.307 Sum_probs=52.4
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHHcC------CCcEEEEcCcHHHHHHHHHHHHhcC
Q 001347 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQG------QGQVLVCAPSNVAVDQLAEKISATG 458 (1095)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~~------~~rILV~ApSN~AVD~L~eRL~~~g 458 (1095)
.-.+.|+.|+-..+.....+.++|-|+|||.. ..-++.+|.... .-+.+|++||..-+.++...+.++.
T Consensus 158 ~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~ 233 (593)
T KOG0344|consen 158 EPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYS 233 (593)
T ss_pred CCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcC
Confidence 34578999999999999999999999999643 234455554332 1379999999999998888776654
No 486
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=86.30 E-value=0.78 Score=57.63 Aligned_cols=38 Identities=29% Similarity=0.486 Sum_probs=26.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1095)
....+|.||||||||+++..+...|-...-..+++..-
T Consensus 50 ~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n 87 (637)
T PRK13765 50 RRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN 87 (637)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC
Confidence 67899999999999999888776543222124444433
No 487
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=86.29 E-value=0.86 Score=51.10 Aligned_cols=32 Identities=31% Similarity=0.577 Sum_probs=27.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
+++. |--|+|||||.+.+.+.|.+.+. |||++
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 89999999999999999998876 89887
No 488
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=86.27 E-value=1.1 Score=50.82 Aligned_cols=26 Identities=35% Similarity=0.586 Sum_probs=23.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1095)
..|+.||||||||+++..+...|.-.
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
>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=86.25 E-value=0.89 Score=51.98 Aligned_cols=26 Identities=23% Similarity=0.374 Sum_probs=22.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
..+++|.|+||||||+++..++....
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~ 120 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQ 120 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 45789999999999999998876654
No 490
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=86.24 E-value=0.53 Score=49.43 Aligned_cols=19 Identities=37% Similarity=0.672 Sum_probs=15.6
Q ss_pred cEEEECCCCCcHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAI 425 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~i 425 (1095)
..+|+|.|||||||+...+
T Consensus 2 ~I~ITGTPGvGKTT~~~~L 20 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLL 20 (180)
T ss_pred eEEEeCCCCCchHHHHHHH
Confidence 4689999999999976543
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=86.21 E-value=0.88 Score=51.97 Aligned_cols=31 Identities=32% Similarity=0.545 Sum_probs=26.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1095)
.++ |-.|+|||+|.+.+...|.++++ |||++
T Consensus 4 av~-gKGGvGKTT~a~nLA~~La~~g~-rVLlI 34 (296)
T TIGR02016 4 AIY-GKGGSGKSFTTTNLSHMMAEMGK-RVLQL 34 (296)
T ss_pred EEE-CCCCCCHHHHHHHHHHHHHHCCC-eEEEE
Confidence 444 99999999999999999998765 88776
No 492
>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=86.18 E-value=1.4 Score=48.87 Aligned_cols=51 Identities=27% Similarity=0.374 Sum_probs=39.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1095)
..+++|-|.||.|||+.+..++.+++.....+||+++.=... +++..|+..
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~-~~l~~R~la 69 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSE-EELAARLLA 69 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-H-HHHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCH-HHHHHHHHH
Confidence 468999999999999999999999998755699999874433 346666543
No 493
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=86.13 E-value=2.5 Score=49.27 Aligned_cols=44 Identities=11% Similarity=0.119 Sum_probs=30.9
Q ss_pred CCCEEEEECCCCCCch--hhhhhccc---cCceEEEecC-cCCCCceeec
Q 001347 551 RFRQVLIDESTQATEP--ECLIPLVL---GAKQVVLVGD-HCQLGPVIMC 594 (1095)
Q Consensus 551 ~Fd~VIIDEAsQ~tE~--e~LIpL~~---~~krlILVGD-~~QLpPvv~s 594 (1095)
.+++||||+|..+++. ..|+...- ...-+||+-+ +.+|.|++.|
T Consensus 108 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrS 157 (334)
T PRK07993 108 GAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRS 157 (334)
T ss_pred CceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHh
Confidence 6889999999999873 34555442 2346777776 4679998865
No 494
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=86.10 E-value=0.58 Score=48.78 Aligned_cols=26 Identities=35% Similarity=0.641 Sum_probs=22.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHH
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1095)
.++++|.||-|||||+++-++.+.|-
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 68999999999999999977766554
No 495
>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=86.01 E-value=0.87 Score=48.61 Aligned_cols=39 Identities=26% Similarity=0.458 Sum_probs=27.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCc
Q 001347 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPS 443 (1095)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApS 443 (1095)
.+..||.|.+|+|||+++..++..|+.. ...+|.++-+.
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 33356665554
No 496
>PRK05439 pantothenate kinase; Provisional
Probab=85.97 E-value=0.96 Score=52.05 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=24.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1095)
+..|.|+||+||||++..+...|-+. ...+|.+++
T Consensus 88 iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 88 IIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 45699999999999998777655433 223555554
No 497
>PRK13947 shikimate kinase; Provisional
Probab=85.93 E-value=0.65 Score=47.85 Aligned_cols=22 Identities=27% Similarity=0.394 Sum_probs=18.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1095)
.+|.|+||||||++...+...|
T Consensus 4 I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 6889999999999887776554
No 498
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=85.82 E-value=0.66 Score=49.13 Aligned_cols=21 Identities=38% Similarity=0.719 Sum_probs=18.2
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001347 408 SLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1095)
.+|.||||+||||.+..+...
T Consensus 3 iiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988877765
No 499
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=85.79 E-value=0.65 Score=55.61 Aligned_cols=35 Identities=29% Similarity=0.343 Sum_probs=24.5
Q ss_pred HHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHH
Q 001347 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (1095)
Q Consensus 394 sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~ 428 (1095)
.=++|+.-+.. ..-.|+.||||||||.++..+-..
T Consensus 186 ~AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl~~l 221 (490)
T COG0606 186 QAKRALEIAAAGGHNLLLVGPPGTGKTMLASRLPGL 221 (490)
T ss_pred HHHHHHHHHHhcCCcEEEecCCCCchHHhhhhhccc
Confidence 33555555444 556789999999999987765543
No 500
>CHL00195 ycf46 Ycf46; Provisional
Probab=85.78 E-value=0.6 Score=56.92 Aligned_cols=23 Identities=39% Similarity=0.471 Sum_probs=18.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001347 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1095)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1095)
-.|+.||||||||.++.++...+
T Consensus 261 GILL~GPpGTGKTllAkaiA~e~ 283 (489)
T CHL00195 261 GLLLVGIQGTGKSLTAKAIANDW 283 (489)
T ss_pred eEEEECCCCCcHHHHHHHHHHHh
Confidence 47899999999999887776543
Done!