Query 001054
Match_columns 1171
No_of_seqs 634 out of 2668
Neff 5.8
Searched_HMMs 46136
Date Thu Mar 28 14:33:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001054.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001054hhsearch_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 7E-177 2E-181 1511.0 60.8 791 118-920 38-934 (935)
2 TIGR00376 DNA helicase, putati 100.0 2.6E-78 5.6E-83 740.2 51.1 551 244-825 26-636 (637)
3 KOG1803 DNA helicase [Replicat 100.0 6E-78 1.3E-82 697.4 31.7 555 256-825 53-634 (649)
4 KOG1805 DNA replication helica 100.0 8.5E-62 1.8E-66 581.5 24.9 389 388-821 667-1077(1100)
5 KOG1807 Helicases [Replication 100.0 9.5E-50 2.1E-54 466.4 24.3 282 526-821 693-978 (1025)
6 COG1112 Superfamily I DNA and 100.0 1.6E-44 3.4E-49 453.3 35.2 485 326-824 207-754 (767)
7 PF09416 UPF1_Zn_bind: RNA hel 100.0 4.6E-46 1E-50 371.8 6.7 95 143-239 1-95 (152)
8 KOG1804 RNA helicase [RNA proc 100.0 2.9E-36 6.3E-41 366.3 11.2 373 405-824 326-724 (775)
9 KOG1801 tRNA-splicing endonucl 100.0 1.8E-34 3.8E-39 362.0 25.2 293 531-825 514-815 (827)
10 PF13087 AAA_12: AAA domain; P 100.0 1E-33 2.2E-38 299.4 7.4 195 602-799 1-200 (200)
11 PF13086 AAA_11: AAA domain; P 100.0 1.9E-30 4.1E-35 277.4 15.8 204 390-594 1-235 (236)
12 PRK10875 recD exonuclease V su 100.0 4.2E-30 9.2E-35 312.9 19.6 238 347-637 111-377 (615)
13 TIGR01447 recD exodeoxyribonuc 100.0 1.9E-30 4.1E-35 315.4 14.1 339 393-801 148-574 (586)
14 PRK11773 uvrD DNA-dependent he 100.0 3.1E-30 6.8E-35 322.7 15.7 303 389-725 8-363 (721)
15 TIGR01075 uvrD DNA helicase II 100.0 4.1E-30 8.9E-35 321.6 14.8 303 389-723 3-356 (715)
16 TIGR01073 pcrA ATP-dependent D 100.0 4.4E-29 9.6E-34 313.0 18.9 303 389-723 3-358 (726)
17 PRK10919 ATP-dependent DNA hel 100.0 1.3E-28 2.8E-33 305.5 21.2 240 390-640 2-293 (672)
18 PRK11054 helD DNA helicase IV; 100.0 2.1E-28 4.6E-33 302.1 21.0 368 389-798 195-663 (684)
19 TIGR01448 recD_rel helicase, p 100.0 7.7E-28 1.7E-32 299.8 18.7 300 389-802 322-702 (720)
20 KOG1806 DEAD box containing he 99.9 1.1E-27 2.4E-32 288.0 10.0 417 390-813 738-1262(1320)
21 TIGR01074 rep ATP-dependent DN 99.9 3.2E-26 7E-31 284.8 19.7 242 390-640 1-292 (664)
22 COG0210 UvrD Superfamily I DNA 99.9 5.7E-24 1.2E-28 264.3 18.3 312 390-731 2-371 (655)
23 TIGR02768 TraA_Ti Ti-type conj 99.9 1.2E-23 2.6E-28 263.1 20.8 155 389-629 351-509 (744)
24 TIGR00609 recB exodeoxyribonuc 99.9 5.6E-23 1.2E-27 266.7 17.8 173 550-733 295-493 (1087)
25 PRK13826 Dtr system oriT relax 99.9 1.5E-22 3.3E-27 256.9 20.3 169 389-643 380-552 (1102)
26 TIGR02785 addA_Gpos recombinat 99.9 8.8E-23 1.9E-27 267.6 18.1 64 391-456 2-67 (1232)
27 PRK13889 conjugal transfer rel 99.9 2.3E-22 5.1E-27 254.3 20.0 169 389-643 345-517 (988)
28 COG1074 RecB ATP-dependent exo 99.9 1.4E-22 3E-27 263.7 14.6 173 550-732 377-577 (1139)
29 PRK13909 putative recombinatio 99.9 1.6E-21 3.5E-26 249.6 19.8 156 550-732 327-494 (910)
30 PRK10876 recB exonuclease V su 99.8 3.5E-21 7.6E-26 250.8 14.7 173 550-733 376-575 (1181)
31 TIGR02784 addA_alphas double-s 99.8 6.9E-20 1.5E-24 240.1 23.0 162 550-721 390-596 (1141)
32 PF13604 AAA_30: AAA domain; P 99.8 2.3E-19 5.1E-24 191.5 9.3 174 390-644 1-179 (196)
33 PRK13709 conjugal transfer nic 99.8 3E-18 6.6E-23 225.9 20.4 173 389-643 966-1147(1747)
34 PRK14712 conjugal transfer nic 99.8 4.3E-18 9.3E-23 221.7 19.5 166 389-635 834-1008(1623)
35 COG3973 Superfamily I DNA and 99.7 5.1E-17 1.1E-21 190.3 13.4 208 550-797 527-745 (747)
36 TIGR02760 TraI_TIGR conjugativ 99.7 1.8E-16 3.8E-21 214.4 17.7 171 389-642 1018-1198(1960)
37 PF01443 Viral_helicase1: Vira 99.7 7.4E-17 1.6E-21 174.7 7.1 168 551-795 62-233 (234)
38 COG0507 RecD ATP-dependent exo 99.6 1E-15 2.2E-20 192.0 6.8 133 389-595 318-453 (696)
39 PF00580 UvrD-helicase: UvrD/R 99.6 1.7E-15 3.7E-20 169.8 6.2 64 391-456 1-67 (315)
40 TIGR02760 TraI_TIGR conjugativ 99.5 1.2E-13 2.5E-18 187.5 21.3 167 390-630 429-601 (1960)
41 PF09848 DUF2075: Uncharacteri 99.5 2.3E-14 5.1E-19 166.1 8.2 164 406-642 2-183 (352)
42 COG3972 Superfamily I DNA and 99.4 1.2E-13 2.6E-18 159.0 8.2 359 389-797 161-575 (660)
43 PF05970 PIF1: PIF1-like helic 99.3 1.6E-12 3.6E-17 151.5 5.4 60 390-450 1-66 (364)
44 PF13361 UvrD_C: UvrD-like hel 99.3 1.9E-12 4.1E-17 146.7 4.7 96 618-733 1-101 (351)
45 PF13245 AAA_19: Part of AAA d 99.2 3.4E-11 7.3E-16 110.0 7.4 58 397-454 1-62 (76)
46 PF02562 PhoH: PhoH-like prote 98.9 1.4E-09 3E-14 117.1 4.9 57 389-445 3-60 (205)
47 PRK10536 hypothetical protein; 98.9 9.4E-09 2E-13 113.8 10.6 57 387-443 56-113 (262)
48 TIGR02773 addB_Gpos ATP-depend 98.8 9.5E-08 2.1E-12 126.9 17.7 160 551-733 196-361 (1158)
49 smart00487 DEXDc DEAD-like hel 98.8 4.6E-08 1E-12 100.8 11.2 69 389-457 7-77 (201)
50 KOG1804 RNA helicase [RNA proc 98.7 6.7E-09 1.5E-13 128.7 1.5 390 389-827 119-550 (775)
51 PRK10590 ATP-dependent RNA hel 98.6 4.6E-06 1E-10 100.5 22.5 70 388-457 21-98 (456)
52 PF13538 UvrD_C_2: UvrD-like h 98.5 1.1E-08 2.4E-13 97.6 -0.5 50 742-795 55-104 (104)
53 cd00046 DEXDc DEAD-like helica 98.5 3E-07 6.5E-12 89.2 9.4 51 407-457 2-53 (144)
54 PF00270 DEAD: DEAD/DEAH box h 98.4 2.7E-06 5.8E-11 87.3 12.8 66 392-457 1-67 (169)
55 PRK04537 ATP-dependent RNA hel 98.3 0.00049 1.1E-08 85.5 32.9 70 388-457 29-107 (572)
56 PRK11634 ATP-dependent RNA hel 98.3 1.5E-05 3.2E-10 99.7 18.9 69 388-456 26-96 (629)
57 cd00268 DEADc DEAD-box helicas 98.3 6.7E-06 1.5E-10 87.5 13.2 69 389-457 20-92 (203)
58 KOG2108 3'-5' DNA helicase [Re 98.3 3.1E-07 6.8E-12 113.3 3.0 65 390-456 13-80 (853)
59 TIGR00580 mfd transcription-re 98.3 1.9E-05 4E-10 102.2 18.0 67 390-457 451-523 (926)
60 PRK10689 transcription-repair 98.2 2.5E-05 5.4E-10 103.1 17.4 66 390-456 600-671 (1147)
61 PRK11192 ATP-dependent RNA hel 98.1 8.6E-06 1.9E-10 97.4 10.8 69 388-456 21-95 (434)
62 PHA02558 uvsW UvsW helicase; P 98.1 1.3E-05 2.9E-10 97.7 12.0 68 390-457 114-181 (501)
63 PRK05580 primosome assembly pr 98.1 2.7E-05 5.9E-10 98.2 14.7 75 389-464 143-221 (679)
64 PTZ00424 helicase 45; Provisio 98.1 2E-05 4.3E-10 92.9 11.3 70 388-457 48-119 (401)
65 PRK11776 ATP-dependent RNA hel 98.0 3.7E-05 8.1E-10 92.7 12.6 70 388-457 24-95 (460)
66 PRK02362 ski2-like helicase; P 98.0 1E-05 2.3E-10 103.1 8.1 77 387-464 20-100 (737)
67 PRK10917 ATP-dependent DNA hel 98.0 5.4E-05 1.2E-09 95.7 13.6 67 390-457 261-333 (681)
68 TIGR00643 recG ATP-dependent D 98.0 4.8E-05 1E-09 95.4 13.0 67 390-457 235-307 (630)
69 PF07652 Flavi_DEAD: Flaviviru 98.0 1.7E-05 3.7E-10 80.9 7.1 53 405-458 4-57 (148)
70 PRK04837 ATP-dependent RNA hel 97.9 4.1E-05 8.8E-10 91.4 11.3 69 388-456 28-105 (423)
71 PRK00254 ski2-like helicase; P 97.9 2.4E-05 5.1E-10 99.6 9.7 69 387-456 20-90 (720)
72 PRK01172 ski2-like helicase; P 97.9 6.1E-05 1.3E-09 95.2 11.9 66 390-456 22-87 (674)
73 PF04851 ResIII: Type III rest 97.8 3.6E-05 7.8E-10 79.5 7.1 64 390-457 3-73 (184)
74 COG1061 SSL2 DNA or RNA helica 97.8 7.1E-05 1.5E-09 90.1 9.7 65 389-457 35-103 (442)
75 PTZ00110 helicase; Provisional 97.7 0.00019 4E-09 88.7 12.9 71 387-457 149-226 (545)
76 COG1875 NYN ribonuclease and A 97.7 6.3E-05 1.4E-09 86.2 7.9 56 388-443 226-285 (436)
77 TIGR03817 DECH_helic helicase/ 97.7 0.0002 4.3E-09 91.4 12.7 71 388-458 34-105 (742)
78 PRK01297 ATP-dependent RNA hel 97.7 0.00027 5.8E-09 85.8 12.7 70 388-457 107-185 (475)
79 PRK13766 Hef nuclease; Provisi 97.7 0.00022 4.8E-09 91.6 12.6 67 390-457 15-81 (773)
80 PRK11448 hsdR type I restricti 97.6 0.00019 4.1E-09 94.7 10.7 69 390-458 413-487 (1123)
81 TIGR01054 rgy reverse gyrase. 97.6 0.0002 4.3E-09 95.0 10.8 67 390-457 78-144 (1171)
82 PRK09401 reverse gyrase; Revie 97.6 0.00032 6.9E-09 93.1 12.0 68 390-458 80-147 (1176)
83 COG1204 Superfamily II helicas 97.6 0.00024 5.2E-09 90.4 10.1 77 388-464 29-109 (766)
84 PLN00206 DEAD-box ATP-dependen 97.5 0.00049 1.1E-08 84.6 12.1 68 389-456 142-218 (518)
85 COG1702 PhoH Phosphate starvat 97.5 0.00046 1E-08 79.0 10.6 55 388-442 126-181 (348)
86 TIGR00614 recQ_fam ATP-depende 97.5 0.00094 2E-08 81.1 13.9 74 388-465 9-82 (470)
87 TIGR00603 rad25 DNA repair hel 97.5 0.00036 7.7E-09 87.9 10.4 64 390-457 255-321 (732)
88 PRK08181 transposase; Validate 97.5 0.00061 1.3E-08 76.9 11.2 53 388-441 85-141 (269)
89 TIGR03117 cas_csf4 CRISPR-asso 97.5 0.00099 2.1E-08 83.1 13.4 58 398-455 8-67 (636)
90 PRK14712 conjugal transfer nic 97.4 0.00051 1.1E-08 92.3 11.2 63 390-453 281-346 (1623)
91 PRK14701 reverse gyrase; Provi 97.4 0.001 2.2E-08 90.6 13.5 67 390-457 79-145 (1638)
92 PHA02653 RNA helicase NPH-II; 97.4 0.00076 1.6E-08 84.9 11.4 69 388-456 161-244 (675)
93 PRK13767 ATP-dependent helicas 97.4 0.00085 1.9E-08 87.3 12.0 68 389-456 31-106 (876)
94 PRK07952 DNA replication prote 97.4 0.0013 2.8E-08 73.4 11.7 50 391-441 77-134 (244)
95 PRK06526 transposase; Provisio 97.4 0.00075 1.6E-08 75.6 9.8 51 389-440 79-132 (254)
96 TIGR00595 priA primosomal prot 97.3 0.00079 1.7E-08 82.5 10.7 48 409-457 1-48 (505)
97 PRK04296 thymidine kinase; Pro 97.3 0.00028 6E-09 75.5 6.0 36 406-442 3-38 (190)
98 PF05127 Helicase_RecD: Helica 97.3 2.5E-05 5.3E-10 82.7 -2.1 47 409-455 1-47 (177)
99 KOG2108 3'-5' DNA helicase [Re 97.3 3.5E-05 7.6E-10 95.7 -1.3 53 743-795 675-740 (853)
100 smart00489 DEXDc3 DEAD-like he 97.3 0.0022 4.8E-08 73.2 13.3 65 392-456 10-83 (289)
101 smart00488 DEXDc2 DEAD-like he 97.3 0.0022 4.8E-08 73.2 13.3 65 392-456 10-83 (289)
102 COG4098 comFA Superfamily II D 97.3 0.00082 1.8E-08 76.5 9.5 76 390-466 97-178 (441)
103 TIGR01389 recQ ATP-dependent D 97.3 0.0021 4.5E-08 80.3 14.2 73 388-464 11-83 (591)
104 PRK14974 cell division protein 97.3 0.0014 2.9E-08 76.4 11.6 56 406-462 141-199 (336)
105 PRK11664 ATP-dependent RNA hel 97.3 0.00085 1.8E-08 86.3 10.7 61 395-456 9-70 (812)
106 TIGR01970 DEAH_box_HrpB ATP-de 97.3 0.00098 2.1E-08 85.7 11.2 61 395-456 6-67 (819)
107 TIGR00348 hsdR type I site-spe 97.3 0.00089 1.9E-08 84.7 10.4 67 392-458 240-317 (667)
108 PRK11057 ATP-dependent DNA hel 97.2 0.0025 5.3E-08 80.0 13.7 72 389-464 24-95 (607)
109 COG4096 HsdR Type I site-speci 97.2 0.00084 1.8E-08 83.7 9.2 68 390-457 165-238 (875)
110 KOG0952 DNA/RNA helicase MER3/ 97.2 0.0013 2.8E-08 83.4 10.7 69 388-456 108-186 (1230)
111 COG1110 Reverse gyrase [DNA re 97.2 0.0011 2.4E-08 84.0 9.6 67 390-457 82-148 (1187)
112 PF00448 SRP54: SRP54-type pro 97.2 0.002 4.3E-08 69.6 10.3 56 407-463 3-61 (196)
113 TIGR01587 cas3_core CRISPR-ass 97.2 0.0016 3.4E-08 75.9 10.0 50 408-457 2-52 (358)
114 TIGR00604 rad3 DNA repair heli 97.2 0.0019 4.1E-08 82.4 11.5 65 392-456 12-82 (705)
115 COG0513 SrmB Superfamily II DN 97.1 0.013 2.8E-07 72.2 17.5 69 389-457 50-122 (513)
116 COG1198 PriA Primosomal protei 97.1 0.0016 3.6E-08 82.0 9.8 68 388-456 196-267 (730)
117 PF00176 SNF2_N: SNF2 family N 97.1 0.00059 1.3E-08 76.5 5.1 62 395-457 2-80 (299)
118 PRK13709 conjugal transfer nic 97.0 0.0033 7.2E-08 85.8 12.2 62 391-453 414-478 (1747)
119 KOG0354 DEAD-box like helicase 97.0 0.0026 5.7E-08 79.4 10.3 72 386-458 58-130 (746)
120 COG1484 DnaC DNA replication p 97.0 0.0032 6.9E-08 70.6 9.8 52 390-442 83-141 (254)
121 PRK07246 bifunctional ATP-depe 96.9 0.0049 1.1E-07 79.8 12.3 62 390-453 245-310 (820)
122 PF13173 AAA_14: AAA domain 96.9 0.0023 5E-08 63.9 7.1 41 405-447 2-42 (128)
123 PRK14722 flhF flagellar biosyn 96.9 0.0044 9.6E-08 73.0 10.3 48 405-452 137-188 (374)
124 PF02399 Herpes_ori_bp: Origin 96.9 0.0017 3.7E-08 81.6 7.1 55 405-459 49-103 (824)
125 PRK12899 secA preprotein trans 96.8 0.011 2.5E-07 75.7 14.0 66 390-456 92-157 (970)
126 TIGR02621 cas3_GSU0051 CRISPR- 96.8 0.0035 7.5E-08 80.2 9.4 67 391-457 16-85 (844)
127 TIGR03499 FlhF flagellar biosy 96.8 0.0062 1.3E-07 69.4 10.3 36 407-442 196-232 (282)
128 PF01695 IstB_IS21: IstB-like 96.8 0.006 1.3E-07 64.9 9.3 44 406-455 48-91 (178)
129 TIGR01967 DEAH_box_HrpA ATP-de 96.7 0.005 1.1E-07 81.9 10.4 62 395-456 71-133 (1283)
130 COG1111 MPH1 ERCC4-like helica 96.7 0.0057 1.2E-07 73.0 9.7 122 391-565 16-145 (542)
131 PRK12723 flagellar biosynthesi 96.7 0.0072 1.6E-07 71.7 10.5 55 406-460 175-235 (388)
132 cd00009 AAA The AAA+ (ATPases 96.7 0.0048 1E-07 60.3 7.7 55 393-448 4-61 (151)
133 COG4889 Predicted helicase [Ge 96.7 0.0098 2.1E-07 74.2 11.7 75 389-467 160-242 (1518)
134 PRK12377 putative replication 96.7 0.0068 1.5E-07 67.8 9.7 49 392-441 80-136 (248)
135 TIGR01407 dinG_rel DnaQ family 96.7 0.0061 1.3E-07 79.3 10.7 62 391-453 246-311 (850)
136 PHA03311 helicase-primase subu 96.7 0.0057 1.2E-07 75.9 9.7 45 406-456 72-116 (828)
137 PRK08074 bifunctional ATP-depe 96.7 0.0093 2E-07 78.3 12.3 62 392-453 259-324 (928)
138 COG1200 RecG RecG-like helicas 96.6 0.0095 2.1E-07 73.7 11.0 66 390-456 262-333 (677)
139 cd01124 KaiC KaiC is a circadi 96.6 0.0032 6.9E-08 66.1 6.0 52 407-460 1-52 (187)
140 PRK00771 signal recognition pa 96.6 0.008 1.7E-07 72.4 10.0 52 407-459 97-151 (437)
141 TIGR03158 cas3_cyano CRISPR-as 96.6 0.014 3.1E-07 68.6 11.9 59 395-457 2-62 (357)
142 PRK12898 secA preprotein trans 96.5 0.02 4.2E-07 71.9 12.8 72 390-464 103-178 (656)
143 PRK05703 flhF flagellar biosyn 96.5 0.012 2.6E-07 70.7 10.6 47 406-452 222-272 (424)
144 PRK11889 flhF flagellar biosyn 96.5 0.014 3.1E-07 69.0 10.8 55 406-461 242-299 (436)
145 TIGR03015 pepcterm_ATPase puta 96.4 0.018 3.9E-07 64.2 11.0 38 392-429 25-67 (269)
146 KOG0991 Replication factor C, 96.4 0.004 8.7E-08 68.0 5.3 27 405-431 48-74 (333)
147 PRK07003 DNA polymerase III su 96.4 0.0042 9E-08 78.2 6.1 25 407-431 40-64 (830)
148 PRK14958 DNA polymerase III su 96.4 0.0041 8.8E-08 76.4 5.9 25 407-431 40-64 (509)
149 PRK11747 dinG ATP-dependent DN 96.4 0.032 7E-07 71.2 13.9 59 393-453 28-97 (697)
150 TIGR01425 SRP54_euk signal rec 96.3 0.023 4.9E-07 68.2 11.4 54 407-461 102-158 (429)
151 PRK11131 ATP-dependent RNA hel 96.3 0.0033 7.1E-08 83.4 4.6 61 396-456 79-140 (1294)
152 PRK12323 DNA polymerase III su 96.3 0.0044 9.4E-08 77.1 5.3 25 407-431 40-64 (700)
153 COG1643 HrpA HrpA-like helicas 96.3 0.017 3.6E-07 74.3 10.6 63 395-457 54-117 (845)
154 COG1201 Lhr Lhr-like helicases 96.3 0.014 3E-07 74.6 9.7 69 389-457 21-96 (814)
155 PRK14956 DNA polymerase III su 96.2 0.0058 1.3E-07 74.0 5.6 25 407-431 42-66 (484)
156 COG1199 DinG Rad3-related DNA 96.1 0.032 6.9E-07 70.6 12.2 68 390-457 15-86 (654)
157 TIGR03714 secA2 accessory Sec 96.1 0.024 5.1E-07 72.1 10.5 71 390-462 68-143 (762)
158 smart00382 AAA ATPases associa 96.1 0.0047 1E-07 59.6 3.4 43 405-448 2-44 (148)
159 PRK04914 ATP-dependent helicas 96.1 0.025 5.5E-07 73.9 10.8 71 390-460 152-225 (956)
160 COG1205 Distinct helicase fami 96.1 0.027 5.8E-07 73.1 11.1 68 390-457 70-138 (851)
161 KOG0987 DNA helicase PIF1/RRM3 96.0 0.0037 8E-08 77.3 2.9 58 389-448 116-179 (540)
162 PRK07994 DNA polymerase III su 96.0 0.0081 1.8E-07 75.3 5.8 24 408-431 41-64 (647)
163 PLN03137 ATP-dependent DNA hel 95.9 0.057 1.2E-06 71.0 13.0 72 389-464 459-530 (1195)
164 PRK14949 DNA polymerase III su 95.9 0.0066 1.4E-07 77.7 4.5 25 407-431 40-64 (944)
165 TIGR00064 ftsY signal recognit 95.9 0.021 4.5E-07 64.9 7.8 56 406-462 73-131 (272)
166 PF06745 KaiC: KaiC; InterPro 95.8 0.015 3.2E-07 63.6 6.3 53 405-459 19-72 (226)
167 PRK14088 dnaA chromosomal repl 95.8 0.035 7.7E-07 67.1 10.0 35 407-441 132-167 (440)
168 PRK12727 flagellar biosynthesi 95.8 0.036 7.8E-07 67.8 9.9 37 405-441 350-387 (559)
169 KOG2028 ATPase related to the 95.8 0.014 3.1E-07 67.2 6.1 39 552-591 223-263 (554)
170 KOG0989 Replication factor C, 95.8 0.0097 2.1E-07 67.5 4.6 27 405-431 57-83 (346)
171 PRK14087 dnaA chromosomal repl 95.7 0.043 9.4E-07 66.6 10.2 37 406-442 142-179 (450)
172 PF13401 AAA_22: AAA domain; P 95.7 0.01 2.2E-07 58.5 4.0 52 405-456 4-60 (131)
173 KOG0330 ATP-dependent RNA heli 95.7 0.016 3.5E-07 67.2 6.1 68 390-457 83-152 (476)
174 PRK14963 DNA polymerase III su 95.6 0.023 5E-07 69.8 7.5 26 407-432 38-63 (504)
175 cd01121 Sms Sms (bacterial rad 95.6 0.033 7.2E-07 65.9 8.5 52 405-458 82-133 (372)
176 PRK14951 DNA polymerase III su 95.6 0.013 2.9E-07 73.2 5.4 25 407-431 40-64 (618)
177 cd00561 CobA_CobO_BtuR ATP:cor 95.6 0.056 1.2E-06 56.7 9.0 59 405-466 2-64 (159)
178 TIGR00708 cobA cob(I)alamin ad 95.5 0.038 8.3E-07 58.6 7.8 57 405-465 5-65 (173)
179 PRK12422 chromosomal replicati 95.5 0.061 1.3E-06 65.2 10.5 35 406-441 142-176 (445)
180 KOG1924 RhoA GTPase effector D 95.5 0.058 1.3E-06 66.8 10.0 20 981-1000 616-635 (1102)
181 PRK09200 preprotein translocas 95.5 0.097 2.1E-06 67.2 12.5 62 392-456 80-141 (790)
182 TIGR03877 thermo_KaiC_1 KaiC d 95.5 0.02 4.3E-07 63.4 5.6 54 405-460 21-74 (237)
183 PRK10416 signal recognition pa 95.4 0.034 7.4E-07 64.5 7.7 55 407-462 116-173 (318)
184 cd01129 PulE-GspE PulE/GspE Th 95.4 0.022 4.8E-07 64.3 5.9 50 390-440 63-114 (264)
185 COG0552 FtsY Signal recognitio 95.4 0.032 6.9E-07 64.3 7.1 58 407-464 141-200 (340)
186 PRK05973 replicative DNA helic 95.3 0.027 5.9E-07 62.7 6.0 53 405-459 64-116 (237)
187 KOG0333 U5 snRNP-like RNA heli 95.3 0.15 3.3E-06 61.3 12.4 79 387-465 264-357 (673)
188 cd03115 SRP The signal recogni 95.3 0.038 8.2E-07 57.7 6.8 34 407-441 2-35 (173)
189 PRK14948 DNA polymerase III su 95.3 0.023 5E-07 71.4 6.0 26 406-431 39-64 (620)
190 cd01131 PilT Pilus retraction 95.3 0.021 4.6E-07 61.5 4.9 37 405-441 1-37 (198)
191 PRK08691 DNA polymerase III su 95.3 0.026 5.6E-07 71.0 6.3 26 407-432 40-65 (709)
192 KOG0951 RNA helicase BRR2, DEA 95.3 0.028 6.1E-07 72.8 6.5 78 389-466 308-400 (1674)
193 PRK14969 DNA polymerase III su 95.3 0.031 6.8E-07 69.1 6.9 24 407-430 40-63 (527)
194 PRK14952 DNA polymerase III su 95.3 0.027 5.8E-07 70.2 6.4 24 407-430 37-60 (584)
195 COG1419 FlhF Flagellar GTP-bin 95.2 0.098 2.1E-06 62.0 10.5 48 405-452 203-254 (407)
196 PRK08116 hypothetical protein; 95.2 0.061 1.3E-06 60.9 8.5 34 407-441 116-149 (268)
197 PF00004 AAA: ATPase family as 95.2 0.014 3.1E-07 57.1 3.1 22 408-429 1-22 (132)
198 cd01120 RecA-like_NTPases RecA 95.2 0.031 6.6E-07 56.3 5.5 41 407-448 1-41 (165)
199 TIGR02774 rexB_recomb ATP-depe 95.2 0.23 5E-06 66.4 14.9 155 550-732 184-348 (1076)
200 KOG1924 RhoA GTPase effector D 95.1 0.073 1.6E-06 66.0 9.3 11 805-815 482-492 (1102)
201 PLN03142 Probable chromatin-re 95.1 0.11 2.4E-06 68.4 11.6 149 390-587 169-331 (1033)
202 PRK05563 DNA polymerase III su 95.1 0.029 6.3E-07 69.8 6.0 26 406-431 39-64 (559)
203 PRK08533 flagellar accessory p 95.1 0.032 6.9E-07 61.7 5.8 53 405-459 24-76 (230)
204 PRK07764 DNA polymerase III su 95.1 0.029 6.3E-07 72.5 6.1 25 407-431 39-63 (824)
205 PRK13833 conjugal transfer pro 95.0 0.043 9.4E-07 63.7 6.8 50 390-439 128-179 (323)
206 PRK08084 DNA replication initi 95.0 0.05 1.1E-06 60.3 7.0 53 390-443 27-82 (235)
207 TIGR03880 KaiC_arch_3 KaiC dom 95.0 0.038 8.2E-07 60.4 6.0 54 405-460 16-69 (224)
208 PRK13104 secA preprotein trans 95.0 0.064 1.4E-06 69.1 8.8 47 409-456 99-145 (896)
209 PRK09112 DNA polymerase III su 95.0 0.038 8.3E-07 64.9 6.2 26 407-432 47-72 (351)
210 COG2805 PilT Tfp pilus assembl 94.9 0.033 7.1E-07 63.3 5.3 34 405-438 125-158 (353)
211 PRK13894 conjugal transfer ATP 94.9 0.048 1E-06 63.3 6.9 53 390-442 132-186 (319)
212 KOG0335 ATP-dependent RNA heli 94.9 0.048 1.1E-06 65.5 7.0 68 390-457 96-175 (482)
213 PHA03333 putative ATPase subun 94.9 0.085 1.8E-06 66.0 9.2 64 394-457 176-239 (752)
214 TIGR03878 thermo_KaiC_2 KaiC d 94.9 0.035 7.6E-07 62.4 5.6 39 405-444 36-74 (259)
215 PRK14964 DNA polymerase III su 94.9 0.054 1.2E-06 66.2 7.4 24 407-430 37-60 (491)
216 PRK06893 DNA replication initi 94.9 0.074 1.6E-06 58.6 7.9 37 405-442 39-75 (229)
217 KOG0922 DEAH-box RNA helicase 94.9 0.09 2E-06 64.9 9.1 58 399-456 60-117 (674)
218 PRK10867 signal recognition pa 94.8 0.052 1.1E-06 65.4 7.0 55 407-462 102-160 (433)
219 PF13191 AAA_16: AAA ATPase do 94.8 0.05 1.1E-06 56.6 6.1 41 393-433 6-52 (185)
220 PRK09183 transposase/IS protei 94.8 0.063 1.4E-06 60.5 7.2 53 388-441 82-137 (259)
221 COG0507 RecD ATP-dependent exo 94.8 0.0065 1.4E-07 77.4 -0.7 64 389-452 200-272 (696)
222 TIGR02782 TrbB_P P-type conjug 94.8 0.052 1.1E-06 62.4 6.7 52 390-441 116-169 (299)
223 smart00763 AAA_PrkA PrkA AAA d 94.8 0.068 1.5E-06 62.7 7.6 27 405-431 78-104 (361)
224 PRK04328 hypothetical protein; 94.8 0.044 9.5E-07 61.3 5.9 54 405-460 23-76 (249)
225 TIGR00963 secA preprotein tran 94.8 0.14 3E-06 65.1 10.7 62 392-456 58-119 (745)
226 COG1197 Mfd Transcription-repa 94.7 0.32 6.9E-06 63.9 14.0 74 390-464 594-677 (1139)
227 PRK06067 flagellar accessory p 94.7 0.051 1.1E-06 59.8 6.2 55 405-461 25-79 (234)
228 TIGR02688 conserved hypothetic 94.7 0.11 2.4E-06 62.1 9.2 29 405-433 209-238 (449)
229 PRK14723 flhF flagellar biosyn 94.7 0.1 2.2E-06 66.6 9.4 53 406-458 186-242 (767)
230 PRK14086 dnaA chromosomal repl 94.7 0.13 2.9E-06 64.1 10.0 36 406-441 315-351 (617)
231 PF02689 Herpes_Helicase: Heli 94.6 0.086 1.9E-06 66.0 8.3 48 403-456 57-104 (818)
232 KOG0744 AAA+-type ATPase [Post 94.6 0.021 4.6E-07 65.1 2.9 26 405-430 177-202 (423)
233 PF13481 AAA_25: AAA domain; P 94.6 0.049 1.1E-06 57.6 5.5 52 405-457 32-92 (193)
234 TIGR00959 ffh signal recogniti 94.6 0.082 1.8E-06 63.7 7.9 57 407-463 101-160 (428)
235 PF05729 NACHT: NACHT domain 94.5 0.033 7.1E-07 56.6 3.7 28 406-433 1-28 (166)
236 KOG0339 ATP-dependent RNA heli 94.5 4.1 8.9E-05 49.5 21.0 77 390-466 245-332 (731)
237 PRK09694 helicase Cas3; Provis 94.5 0.11 2.4E-06 67.5 9.1 67 390-456 286-353 (878)
238 cd01122 GP4d_helicase GP4d_hel 94.4 0.064 1.4E-06 60.1 6.1 51 405-456 30-80 (271)
239 COG0467 RAD55 RecA-superfamily 94.4 0.054 1.2E-06 60.7 5.5 43 405-448 23-65 (260)
240 PRK09751 putative ATP-dependen 94.4 0.078 1.7E-06 72.0 7.8 47 410-456 1-59 (1490)
241 PRK10436 hypothetical protein; 94.4 0.054 1.2E-06 65.8 5.9 41 390-430 201-243 (462)
242 PRK06851 hypothetical protein; 94.4 0.03 6.6E-07 66.0 3.6 48 405-452 30-78 (367)
243 TIGR02655 circ_KaiC circadian 94.4 0.054 1.2E-06 66.4 5.8 55 405-460 21-75 (484)
244 TIGR02655 circ_KaiC circadian 94.4 0.052 1.1E-06 66.5 5.7 54 405-460 263-316 (484)
245 TIGR02533 type_II_gspE general 94.4 0.048 1.1E-06 66.7 5.4 41 390-430 225-267 (486)
246 PRK14960 DNA polymerase III su 94.4 0.055 1.2E-06 67.7 5.8 25 406-430 38-62 (702)
247 PF13207 AAA_17: AAA domain; P 94.3 0.035 7.6E-07 54.1 3.3 23 407-429 1-23 (121)
248 COG0541 Ffh Signal recognition 94.3 0.24 5.2E-06 59.0 10.7 56 407-462 102-159 (451)
249 PRK12326 preprotein translocas 94.3 0.16 3.4E-06 64.2 9.6 47 408-455 89-140 (764)
250 PRK08903 DnaA regulatory inact 94.3 0.12 2.5E-06 56.6 7.7 51 390-441 23-77 (227)
251 PRK06921 hypothetical protein; 94.2 0.13 2.7E-06 58.4 7.9 38 405-442 117-154 (266)
252 TIGR02928 orc1/cdc6 family rep 94.1 0.051 1.1E-06 63.5 4.7 39 393-431 21-66 (365)
253 PRK08727 hypothetical protein; 94.1 0.23 5E-06 55.0 9.6 35 406-441 42-76 (233)
254 PRK06835 DNA replication prote 94.1 0.1 2.2E-06 60.9 7.0 36 405-441 183-218 (329)
255 TIGR03420 DnaA_homol_Hda DnaA 94.1 0.12 2.6E-06 56.0 7.2 50 392-442 22-74 (226)
256 TIGR02237 recomb_radB DNA repa 94.0 0.075 1.6E-06 57.2 5.4 39 405-444 12-50 (209)
257 TIGR03881 KaiC_arch_4 KaiC dom 94.0 0.085 1.8E-06 57.7 5.9 53 405-459 20-72 (229)
258 COG2804 PulE Type II secretory 94.0 0.077 1.7E-06 64.2 5.8 42 391-432 242-285 (500)
259 PLN03025 replication factor C 93.9 0.071 1.5E-06 61.7 5.3 40 392-431 18-60 (319)
260 KOG0780 Signal recognition par 93.9 0.19 4.2E-06 58.8 8.6 56 406-461 102-159 (483)
261 KOG0342 ATP-dependent RNA heli 93.9 0.14 3.1E-06 61.3 7.7 70 386-455 100-175 (543)
262 cd00984 DnaB_C DnaB helicase C 93.9 0.091 2E-06 57.8 5.8 50 405-455 13-62 (242)
263 PRK08451 DNA polymerase III su 93.8 0.1 2.2E-06 64.5 6.6 25 407-431 38-62 (535)
264 PRK14873 primosome assembly pr 93.8 0.2 4.3E-06 63.6 9.4 48 409-457 164-211 (665)
265 cd01394 radB RadB. The archaea 93.8 0.074 1.6E-06 57.7 4.9 36 405-441 19-54 (218)
266 PRK12726 flagellar biosynthesi 93.8 0.11 2.4E-06 61.5 6.4 56 405-461 206-264 (407)
267 TIGR02538 type_IV_pilB type IV 93.7 0.083 1.8E-06 65.9 5.8 40 390-429 299-340 (564)
268 TIGR02881 spore_V_K stage V sp 93.7 0.055 1.2E-06 60.7 3.8 25 407-431 44-68 (261)
269 PF07728 AAA_5: AAA domain (dy 93.7 0.079 1.7E-06 53.2 4.5 22 408-429 2-23 (139)
270 PF02492 cobW: CobW/HypB/UreG, 93.6 0.12 2.7E-06 54.6 6.1 57 406-466 1-59 (178)
271 TIGR02640 gas_vesic_GvpN gas v 93.6 0.076 1.7E-06 59.8 4.7 25 404-428 20-44 (262)
272 PHA00350 putative assembly pro 93.6 0.11 2.3E-06 62.0 6.1 46 407-454 3-49 (399)
273 PF13671 AAA_33: AAA domain; P 93.6 0.046 1E-06 54.7 2.6 22 407-428 1-22 (143)
274 PRK00411 cdc6 cell division co 93.6 0.13 2.9E-06 60.7 6.9 41 393-433 36-83 (394)
275 PRK05707 DNA polymerase III su 93.6 0.085 1.8E-06 61.5 5.1 26 407-432 24-49 (328)
276 PHA03368 DNA packaging termina 93.6 0.19 4.2E-06 62.7 8.3 57 401-457 250-307 (738)
277 TIGR01650 PD_CobS cobaltochela 93.6 0.094 2E-06 60.9 5.4 40 390-429 48-88 (327)
278 PRK12724 flagellar biosynthesi 93.5 0.16 3.6E-06 60.8 7.5 37 406-442 224-260 (432)
279 COG1444 Predicted P-loop ATPas 93.5 0.41 9E-06 60.9 11.3 67 390-456 211-283 (758)
280 COG0556 UvrB Helicase subunit 93.5 0.21 4.4E-06 60.5 8.1 61 393-457 15-80 (663)
281 cd01983 Fer4_NifH The Fer4_Nif 93.5 0.12 2.5E-06 47.3 5.0 33 408-441 2-34 (99)
282 cd01130 VirB11-like_ATPase Typ 93.5 0.094 2E-06 55.9 5.0 40 390-429 9-49 (186)
283 KOG4284 DEAD box protein [Tran 93.5 0.052 1.1E-06 66.3 3.2 68 392-459 49-118 (980)
284 COG2256 MGS1 ATPase related to 93.4 0.098 2.1E-06 61.6 5.3 39 553-592 106-146 (436)
285 PRK14965 DNA polymerase III su 93.4 0.14 3.1E-06 64.0 7.1 38 394-431 23-64 (576)
286 KOG0923 mRNA splicing factor A 93.4 0.14 3.1E-06 62.9 6.8 52 405-456 280-332 (902)
287 PRK05986 cob(I)alamin adenolsy 93.4 0.2 4.2E-06 54.1 7.0 59 404-465 21-83 (191)
288 TIGR01420 pilT_fam pilus retra 93.3 0.078 1.7E-06 62.1 4.3 37 405-441 122-158 (343)
289 PRK09361 radB DNA repair and r 93.3 0.1 2.3E-06 56.9 5.0 38 405-443 23-60 (225)
290 PRK07471 DNA polymerase III su 93.3 0.18 3.9E-06 59.7 7.2 26 407-432 43-68 (365)
291 PRK08769 DNA polymerase III su 93.2 0.16 3.5E-06 59.0 6.7 44 551-594 113-162 (319)
292 PF05496 RuvB_N: Holliday junc 93.2 0.058 1.3E-06 59.5 2.8 22 406-427 51-72 (233)
293 PRK06731 flhF flagellar biosyn 93.2 0.45 9.7E-06 54.2 10.0 54 406-460 76-132 (270)
294 TIGR02525 plasmid_TraJ plasmid 93.2 0.17 3.7E-06 60.0 6.9 36 404-439 148-184 (372)
295 PRK08058 DNA polymerase III su 93.0 0.17 3.6E-06 59.1 6.5 27 406-432 29-55 (329)
296 KOG0331 ATP-dependent RNA heli 93.0 0.33 7.1E-06 59.4 9.0 70 388-457 111-188 (519)
297 PF00437 T2SE: Type II/IV secr 92.9 0.099 2.1E-06 58.7 4.2 47 394-441 115-162 (270)
298 PF13238 AAA_18: AAA domain; P 92.9 0.087 1.9E-06 51.3 3.3 22 408-429 1-22 (129)
299 PRK12402 replication factor C 92.8 0.14 3E-06 59.0 5.4 41 392-432 20-63 (337)
300 PRK11823 DNA repair protein Ra 92.8 0.17 3.6E-06 61.5 6.2 53 405-459 80-132 (446)
301 PRK09302 circadian clock prote 92.8 0.15 3.2E-06 62.8 5.9 54 405-460 273-326 (509)
302 PF06309 Torsin: Torsin; Inte 92.7 0.16 3.4E-06 51.4 4.8 29 405-433 52-81 (127)
303 TIGR00635 ruvB Holliday juncti 92.7 0.14 3E-06 58.5 5.1 23 407-429 32-54 (305)
304 cd00544 CobU Adenosylcobinamid 92.7 0.13 2.8E-06 54.4 4.5 46 407-456 1-46 (169)
305 KOG0743 AAA+-type ATPase [Post 92.7 0.063 1.4E-06 64.0 2.3 23 407-429 237-259 (457)
306 TIGR02012 tigrfam_recA protein 92.7 0.19 4.1E-06 58.4 6.2 43 405-448 55-97 (321)
307 TIGR02880 cbbX_cfxQ probable R 92.6 0.1 2.2E-06 59.6 3.8 26 407-432 60-85 (284)
308 PF00308 Bac_DnaA: Bacterial d 92.5 0.56 1.2E-05 51.6 9.4 50 392-441 16-71 (219)
309 PRK05642 DNA replication initi 92.4 0.16 3.5E-06 56.3 5.0 35 406-441 46-80 (234)
310 KOG0345 ATP-dependent RNA heli 92.4 1.1 2.3E-05 53.8 11.7 69 387-455 25-100 (567)
311 cd00983 recA RecA is a bacter 92.4 0.28 6.1E-06 57.1 7.1 40 405-445 55-94 (325)
312 PRK08939 primosomal protein Dn 92.3 0.14 3E-06 59.2 4.5 35 407-442 158-192 (306)
313 PRK06851 hypothetical protein; 92.3 0.15 3.3E-06 60.1 4.9 44 405-448 214-258 (367)
314 PRK11331 5-methylcytosine-spec 92.3 0.2 4.2E-06 60.6 5.8 39 392-430 180-219 (459)
315 PRK09302 circadian clock prote 92.3 0.18 4E-06 62.1 5.7 55 405-460 31-85 (509)
316 PRK00149 dnaA chromosomal repl 92.3 0.42 9.2E-06 58.0 8.7 37 406-442 149-186 (450)
317 cd02019 NK Nucleoside/nucleoti 92.2 0.22 4.8E-06 44.6 4.7 22 408-429 2-23 (69)
318 PF12846 AAA_10: AAA-like doma 92.2 0.18 4E-06 56.3 5.2 57 405-466 1-57 (304)
319 PRK07399 DNA polymerase III su 92.1 0.32 6.9E-06 56.5 7.2 27 406-432 27-53 (314)
320 PF05673 DUF815: Protein of un 92.1 0.55 1.2E-05 52.6 8.6 71 393-464 33-111 (249)
321 PRK04195 replication factor C 92.1 0.17 3.6E-06 62.1 5.0 38 392-429 19-63 (482)
322 TIGR02524 dot_icm_DotB Dot/Icm 92.0 0.25 5.3E-06 58.4 6.2 29 404-432 133-161 (358)
323 PRK13768 GTPase; Provisional 92.0 0.18 4E-06 56.6 4.8 34 407-441 4-37 (253)
324 PHA02544 44 clamp loader, smal 92.0 0.32 6.9E-06 55.8 6.9 39 391-429 25-67 (316)
325 PF03266 NTPase_1: NTPase; In 91.9 0.16 3.4E-06 53.7 4.0 25 408-432 2-26 (168)
326 TIGR00416 sms DNA repair prote 91.8 0.26 5.7E-06 60.0 6.2 52 405-458 94-145 (454)
327 PF03205 MobB: Molybdopterin g 91.8 0.22 4.8E-06 51.0 4.8 35 406-441 1-35 (140)
328 KOG1131 RNA polymerase II tran 91.7 1.7 3.6E-05 52.8 12.4 62 391-452 17-85 (755)
329 PTZ00112 origin recognition co 91.7 0.22 4.8E-06 63.9 5.6 39 393-431 761-807 (1164)
330 PRK13531 regulatory ATPase Rav 91.7 0.22 4.7E-06 60.7 5.4 33 398-430 32-64 (498)
331 COG2019 AdkA Archaeal adenylat 91.7 0.95 2.1E-05 47.9 9.2 24 406-429 5-28 (189)
332 PRK06995 flhF flagellar biosyn 91.7 0.2 4.4E-06 61.2 5.0 36 406-441 257-293 (484)
333 CHL00181 cbbX CbbX; Provisiona 91.7 0.15 3.4E-06 58.3 3.9 26 407-432 61-86 (287)
334 COG1474 CDC6 Cdc6-related prot 91.7 0.36 7.7E-06 57.3 7.0 64 393-456 23-95 (366)
335 TIGR01360 aden_kin_iso1 adenyl 91.6 0.15 3.2E-06 53.6 3.4 25 405-429 3-27 (188)
336 TIGR01359 UMP_CMP_kin_fam UMP- 91.6 0.14 3E-06 53.8 3.2 23 407-429 1-23 (183)
337 PRK00080 ruvB Holliday junctio 91.6 0.22 4.8E-06 57.8 5.1 24 406-429 52-75 (328)
338 PHA00729 NTP-binding motif con 91.5 0.15 3.3E-06 56.4 3.4 24 407-430 19-42 (226)
339 PF01078 Mg_chelatase: Magnesi 91.5 0.22 4.7E-06 54.4 4.6 36 393-428 9-45 (206)
340 KOG0389 SNF2 family DNA-depend 91.5 0.49 1.1E-05 59.6 8.0 149 390-587 399-564 (941)
341 TIGR00750 lao LAO/AO transport 91.5 0.23 4.9E-06 57.2 5.0 36 405-441 34-69 (300)
342 KOG0781 Signal recognition par 91.4 0.55 1.2E-05 56.4 8.0 43 408-451 381-426 (587)
343 PRK12904 preprotein translocas 91.4 0.74 1.6E-05 59.5 9.8 47 409-456 98-144 (830)
344 PF03308 ArgK: ArgK protein; 91.4 0.2 4.3E-06 56.3 4.2 33 408-441 32-64 (266)
345 cd01393 recA_like RecA is a b 91.3 0.34 7.3E-06 52.7 5.9 40 405-444 19-63 (226)
346 PF00910 RNA_helicase: RNA hel 91.2 0.18 3.9E-06 49.0 3.3 24 409-432 2-25 (107)
347 cd03114 ArgK-like The function 91.2 0.29 6.3E-06 50.5 5.0 33 408-441 2-34 (148)
348 TIGR00362 DnaA chromosomal rep 91.2 0.38 8.2E-06 57.5 6.7 35 407-441 138-173 (405)
349 TIGR00176 mobB molybdopterin-g 91.2 0.29 6.3E-06 51.0 5.0 35 408-443 2-36 (155)
350 PF03215 Rad17: Rad17 cell cyc 91.1 0.22 4.8E-06 61.5 4.7 24 406-429 46-69 (519)
351 TIGR01242 26Sp45 26S proteasom 91.1 0.24 5.1E-06 58.5 4.7 22 408-429 159-180 (364)
352 PRK13342 recombination factor 90.9 0.32 6.9E-06 58.4 5.7 23 406-428 37-59 (413)
353 cd01125 repA Hexameric Replica 90.9 0.29 6.3E-06 54.2 5.0 50 407-457 3-63 (239)
354 PRK09354 recA recombinase A; P 90.9 0.48 1E-05 55.7 6.9 42 405-447 60-101 (349)
355 KOG0348 ATP-dependent RNA heli 90.9 0.57 1.2E-05 56.8 7.5 69 389-457 158-234 (708)
356 PRK13103 secA preprotein trans 90.9 0.97 2.1E-05 58.7 10.0 43 413-456 103-145 (913)
357 PRK08233 hypothetical protein; 90.8 0.16 3.6E-06 52.9 2.8 24 406-429 4-27 (182)
358 PRK03992 proteasome-activating 90.8 0.29 6.4E-06 58.3 5.2 22 408-429 168-189 (389)
359 PRK06871 DNA polymerase III su 90.7 0.52 1.1E-05 55.0 6.9 43 390-432 6-51 (325)
360 COG1102 Cmk Cytidylate kinase 90.7 0.18 4E-06 52.9 2.9 22 408-429 3-24 (179)
361 PRK12906 secA preprotein trans 90.6 1 2.2E-05 58.0 9.9 45 409-454 97-141 (796)
362 PRK05800 cobU adenosylcobinami 90.6 0.23 5E-06 52.5 3.7 47 407-457 3-49 (170)
363 PRK09435 membrane ATPase/prote 90.6 0.31 6.7E-06 57.0 5.0 35 407-442 58-92 (332)
364 PRK00440 rfc replication facto 90.5 0.35 7.6E-06 55.1 5.3 38 393-430 23-63 (319)
365 PRK13107 preprotein translocas 90.5 1 2.3E-05 58.4 9.8 47 409-456 99-145 (908)
366 PF13521 AAA_28: AAA domain; P 90.4 0.21 4.6E-06 51.7 3.2 21 408-428 2-22 (163)
367 PF13555 AAA_29: P-loop contai 90.4 0.28 6E-06 43.6 3.4 26 406-431 24-49 (62)
368 TIGR03689 pup_AAA proteasome A 90.4 0.31 6.8E-06 60.0 5.0 24 407-430 218-241 (512)
369 smart00350 MCM minichromosome 90.4 2.3 5E-05 52.6 12.6 21 407-427 238-258 (509)
370 PRK05541 adenylylsulfate kinas 90.3 0.36 7.7E-06 50.7 4.7 29 406-434 8-36 (176)
371 PRK13900 type IV secretion sys 90.3 0.43 9.3E-06 55.9 5.8 41 397-439 151-192 (332)
372 PF04665 Pox_A32: Poxvirus A32 90.2 0.3 6.6E-06 54.5 4.3 40 402-442 9-49 (241)
373 PRK14962 DNA polymerase III su 90.2 0.28 6E-06 60.0 4.4 24 408-431 39-62 (472)
374 KOG0390 DNA repair protein, SN 90.2 1.6 3.5E-05 55.9 11.0 65 390-455 238-318 (776)
375 cd02117 NifH_like This family 90.2 0.39 8.4E-06 52.1 5.1 32 408-440 3-34 (212)
376 PRK14961 DNA polymerase III su 90.2 0.29 6.3E-06 57.8 4.4 24 407-430 40-63 (363)
377 cd02021 GntK Gluconate kinase 90.2 0.22 4.7E-06 50.7 2.9 22 407-428 1-22 (150)
378 COG4088 Predicted nucleotide k 90.2 0.26 5.5E-06 53.6 3.5 28 406-433 2-29 (261)
379 cd02028 UMPK_like Uridine mono 90.1 0.39 8.6E-06 51.0 5.0 33 407-440 1-33 (179)
380 PRK12608 transcription termina 90.1 0.36 7.8E-06 57.1 5.0 50 407-456 135-187 (380)
381 cd01123 Rad51_DMC1_radA Rad51_ 90.1 0.4 8.6E-06 52.5 5.1 40 405-444 19-63 (235)
382 TIGR03574 selen_PSTK L-seryl-t 90.1 0.37 8E-06 53.7 4.9 33 407-440 1-33 (249)
383 PTZ00361 26 proteosome regulat 90.1 0.37 8E-06 58.4 5.2 23 407-429 219-241 (438)
384 COG1222 RPT1 ATP-dependent 26S 90.0 0.33 7.2E-06 56.6 4.5 20 408-427 188-207 (406)
385 PRK08118 topology modulation p 89.9 0.26 5.6E-06 51.9 3.3 22 408-429 4-25 (167)
386 cd02034 CooC The accessory pro 89.9 0.48 1E-05 47.1 5.0 45 408-456 2-46 (116)
387 PF03029 ATP_bind_1: Conserved 89.8 0.23 5E-06 55.3 3.0 30 410-440 1-30 (238)
388 COG0714 MoxR-like ATPases [Gen 89.8 0.41 8.9E-06 55.7 5.1 47 401-449 39-85 (329)
389 PTZ00301 uridine kinase; Provi 89.7 0.43 9.4E-06 52.3 5.0 27 406-432 4-30 (210)
390 COG3854 SpoIIIAA ncharacterize 89.6 0.41 8.8E-06 52.9 4.5 37 408-444 140-180 (308)
391 KOG0328 Predicted ATP-dependen 89.6 0.15 3.3E-06 57.3 1.4 68 391-458 50-119 (400)
392 PRK06762 hypothetical protein; 89.6 0.29 6.2E-06 50.8 3.4 40 406-454 3-42 (166)
393 PRK00889 adenylylsulfate kinas 89.6 0.46 1E-05 49.8 4.9 34 406-440 5-38 (175)
394 PF07726 AAA_3: ATPase family 89.6 0.2 4.4E-06 50.8 2.1 22 408-429 2-23 (131)
395 PRK14530 adenylate kinase; Pro 89.6 0.29 6.4E-06 53.2 3.6 25 405-429 3-27 (215)
396 KOG0385 Chromatin remodeling c 89.6 0.93 2E-05 57.1 8.0 147 390-587 167-329 (971)
397 KOG0926 DEAH-box RNA helicase 89.6 0.7 1.5E-05 58.3 6.9 67 389-456 256-327 (1172)
398 COG4581 Superfamily II RNA hel 89.5 0.82 1.8E-05 60.1 7.9 66 390-456 119-184 (1041)
399 PRK10463 hydrogenase nickel in 89.5 0.88 1.9E-05 52.3 7.4 72 392-466 88-162 (290)
400 cd02023 UMPK Uridine monophosp 89.5 0.42 9.1E-06 51.1 4.6 32 407-441 1-32 (198)
401 COG1202 Superfamily II helicas 89.5 0.63 1.4E-05 56.8 6.4 78 388-466 214-298 (830)
402 PRK00131 aroK shikimate kinase 89.5 0.32 6.8E-06 50.2 3.5 25 405-429 4-28 (175)
403 TIGR00631 uvrb excinuclease AB 89.4 0.95 2.1E-05 57.6 8.3 62 392-457 11-77 (655)
404 PRK03839 putative kinase; Prov 89.4 0.3 6.5E-06 51.4 3.3 22 408-429 3-24 (180)
405 PRK07667 uridine kinase; Provi 89.4 0.48 1E-05 50.9 4.9 35 407-442 19-53 (193)
406 KOG0338 ATP-dependent RNA heli 89.3 0.43 9.3E-06 57.5 4.8 63 392-454 205-272 (691)
407 PHA02244 ATPase-like protein 89.3 0.5 1.1E-05 55.9 5.3 31 398-428 111-142 (383)
408 COG1618 Predicted nucleotide k 89.2 0.38 8.2E-06 50.6 3.7 26 408-433 8-33 (179)
409 KOG1970 Checkpoint RAD17-RFC c 89.1 0.28 6E-06 59.8 3.1 28 402-429 107-134 (634)
410 cd01428 ADK Adenylate kinase ( 89.1 0.3 6.5E-06 51.6 3.1 21 408-428 2-22 (194)
411 TIGR00150 HI0065_YjeE ATPase, 89.1 0.57 1.2E-05 47.8 4.9 25 405-429 22-46 (133)
412 PRK14531 adenylate kinase; Pro 89.0 0.33 7.1E-06 51.5 3.4 23 407-429 4-26 (183)
413 COG5192 BMS1 GTP-binding prote 89.0 0.44 9.6E-06 57.6 4.6 25 408-432 72-96 (1077)
414 PRK05298 excinuclease ABC subu 89.0 1.5 3.2E-05 56.0 9.6 64 390-457 12-80 (652)
415 COG0378 HypB Ni2+-binding GTPa 89.0 0.62 1.3E-05 50.4 5.2 52 408-464 16-70 (202)
416 TIGR00665 DnaB replicative DNA 88.9 0.59 1.3E-05 56.4 5.8 51 405-456 195-245 (434)
417 COG1703 ArgK Putative periplas 88.9 0.41 9E-06 54.7 4.1 34 407-441 53-86 (323)
418 TIGR02322 phosphon_PhnN phosph 88.9 0.33 7.2E-06 50.9 3.2 24 406-429 2-25 (179)
419 PRK06696 uridine kinase; Valid 88.8 0.54 1.2E-05 51.6 4.9 33 407-440 24-56 (223)
420 COG3857 AddB ATP-dependent nuc 88.8 2.8 6.1E-05 54.8 11.7 56 408-464 4-65 (1108)
421 COG3911 Predicted ATPase [Gene 88.7 0.33 7.2E-06 50.3 2.9 21 406-426 10-30 (183)
422 PRK13851 type IV secretion sys 88.7 0.42 9.1E-06 56.2 4.2 45 394-440 150-195 (344)
423 cd00550 ArsA_ATPase Oxyanion-t 88.7 0.5 1.1E-05 53.0 4.7 34 407-441 2-35 (254)
424 PRK14532 adenylate kinase; Pro 88.7 0.32 7E-06 51.5 3.0 21 408-428 3-23 (188)
425 PF02374 ArsA_ATPase: Anion-tr 88.7 0.54 1.2E-05 54.4 5.0 46 406-452 2-49 (305)
426 PRK06645 DNA polymerase III su 88.6 0.43 9.4E-06 58.8 4.4 26 406-431 44-69 (507)
427 PRK04040 adenylate kinase; Pro 88.6 0.35 7.6E-06 52.0 3.2 23 407-429 4-26 (188)
428 cd02025 PanK Pantothenate kina 88.6 0.56 1.2E-05 51.7 4.9 34 408-441 2-36 (220)
429 cd00227 CPT Chloramphenicol (C 88.6 0.39 8.5E-06 50.5 3.6 25 405-429 2-26 (175)
430 PRK13764 ATPase; Provisional 88.6 0.8 1.7E-05 57.5 6.7 27 405-431 257-283 (602)
431 cd02027 APSK Adenosine 5'-phos 88.6 0.61 1.3E-05 48.1 4.8 27 407-433 1-27 (149)
432 TIGR01313 therm_gnt_kin carboh 88.5 0.3 6.5E-06 50.5 2.5 21 409-429 2-22 (163)
433 PRK10751 molybdopterin-guanine 88.5 0.6 1.3E-05 49.7 4.8 39 405-444 6-44 (173)
434 cd02020 CMPK Cytidine monophos 88.4 0.4 8.7E-06 48.0 3.3 23 407-429 1-23 (147)
435 PRK05480 uridine/cytidine kina 88.4 0.55 1.2E-05 50.7 4.6 24 406-429 7-30 (209)
436 PRK14493 putative bifunctional 88.4 0.57 1.2E-05 53.4 4.9 35 407-443 3-37 (274)
437 PRK08154 anaerobic benzoate ca 88.3 0.57 1.2E-05 54.2 4.9 41 389-429 106-157 (309)
438 PF01656 CbiA: CobQ/CobB/MinD/ 88.3 0.69 1.5E-05 48.6 5.1 35 407-442 1-35 (195)
439 PRK13341 recombination factor 88.2 0.82 1.8E-05 58.8 6.7 24 406-429 53-76 (725)
440 TIGR02858 spore_III_AA stage I 88.2 0.65 1.4E-05 52.9 5.2 24 406-429 112-135 (270)
441 TIGR00041 DTMP_kinase thymidyl 88.2 0.82 1.8E-05 48.5 5.7 34 406-440 4-37 (195)
442 PRK06964 DNA polymerase III su 88.2 0.71 1.5E-05 54.3 5.6 44 551-594 132-181 (342)
443 PRK02496 adk adenylate kinase; 88.2 0.4 8.7E-06 50.6 3.3 22 408-429 4-25 (184)
444 PRK06620 hypothetical protein; 88.1 0.38 8.3E-06 52.7 3.2 19 406-424 45-63 (214)
445 cd02037 MRP-like MRP (Multiple 88.1 0.6 1.3E-05 48.7 4.6 33 407-440 2-34 (169)
446 PLN02200 adenylate kinase fami 88.1 0.39 8.5E-06 53.4 3.3 24 406-429 44-67 (234)
447 PRK14527 adenylate kinase; Pro 88.1 0.41 9E-06 51.0 3.3 25 405-429 6-30 (191)
448 TIGR03600 phage_DnaB phage rep 88.0 0.77 1.7E-05 55.2 6.0 51 405-456 194-244 (421)
449 cd03116 MobB Molybdenum is an 88.0 0.95 2.1E-05 47.5 5.9 59 407-466 3-66 (159)
450 PF08433 KTI12: Chromatin asso 87.9 0.62 1.3E-05 53.0 4.8 35 406-441 2-36 (270)
451 cd02040 NifH NifH gene encodes 87.9 0.58 1.3E-05 52.2 4.6 32 407-440 4-35 (270)
452 PRK14494 putative molybdopteri 87.8 0.84 1.8E-05 50.8 5.6 58 407-465 3-63 (229)
453 KOG0731 AAA+-type ATPase conta 87.8 0.35 7.6E-06 61.4 3.0 35 392-427 332-366 (774)
454 PTZ00454 26S protease regulato 87.8 0.36 7.9E-06 57.8 3.0 22 407-428 181-202 (398)
455 PRK14489 putative bifunctional 87.7 1.2 2.6E-05 52.7 7.3 61 406-467 206-271 (366)
456 PF00485 PRK: Phosphoribulokin 87.7 0.45 9.7E-06 51.0 3.3 27 407-433 1-27 (194)
457 PRK07261 topology modulation p 87.7 0.44 9.5E-06 50.3 3.2 20 408-427 3-22 (171)
458 KOG0924 mRNA splicing factor A 87.7 1.3 2.8E-05 55.1 7.4 53 404-456 370-422 (1042)
459 PRK14528 adenylate kinase; Pro 87.5 0.47 1E-05 50.7 3.3 22 408-429 4-25 (186)
460 PF00406 ADK: Adenylate kinase 87.5 0.42 9.1E-06 48.9 2.9 20 410-429 1-20 (151)
461 KOG1533 Predicted GTPase [Gene 87.5 0.48 1E-05 52.4 3.4 32 408-440 5-36 (290)
462 PF06068 TIP49: TIP49 C-termin 87.4 0.57 1.2E-05 55.2 4.2 25 405-429 50-74 (398)
463 PRK14957 DNA polymerase III su 87.3 0.56 1.2E-05 58.3 4.3 25 407-431 40-64 (546)
464 KOG0346 RNA helicase [RNA proc 87.3 2.2 4.8E-05 50.9 8.8 63 392-454 43-113 (569)
465 PRK00279 adk adenylate kinase; 87.3 0.47 1E-05 51.6 3.3 21 408-428 3-23 (215)
466 PHA02624 large T antigen; Prov 87.3 0.58 1.3E-05 58.3 4.3 37 393-429 415-455 (647)
467 PRK04301 radA DNA repair and r 87.3 0.75 1.6E-05 53.3 5.1 52 405-456 102-159 (317)
468 PF03796 DnaB_C: DnaB-like hel 87.3 1.1 2.5E-05 50.0 6.4 51 405-456 19-69 (259)
469 PF01583 APS_kinase: Adenylyls 87.3 0.89 1.9E-05 47.7 5.1 33 407-440 4-36 (156)
470 PRK06547 hypothetical protein; 87.3 0.69 1.5E-05 49.1 4.4 23 406-428 16-38 (172)
471 COG4962 CpaF Flp pilus assembl 87.2 0.69 1.5E-05 53.9 4.7 53 389-443 156-209 (355)
472 TIGR02397 dnaX_nterm DNA polym 87.2 0.73 1.6E-05 53.6 5.0 40 392-431 19-62 (355)
473 COG0470 HolB ATPase involved i 87.2 0.9 1.9E-05 51.8 5.6 26 407-432 26-51 (325)
474 PRK13235 nifH nitrogenase redu 87.1 0.71 1.5E-05 52.1 4.7 32 407-440 4-35 (274)
475 COG4178 ABC-type uncharacteriz 87.1 0.86 1.9E-05 56.9 5.6 23 405-427 419-441 (604)
476 cd01672 TMPK Thymidine monopho 87.0 0.99 2.1E-05 47.4 5.4 33 407-440 2-34 (200)
477 TIGR00764 lon_rel lon-related 86.9 0.8 1.7E-05 57.8 5.4 40 405-444 37-76 (608)
478 COG2255 RuvB Holliday junction 86.9 0.85 1.8E-05 51.9 5.0 24 406-429 53-76 (332)
479 PRK13407 bchI magnesium chelat 86.8 0.76 1.6E-05 53.9 4.8 24 406-429 30-53 (334)
480 COG1936 Predicted nucleotide k 86.8 0.47 1E-05 50.4 2.7 20 407-426 2-21 (180)
481 TIGR01241 FtsH_fam ATP-depende 86.7 0.45 9.8E-06 58.5 3.1 21 408-428 91-111 (495)
482 TIGR01351 adk adenylate kinase 86.7 0.51 1.1E-05 51.2 3.1 21 408-428 2-22 (210)
483 KOG3347 Predicted nucleotide k 86.7 0.57 1.2E-05 48.7 3.2 22 405-426 7-28 (176)
484 PLN00020 ribulose bisphosphate 86.6 0.49 1.1E-05 55.9 3.1 23 407-429 150-172 (413)
485 TIGR02016 BchX chlorophyllide 86.6 0.79 1.7E-05 52.8 4.7 31 408-440 4-34 (296)
486 KOG0337 ATP-dependent RNA heli 86.6 21 0.00045 43.0 15.9 86 704-789 256-353 (529)
487 PRK05439 pantothenate kinase; 86.6 0.83 1.8E-05 53.0 4.9 35 407-441 88-123 (311)
488 TIGR01287 nifH nitrogenase iro 86.5 0.87 1.9E-05 51.3 5.0 32 408-440 3-34 (275)
489 cd02035 ArsA ArsA ATPase funct 86.5 0.9 1.9E-05 49.7 4.9 34 407-441 1-34 (217)
490 PRK13765 ATP-dependent proteas 86.4 0.75 1.6E-05 58.2 4.8 38 405-442 50-87 (637)
491 CHL00072 chlL photochlorophyll 86.4 0.88 1.9E-05 52.2 4.9 32 408-440 3-34 (290)
492 TIGR02236 recomb_radA DNA repa 86.4 0.83 1.8E-05 52.6 4.8 50 405-454 95-150 (310)
493 TIGR01281 DPOR_bchL light-inde 86.3 0.82 1.8E-05 51.3 4.6 30 410-440 5-34 (268)
494 PF00931 NB-ARC: NB-ARC domain 86.3 0.54 1.2E-05 52.8 3.2 36 395-430 4-44 (287)
495 PF01580 FtsK_SpoIIIE: FtsK/Sp 86.3 0.78 1.7E-05 49.4 4.3 39 405-443 38-79 (205)
496 KOG0733 Nuclear AAA ATPase (VC 86.3 0.44 9.5E-06 58.7 2.5 22 408-429 226-247 (802)
497 PF13476 AAA_23: AAA domain; P 86.3 0.56 1.2E-05 49.2 3.1 27 404-430 18-44 (202)
498 cd03112 CobW_like The function 86.3 1.1 2.3E-05 46.7 5.1 54 406-464 1-56 (158)
499 PRK14955 DNA polymerase III su 86.1 0.76 1.7E-05 55.0 4.4 25 407-431 40-64 (397)
500 COG1224 TIP49 DNA helicase TIP 86.0 0.85 1.8E-05 53.3 4.5 25 405-429 65-89 (450)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=7e-177 Score=1511.02 Aligned_cols=791 Identities=68% Similarity=1.098 Sum_probs=739.8
Q ss_pred cccccccccCCCccCcccCCccCCcccccccCCCCCCceeecCCCCcCceeeCCCCCCCcchhhhhHhhcccceeeecCC
Q 001054 118 MAGLSFEETGDDVEGFEYGKADFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKD 197 (1171)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~yc~~~~~~~~~~c~~~~~~~wfcn~~~~~~~shi~~hl~~~~~~~~~lh~~ 197 (1171)
+.++.|||-..+. .... +.++|+|+|+||||++|.||++|++ |+|||||+|++|+|||||+||||++||+|+||+|
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 4589999999999999999999998 9999999999999999999999999999999999
Q ss_pred CCCcccchhhccccCcccccccceeccCCCeEEEEcchHHHH--------------------------------------
Q 001054 198 SPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLN-------------------------------------- 239 (1171)
Q Consensus 198 ~~~~~~~l~cy~c~~~n~f~lg~~~~~~~~~~v~lcr~~c~~-------------------------------------- 239 (1171)
+++|||+||||+||++|||+|||||+|+|+|||++||+||++
T Consensus 114 s~lget~lecyncg~~nvf~lGFi~~ksd~VVvllcr~pcas~s~~kd~Nwd~~qw~~li~dr~~l~wivk~pseqe~~~ 193 (935)
T KOG1802|consen 114 SPLGETVLECYNCGSRNVFLLGFIPAKSDSVVVLLCRQPCASRSNLKDMNWDLSQWQPLIEDRCLLSWIVKVPSEQEQLR 193 (935)
T ss_pred CCCCcceEEeeccCcchhhhhcccccccCceEEEEecCcccccccCCCcCCChhhccchhhhhcccchhccCCcchhhhh
Confidence 999999999999999999999999999999999999999986
Q ss_pred -----------------------------------------------------------------HhhhccccccEEEEE
Q 001054 240 -----------------------------------------------------------------MMKESQSKDNVTIRW 254 (1171)
Q Consensus 240 -----------------------------------------------------------------~~ke~~~~~~i~~r~ 254 (1171)
.+||+|++++++|||
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 889999999999999
Q ss_pred EeccCCeEEEEEEccCCCCCCCCCCCCEEEEEecCCCCCCcceEEEEEEEecc--ccEEEEEeccCCCCCcccCCCceEE
Q 001054 255 DIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTA--QEEVALELRASQGVPVDINHGFSVD 332 (1171)
Q Consensus 255 ~~~l~~k~~~~~~~~~~~~~~~l~~GD~v~l~~~g~~~~~~~~~~G~V~ki~~--~~~v~l~l~~~~~~p~~~~~~~~v~ 332 (1171)
+++||+|+++||.+++-+.++++..||+++|+|++. ....|.++|+|+++++ ++|+.||++.....|.+.+++|+|+
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 999999999999999999999999999999999998 5555999999999998 6999999999989999999999999
Q ss_pred EecccchHHHHHHHHHHHHHhhhhhhhhHHhhhcCCchhhhhhhccCCcccCCCCCCCCCHHHHHHHHHhhcCCcEEEEc
Q 001054 333 FVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQRPISLIQG 412 (1171)
Q Consensus 333 ~~~~~~s~~Rm~~AL~~~~~~e~~vs~~I~~~llg~~~~~~~~~~~lp~~f~~p~l~~LNesQ~~AV~~aL~~~lsLIqG 412 (1171)
++|+.++|+||+.||+.|+.|+.+++.|+|+.+||+++++..++..||++|+.+++++||.+|..||+++|+++++||||
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 99999999999999999999999999999999999999998899999999999999999999999999999999999999
Q ss_pred CCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHHHHhhccchh
Q 001054 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (1171)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~sre~i~~~v~~l~L~~~i~~l~~~~ 492 (1171)
|||||||.|+++||++|+++...+||||||||.|||+|+|+|++.|++|||+++++||.++++++++++|.+++.+..
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 HHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCcccCCCCEEEEEcCCCCCcccccccc
Q 001054 493 KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPL 572 (1171)
Q Consensus 493 ~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L~~~kFD~VIIDEASQasEpe~LIpL 572 (1171)
.+|+++.+++++.++++..++++|+.+++..+++++..|+||||||++|++.+|.+++|..||||||.|++||++||||
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 001054 573 VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINER 652 (1171)
Q Consensus 573 ~~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r 652 (1171)
+++++++||||||+||+|++++++++.++|.+||||||+..|..+++|.+||||||.|++|++++||+|.|+++++..+|
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 ccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchhHHHHHHHHHHhc
Q 001054 653 QSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1171)
Q Consensus 653 ~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~~I~~~L~~~ 732 (1171)
...++.++||.++.|++|+...|.|+++.+|+||.|+.||..++++|+.|++.|+.+++|||||||.+|+.+|.++|...
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 cchhhhcCCCeEEecccCcccCccCeEEEeccccCCcCCcCCCCCcCceeeechhhccceEEEecccccccCchHHHHHH
Q 001054 733 GALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLT 812 (1171)
Q Consensus 733 g~l~~~~~~~V~V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL~D~RRLNVALTRAK~~LIIVGn~~~Ls~~~~W~~Ll~ 812 (1171)
+.+...++..|+|+|||+|||+|+|+||+||||+|...+|||+.|+|||||||||||++|+||||+.+|+++++|.+||.
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 HHHhcCceecCCCcchhhhhhccccCcccccccccccCCCCCCcCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001054 813 HYKEHECLVEGPLNNLKQSMVQFQKPKKIYNDRRLFFGAGPGIVPND-ISTSNPNADRRGSRARGYMPPGPPNGTHKPGL 891 (1171)
Q Consensus 813 ~~ke~~~lv~g~l~~l~~s~~~~~~p~~~~~~~~~~~g~g~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 891 (1171)
||++++++++|++++++++++++.+|+++.+.++...+......-.+ ....++.+..+.++...|.....+.+..
T Consensus 830 h~~eke~l~eg~ln~l~~~~~~l~kp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~y~~~~n~~~~~---- 905 (935)
T KOG1802|consen 830 HYKEKEVLVEGPLNNLKPSLLQLLKPQKLKNFKEKQKGFMNKSKIKDKSHSFNPSASNRPSRLSSYLNSGNLFGMS---- 905 (935)
T ss_pred HhhcccceeecchhhhhhhhhhhcCCchhhhhhhhhhhhhhhcccccccccCCcchhccccccchhccccCccccc----
Confidence 99999999999999999999999999999988776554433222222 2233455555555554554444433322
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001054 892 HPAGFPMPRVPLPPFQGGPPSQPYAIPSR 920 (1171)
Q Consensus 892 ~~~~~~~p~~p~p~~~g~~~~~p~~~~~~ 920 (1171)
.++.+..+..|.|+...+|+.++++.+.+
T Consensus 906 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 934 (935)
T KOG1802|consen 906 KLAQYFNKNVPIPANMVGPPSQKAARNTR 934 (935)
T ss_pred ChhhccccCCCCchhhcCCCcccccccCC
Confidence 25566667778888888888888755543
No 2
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=2.6e-78 Score=740.16 Aligned_cols=551 Identities=32% Similarity=0.463 Sum_probs=426.6
Q ss_pred ccccccEEEEEEeccCCeEEEEEEccCCCCCCCCCCCCEEEEEecCCCCCCcceEEEEEEEeccccEEEEEeccCCCCCc
Q 001054 244 SQSKDNVTIRWDIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPV 323 (1171)
Q Consensus 244 ~~~~~~i~~r~~~~l~~k~~~~~~~~~~~~~~~l~~GD~v~l~~~g~~~~~~~~~~G~V~ki~~~~~v~l~l~~~~~~p~ 323 (1171)
.....+++++|..++.+|+++.|.-. ...+.+|.+||.|.|+..+. ..|...|+|+++.+ ..|.|.+... .|.
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 35677899999999999999988843 34567999999999964332 24667899999985 3455555432 444
Q ss_pred ccCCCceEEEecccchHHHHHHHHHHHHHhhhhhhhhHHhhhcCCchhhhhhhccCCcccCCCCCCCCCHHHHHHHHHhh
Q 001054 324 DINHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVL 403 (1171)
Q Consensus 324 ~~~~~~~v~~~~~~~s~~Rm~~AL~~~~~~e~~vs~~I~~~llg~~~~~~~~~~~lp~~f~~p~l~~LNesQ~~AV~~aL 403 (1171)
+....|+++++|+++||+||..||.+|..... .+++.++|...+..... ..+-.+ ..+.||++|++||..++
T Consensus 99 ~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~----~l~~~llg~~~p~~~~~-~~~~~~---~~~~ln~~Q~~Av~~~l 170 (637)
T TIGR00376 99 WSLKRVRIDLYANDVTFKRMKEALRALTENHS----RLLEFILGREAPSKASE-IHDFQF---FDPNLNESQKEAVSFAL 170 (637)
T ss_pred ccCceEEEEEecCccHHHHHHHHHHHHHhchh----hHHHHHhCCCCCCcccc-cccccc---cCCCCCHHHHHHHHHHh
Confidence 55567999999999999999999999976543 45667787654322111 111111 22689999999999999
Q ss_pred cC-CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHH
Q 001054 404 QR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLH 482 (1171)
Q Consensus 404 ~~-~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~sre~i~~~v~~l~L~ 482 (1171)
.. ++++|+||||||||+|+++++.++++.+. +||+|||||.|||+|++||...+++++|+|+..+. ...+...++.
T Consensus 171 ~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~-~VLv~a~sn~Avd~l~e~l~~~~~~vvRlg~~~r~--~~~~~~~sl~ 247 (637)
T TIGR00376 171 SSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL-RVLVTAPSNIAVDNLLERLALCDQKIVRLGHPARL--LKSNKQHSLD 247 (637)
T ss_pred cCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC-CEEEEcCcHHHHHHHHHHHHhCCCcEEEeCCchhc--chhHHhccHH
Confidence 75 89999999999999999999999998776 99999999999999999999999999999998773 2223333444
Q ss_pred HHHhhccch-----hHHHHHHHHh---------------------hhhh-----hccCCc--------------hH---H
Q 001054 483 YQVRHLDTS-----EKSELHKLQQ---------------------LKDE-----QGELSS--------------SD---E 514 (1171)
Q Consensus 483 ~~i~~l~~~-----~~~~L~kL~~---------------------lk~e-----~~els~--------------~d---e 514 (1171)
..+...... ...++..+.. ++.+ ...+.. .. .
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 HHHHHHHHHHHHHHHhccccccccccccCCCCcccCCCCEEEEEcCCCCCcccccccccccCceEEEeCCccCCCceeec
Q 001054 515 KKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1171)
Q Consensus 515 k~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L~~~kFD~VIIDEASQasEpe~LIpL~~~~kkLILVGD~~QLpPvv~s 594 (1171)
+.++........+++..|+|+++| ++...+....||+||||||+|++|+++|+|+.. ++++||||||+||||++.+
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 445677888999999999999999999999975 5799999999999999987
Q ss_pred HHHHhhcchHHHHHHHHHcC-CccEEeeeeccCCCCCCcccccccccCcccccccccccccCCCCCCC-------CCCCC
Q 001054 595 KKAARAGLAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW-------PVPNR 666 (1171)
Q Consensus 595 ~~a~~~gl~~SLFERL~~~g-~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~-------p~~~~ 666 (1171)
.. ..++..|+|+||+... ....+|++|||||++|++|+|.+||+|+|.++..+..+.+..+.... .....
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 34689999999999999999999999999987766555432221111 12346
Q ss_pred CeEEEEcCCcee---ecccCCcccCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCe
Q 001054 667 PMFFYVQMGQEE---ISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI 743 (1171)
Q Consensus 667 Pvif~~~~G~ee---~~~~g~S~~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V 743 (1171)
|++|+++.|.+. ....+.|++|..||..|.+++..|++.|+++.+||||+||++|+.+|++.|... ...|
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 345578999999999999999999999999999999999999999999998643 2469
Q ss_pred EEecccCcccCccCeEEEeccccCCcCCcCCCCCcCceeeechhhccceEEEecccccccCchHHHHHHHHHhcCceecC
Q 001054 744 EVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEG 823 (1171)
Q Consensus 744 ~V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL~D~RRLNVALTRAK~~LIIVGn~~~Ls~~~~W~~Ll~~~ke~~~lv~g 823 (1171)
+|.|||+|||+|+|+||+|+||+|....+||+.|.|||||||||||++||||||..+|+++++|++|++||++++++++.
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 001054 824 PL 825 (1171)
Q Consensus 824 ~l 825 (1171)
.+
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=6e-78 Score=697.43 Aligned_cols=555 Identities=30% Similarity=0.444 Sum_probs=417.5
Q ss_pred eccCCeEEEEEEccCCC-CCCCCCCCCEEEEEecCCCCCCcceEEEEEEEeccccEEEEEeccCCCCCcccCCCceEEEe
Q 001054 256 IGLNKKRVAYFVFPKED-NELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPVDINHGFSVDFV 334 (1171)
Q Consensus 256 ~~l~~k~~~~~~~~~~~-~~~~l~~GD~v~l~~~g~~~~~~~~~~G~V~ki~~~~~v~l~l~~~~~~p~~~~~~~~v~~~ 334 (1171)
.||.+|.+..|....+. ....|.+||.|.|+...-..+..-...|.|+++... .|.+.+......|.... ...+..+
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 68889998887766632 456899999999984321111111355888888752 44444444334443322 4556677
Q ss_pred cccchHHHHHHHHHHHHHh-hhhhhhhHHhhhcCCchhhhhhhccCCcccCCCCCCCCCHHHHHHHHHhhcC-CcEEEEc
Q 001054 335 WKSTSFDRMQGAMKTFAVD-ETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQR-PISLIQG 412 (1171)
Q Consensus 335 ~~~~s~~Rm~~AL~~~~~~-e~~vs~~I~~~llg~~~~~~~~~~~lp~~f~~p~l~~LNesQ~~AV~~aL~~-~lsLIqG 412 (1171)
.|..+|+||..+|..+... ....+..+...+.+...........+ +. ..+....||.+|++||..++.. .+++|+|
T Consensus 131 ~n~vty~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~~~-~~-~~~~~~~ln~SQk~Av~~~~~~k~l~~I~G 208 (649)
T KOG1803|consen 131 ENKVTYRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEI-KK-ITFFNKNLNSSQKAAVSFAINNKDLLIIHG 208 (649)
T ss_pred hhhhhheecHHHHhhHhhhcCccchhhhHHHHhccccCCCCchhhh-cc-cccCCccccHHHHHHHHHHhccCCceEeeC
Confidence 8889999999998887541 11122233344444322111111000 00 1123468999999999999985 8999999
Q ss_pred CCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHHHHhhccchh
Q 001054 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (1171)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~sre~i~~~v~~l~L~~~i~~l~~~~ 492 (1171)
|||||||+|+++||.+++++++ +||||||||.|||||.+||.-.+++++|+|++.|...... ...+...+..-+...
T Consensus 209 PPGTGKT~TlvEiI~qlvk~~k-~VLVcaPSn~AVdNiverl~~~~~~l~R~g~paRl~~~~~--~~sld~~~~t~d~~~ 285 (649)
T KOG1803|consen 209 PPGTGKTRTLVEIISQLVKQKK-RVLVCAPSNVAVDNIVERLTHLKLNLVRVGHPARLLESVA--DHSLDLLSNTKDNSQ 285 (649)
T ss_pred CCCCCceeeHHHHHHHHHHcCC-eEEEEcCchHHHHHHHHHhcccccchhhcCchhhhhhhhh--hhHHHHHHhcCchhh
Confidence 9999999999999999999985 9999999999999999999999999999999888532211 112222222111100
Q ss_pred -HHHHHHHHh-hhhhhcc-----CCchHH-------HHHHHHHHHHHHHHHhccccccccccccCCCCcccCCCCEEEEE
Q 001054 493 -KSELHKLQQ-LKDEQGE-----LSSSDE-------KKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLID 558 (1171)
Q Consensus 493 -~~~L~kL~~-lk~e~~e-----ls~~de-------k~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L~~~kFD~VIID 558 (1171)
.....+... ....... +..... +.+++..+....+++.+++||++|..++....+.+..||+||||
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 011111000 0000000 111111 12222223344689999999999999999988888899999999
Q ss_pred cCCCCCcccccccccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC--CccEEeeeeccCCCCCCccccc
Q 001054 559 ESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFPSN 636 (1171)
Q Consensus 559 EASQasEpe~LIpL~~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g--~~~i~L~~qYRmhp~I~~f~S~ 636 (1171)
||+|+.|++||+|+.. .+++||+|||+||||++.+.++...|+..|+|||+.... .-.++|++|||||..|+.|+|.
T Consensus 366 EaaQamE~~cWipvlk-~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~ 444 (649)
T KOG1803|consen 366 EAAQAMEPQCWIPVLK-GKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNE 444 (649)
T ss_pred hhhhhccchhhhHHhc-CCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHh
Confidence 9999999999999975 579999999999999999999999999999999998863 3457899999999999999999
Q ss_pred ccccCcccccccccccccCCCCCCCC--CCCCCeEEEEcCCceeeccc-----CCcccCHHHHHHHHHHHHHHHHcCCCC
Q 001054 637 SFYEGTLQNGVTINERQSSGIDFPWP--VPNRPMFFYVQMGQEEISAS-----GTSYLNRTEAANVEKIVTTFLRSGVVP 709 (1171)
Q Consensus 637 lFY~g~L~~~~~~~~r~l~~~~~~~p--~~~~Pvif~~~~G~ee~~~~-----g~S~~N~~EA~~V~~iV~~Llk~Gv~~ 709 (1171)
.||+|+|.++.++..+.+.++....+ ....|++|+++.+.+..+.. ..|++|..||++|..++..|++.|+.+
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 99999999999988887765544332 35789999999887544322 238899999999999999999999999
Q ss_pred CcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCccCeEEEeccccCCcCCcCCCCCcCceeeechhhc
Q 001054 710 SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRAR 789 (1171)
Q Consensus 710 ~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL~D~RRLNVALTRAK 789 (1171)
.||||||||++|+.+|++.. .....+++|+|||+|||+|+|+||+++||||+...+|||.|.|||||||||||
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 99999999999999998211 22346799999999999999999999999999999999999999999999999
Q ss_pred cceEEEecccccc-cCchHHHHHHHHHhcCceecCCC
Q 001054 790 YGIVILGNPKVLS-KQPLWNGLLTHYKEHECLVEGPL 825 (1171)
Q Consensus 790 ~~LIIVGn~~~Ls-~~~~W~~Ll~~~ke~~~lv~g~l 825 (1171)
++++||||..+++ .+.+++++++|+.+++.+...++
T Consensus 598 Rh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p~~ 634 (649)
T KOG1803|consen 598 RHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGPSI 634 (649)
T ss_pred ceEEEEcCcHHHHhhHHHHHHHHHHhhhcceeccccc
Confidence 9999999999999 89999999999999998885543
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=8.5e-62 Score=581.51 Aligned_cols=389 Identities=34% Similarity=0.545 Sum_probs=323.1
Q ss_pred CCCCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001054 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~ 466 (1171)
+..||..|++|+..++. +++.||.|-|||||||||+.+|+.|+..++ +||++++||.|||||.-||...++.++|+|.
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 9999999999999999999999999999997
Q ss_pred ccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCC
Q 001054 467 KSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1171)
Q Consensus 467 ~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~ 546 (1171)
..+. |..+++... ......+.|..+ +..++...||.|||.+..++.
T Consensus 746 ~~ki-----------h~~v~e~~~------------------~~~~s~ks~~~l-----~~~~~~~~IVa~TClgi~~pl 791 (1100)
T KOG1805|consen 746 EEKI-----------HPDVEEFTL------------------TNETSEKSYADL-----KKFLDQTSIVACTCLGINHPL 791 (1100)
T ss_pred cccc-----------chHHHHHhc------------------ccccchhhHHHH-----HHHhCCCcEEEEEccCCCchh
Confidence 6541 222222110 001112223322 346788899999999999998
Q ss_pred cccCCCCEEEEEcCCCCCcccccccccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC-CccEEeeeecc
Q 001054 547 LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIRLQVQYR 625 (1171)
Q Consensus 547 L~~~kFD~VIIDEASQasEpe~LIpL~~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g-~~~i~L~~qYR 625 (1171)
+...+||++|||||+|+..|-+|.|+.. ++++||||||.||||.+++.+++..|++.|||+||.... .....|+.|||
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 689999999999999999999999999999999999754 34468999999
Q ss_pred CCCCCCcccccccccCccccccccccccc-------------CCCCCCCC----CCCCCeEEEEcCCceee--cccCCcc
Q 001054 626 MHPSLSEFPSNSFYEGTLQNGVTINERQS-------------SGIDFPWP----VPNRPMFFYVQMGQEEI--SASGTSY 686 (1171)
Q Consensus 626 mhp~I~~f~S~lFY~g~L~~~~~~~~r~l-------------~~~~~~~p----~~~~Pvif~~~~G~ee~--~~~g~S~ 686 (1171)
|+.+|+.++|.+||+|+|+.+.....+.. .....+|- .+..++.|+.+...-.. .......
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 99999999999999999998754433210 01122332 35567777655443222 2234456
Q ss_pred cCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCccCeEEEecccc
Q 001054 687 LNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRS 766 (1171)
Q Consensus 687 ~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~DvVILS~VRS 766 (1171)
.|..||..|.+++..+++.|+++++||||+||++|+.+|++.+... .++|.|||+|||||+|+||+|+||+
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 6999999999999999999999999999999999999999988652 3999999999999999999999999
Q ss_pred CCcCCcC-CCCCcCceeeechhhccceEEEecccccccCchHHHHHHHHHhcCcee
Q 001054 767 NEHQGIG-FLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLV 821 (1171)
Q Consensus 767 n~~~~iG-FL~D~RRLNVALTRAK~~LIIVGn~~~Ls~~~~W~~Ll~~~ke~~~lv 821 (1171)
|.....| .|+|+||+||||||||.+||+||+..+|...+.++.|++++.++..++
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 9875444 688999999999999999999999999999999999999997665443
No 5
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=9.5e-50 Score=466.42 Aligned_cols=282 Identities=34% Similarity=0.517 Sum_probs=243.4
Q ss_pred HHHHhccccccccccccCCCC--cccCCCCEEEEEcCCCCCcccccccccccCceEEEeCCccCCCceeecH-HHHhhcc
Q 001054 526 REISQSADVICCTCVGAGDPR--LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCK-KAARAGL 602 (1171)
Q Consensus 526 ~~iL~~a~VI~~T~~~a~~~~--L~~~kFD~VIIDEASQasEpe~LIpL~~~~kkLILVGD~~QLpPvv~s~-~a~~~gl 602 (1171)
..+++.++||.+|+++++..+ |.+...++|||.||+.+.|..++..+...+.+|||||||+||.|..-.. .+..++|
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 358899999999999988755 6677899999999999999887777777789999999999999986543 3455789
Q ss_pred hHHHHHHHHHcCCccEEeeeeccCCCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeeccc
Q 001054 603 AQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISAS 682 (1171)
Q Consensus 603 ~~SLFERL~~~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~ 682 (1171)
..||||||+..|.+-.+|+.||||++.|.++....||++-+. ...+... ++ .+.....++|+.....++....
T Consensus 773 ~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYddl~d-~esvk~y--ed----I~gms~nlfFv~hnspee~~de 845 (1025)
T KOG1807|consen 773 SISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDDLLD-SESVKEY--ED----IRGMSKNLFFVQHNSPEECMDE 845 (1025)
T ss_pred hHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhhhhc-chhhccc--cc----cccccceeeEEecCCcccCcch
Confidence 999999999999999999999999999999999899986543 3332211 00 1123456777777776665443
Q ss_pred CCcccCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCccCeEEEe
Q 001054 683 GTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILS 762 (1171)
Q Consensus 683 g~S~~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~DvVILS 762 (1171)
.|+.|..||.+++++++.|++.++.+.||.|+|+|.+|+..|++.|... ....|.|.|||+|||.|.|+|++|
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 245699999999999999999999
Q ss_pred ccccCCcCCcCCCCCcCceeeechhhccceEEEeccccccc-CchHHHHHHHHHhcCcee
Q 001054 763 CVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK-QPLWNGLLTHYKEHECLV 821 (1171)
Q Consensus 763 ~VRSn~~~~iGFL~D~RRLNVALTRAK~~LIIVGn~~~Ls~-~~~W~~Ll~~~ke~~~lv 821 (1171)
+||+|..+.+|||.-.+|++|||||||++|+||||..++.. .++|+++++-+++++.+-
T Consensus 919 LVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig 978 (1025)
T KOG1807|consen 919 LVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIG 978 (1025)
T ss_pred EEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhccccc
Confidence 99999999999999999999999999999999999999988 899999999999999874
No 6
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.6e-44 Score=453.34 Aligned_cols=485 Identities=36% Similarity=0.510 Sum_probs=354.4
Q ss_pred CCCceEEEecc------cchHHHHHHHHHHHHHhhhhhhhhHHhhhcCCchhhhhhhccCCcccCCCCCCCCCHHHHHHH
Q 001054 326 NHGFSVDFVWK------STSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAV 399 (1171)
Q Consensus 326 ~~~~~v~~~~~------~~s~~Rm~~AL~~~~~~e~~vs~~I~~~llg~~~~~~~~~~~lp~~f~~p~l~~LNesQ~~AV 399 (1171)
.....+++..+ ...+.++...+..+.........++.+.............. ...+ ......++..|..++
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~~ 283 (767)
T COG1112 207 KEEVRVDIVENLLELSESILLRRELELLSKFALILKRLLESLFEILRGKDLPIKLLDV--ELEL-VEINKELDNEQKLAV 283 (767)
T ss_pred ccceEEEehhhccccchhHHHHhhhhhhHHHhhcccchhhhHHHHhhccccccccCCc--ceee-eccchhccchhHHHH
Confidence 34455666655 67788877777776543333222222222211110000000 0000 112346788888888
Q ss_pred HHhhc-CCcEEEE-cCCCChHhH--HHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC--CeEEEeccccccccC
Q 001054 400 KSVLQ-RPISLIQ-GPPGTGKTV--TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG--LKVVRLCAKSREAVS 473 (1171)
Q Consensus 400 ~~aL~-~~lsLIq-GPPGTGKTt--Tla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g--lkVVRlg~~sre~i~ 473 (1171)
...+. ....++. +++|||||. ++...+.........+++.+++++.+++++..++.... ...++++...+....
T Consensus 284 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 363 (767)
T COG1112 284 KRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTVIKVELLRIGHPSRVLKK 363 (767)
T ss_pred HHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhccccceEEcCCcchhhhh
Confidence 87765 5555555 999999999 77777777777666799999999999999999998754 346666665443211
Q ss_pred CcchhhhHHH-----------------HHhhccchhH---------------HHHHHHHhhhhhhccCCc----------
Q 001054 474 SPVEHLTLHY-----------------QVRHLDTSEK---------------SELHKLQQLKDEQGELSS---------- 511 (1171)
Q Consensus 474 ~~v~~l~L~~-----------------~i~~l~~~~~---------------~~L~kL~~lk~e~~els~---------- 511 (1171)
. ....+.. .+..+..... ..+.+..........+..
T Consensus 364 ~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~ 441 (767)
T COG1112 364 L--KLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGILPALNKSEALWI 441 (767)
T ss_pred h--hhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcchhHHHHHHHHHHH
Confidence 1 0001110 0000000000 000000000000000000
Q ss_pred -------hHHHHHHHHHHHHHHHHHhccccccccccccCCCCcccCCCCEEEEEcCCCCCcccccccccccCceEEEeCC
Q 001054 512 -------SDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGD 584 (1171)
Q Consensus 512 -------~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L~~~kFD~VIIDEASQasEpe~LIpL~~~~kkLILVGD 584 (1171)
......+.+.......+...+++|++|+..++...+....||+||||||+|++++.+++++.. ++++|++||
T Consensus 442 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~~~~fd~viiDEAsQ~~~~~~~~~l~~-~~~~il~GD 520 (767)
T COG1112 442 SLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILKKYEFDYVIIDEASQATEPSALIALSR-AKKVILVGD 520 (767)
T ss_pred hhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhcccccCEEEEcchhcccchhHHHhHhh-cCeEEEecC
Confidence 001111222233445677778899999999998888888999999999999999999999987 899999999
Q ss_pred ccCCCceeecHHHHhhcchHHHHHHHHHcCC-ccEEeeeeccCCCCCCcccccccccCcccccccccccccCCCCCCCCC
Q 001054 585 HCQLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPV 663 (1171)
Q Consensus 585 ~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~-~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~ 663 (1171)
|+||+|++........++..++|+++...+. ...+|+.|||||+.|+.|+|..||++++..+.............++..
T Consensus 521 ~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~ 600 (767)
T COG1112 521 HKQLPPTVFFKESSPEGLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVV 600 (767)
T ss_pred CccCCCeecchhhcccchhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhcccccccc
Confidence 9999999987766677889999999999875 778999999999999999999999999998766555443333333333
Q ss_pred CCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCe
Q 001054 664 PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI 743 (1171)
Q Consensus 664 ~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V 743 (1171)
...|+.++++.+.++ .....++.|..||..+..++..+++.++.+.+||||+||++|+.+|++.+...+ ..+
T Consensus 601 ~~~~~~~~~~~~~~~-~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~~igvis~y~~q~~~i~~~~~~~~-------~~v 672 (767)
T COG1112 601 ISNPLEFYDTLGAEE-FFESKSKLNELEAEIVKVIVDELLKDGLEENDIGVISPYRAQVSLIRRLLNEAG-------KGV 672 (767)
T ss_pred ccCceEEEEecCccc-ccCccceecHHHHHHHHHHHHHHHHcCCcHHHcceecccHHHHHHHHHHHHhcC-------Cce
Confidence 467999999988877 556789999999999999999999999999999999999999999999887643 579
Q ss_pred EEecccCcccCccCeEEEeccccCCc-CCcCCCCCcCceeeechhhccceEEEecccccccCchHHHHHHHHHhcCceec
Q 001054 744 EVASVDSFQGREKDYIILSCVRSNEH-QGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVE 822 (1171)
Q Consensus 744 ~V~TVdsfQG~E~DvVILS~VRSn~~-~~iGFL~D~RRLNVALTRAK~~LIIVGn~~~Ls~~~~W~~Ll~~~ke~~~lv~ 822 (1171)
+|.|||+|||+|+|+||+|+||++.. ..+||+.|.||||||+||||++|||||+..++..++.|++++.++++.+++.+
T Consensus 673 ~v~tvd~fQG~EkdvIi~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~~~~~ 752 (767)
T COG1112 673 EVGTVDGFQGREKDVIILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESDPLYKRLINDLKRKGLLAE 752 (767)
T ss_pred EEeeccccCCccCcEEEEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhhchhHHHHHHHHHhcCcEee
Confidence 99999999999999999999999988 69999999999999999999999999999999999999999999999999987
Q ss_pred CC
Q 001054 823 GP 824 (1171)
Q Consensus 823 g~ 824 (1171)
..
T Consensus 753 ~~ 754 (767)
T COG1112 753 LN 754 (767)
T ss_pred cc
Confidence 65
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=4.6e-46 Score=371.82 Aligned_cols=95 Identities=78% Similarity=1.533 Sum_probs=73.0
Q ss_pred ccccccCCCCCCceeecCCCCcCceeeCCCCCCCcchhhhhHhhcccceeeecCCCCCcccchhhccccCccccccccee
Q 001054 143 HACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFIS 222 (1171)
Q Consensus 143 ~~c~yc~~~~~~~~~~c~~~~~~~wfcn~~~~~~~shi~~hl~~~~~~~~~lh~~~~~~~~~l~cy~c~~~n~f~lg~~~ 222 (1171)
|||+|||||+|+|||+|++ |+|||||||++|++||||+||||+|||||+||||+|||||+||||+||+||||+|||||
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 001054 223 AKTESVVVLLCREPCLN 239 (1171)
Q Consensus 223 ~~~~~~~v~lcr~~c~~ 239 (1171)
+|+|+|||||||+||+.
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 99999999999999985
No 8
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.9e-36 Score=366.35 Aligned_cols=373 Identities=32% Similarity=0.410 Sum_probs=286.2
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE-eccccccccCCcchhhhHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVR-LCAKSREAVSSPVEHLTLH 482 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~glkVVR-lg~~sre~i~~~v~~l~L~ 482 (1171)
....+|.||||||||.++++-++++... ....|++|+++|.++|....|+... ..+-+ .+.+.+.. ....++.
T Consensus 326 ~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~p-~~~~~~~~~~~~~~--~~~~~~~-- 400 (775)
T KOG1804|consen 326 PEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHYP-LTFSTARGEDVRAK--SSTAWYN-- 400 (775)
T ss_pred ccccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccccccccccc-cccccccccccccc--chhHHhh--
Confidence 4568999999999999988776665544 5568999999999999999998321 11110 00000000 0000000
Q ss_pred HHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCC---cccCCCCEEEEEc
Q 001054 483 YQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR---LANFRFRQVLIDE 559 (1171)
Q Consensus 483 ~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~---L~~~kFD~VIIDE 559 (1171)
+.+ .+....+..+...+...+|+++||++++.-. ..-..|.+++|||
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 0011111111224556788999998877533 4445799999999
Q ss_pred CCCCCcccccccccc--cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC------------CccEEeeeecc
Q 001054 560 STQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG------------LKPIRLQVQYR 625 (1171)
Q Consensus 560 ASQasEpe~LIpL~~--~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g------------~~~i~L~~qYR 625 (1171)
|++++|+++++++.. ...++||.|||+||+|++.+..+...|++.+||+|++... ...+.|-.|||
T Consensus 451 Ag~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyr 530 (775)
T KOG1804|consen 451 AGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYR 530 (775)
T ss_pred cccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHh
Confidence 999999999999974 2348999999999999999999999999999999998752 12367999999
Q ss_pred CCCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHc
Q 001054 626 MHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS 705 (1171)
Q Consensus 626 mhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~ 705 (1171)
+|+.|..+.|++||.+.|........... ...|. ..++|..+.|..+......|++|..||..|..+++.+...
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 SHPIILCLENRLYYLGELTAEASEVDVRG---LELWS---GLILFYGAPGFTERAGNSPSWLNLEEAAVVVRMTKALPLG 604 (775)
T ss_pred hhhHhhhcccccccccceeeeccHHHHHH---HHhcc---cceeccccccccccccCChhhccHHHHHHHHHHHhccCCC
Confidence 99999999999999999985544332211 11232 3388999999999999999999999999998888877654
Q ss_pred C-CCCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCccCeEEEeccccCCcC------CcCCCCCc
Q 001054 706 G-VVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQ------GIGFLNDP 778 (1171)
Q Consensus 706 G-v~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~DvVILS~VRSn~~~------~iGFL~D~ 778 (1171)
. ....||||||||++|+..|+.++...+ ..++.|++|..|||+|+.+||+|+|||.... ..+|+.++
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 345599999999999999999987643 5689999999999999999999999998532 22389999
Q ss_pred CceeeechhhccceEEEecccccccCchHHHHHHHHHhcCceecCC
Q 001054 779 RRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGP 824 (1171)
Q Consensus 779 RRLNVALTRAK~~LIIVGn~~~Ls~~~~W~~Ll~~~ke~~~lv~g~ 824 (1171)
++||||+|||+..++++|++..+..++.|..++.++.+++.+....
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 9999999999999999999999999999999999999998776544
No 9
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=1.8e-34 Score=362.03 Aligned_cols=293 Identities=35% Similarity=0.505 Sum_probs=247.4
Q ss_pred ccccccccccccCCCCc--ccCCCCEEEEEcCCCCCcccccccccc-cCceEEEeCCccCCCceeecHHHHhhcchHHHH
Q 001054 531 SADVICCTCVGAGDPRL--ANFRFRQVLIDESTQATEPECLIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLF 607 (1171)
Q Consensus 531 ~a~VI~~T~~~a~~~~L--~~~kFD~VIIDEASQasEpe~LIpL~~-~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLF 607 (1171)
.+.+|++|+.+.+.... ....|+.|+||||.|+.|++.++||.+ +..+.+++||+.|||++|.+..+....+..++|
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 78899999887776333 334799999999999999999999998 789999999999999999999999999999999
Q ss_pred HHHHHcCCccEEeeeeccCCCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcC-CceeecccCCcc
Q 001054 608 ERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQM-GQEEISASGTSY 686 (1171)
Q Consensus 608 ERL~~~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~-G~ee~~~~g~S~ 686 (1171)
+|+...+.....|++||||||+|..|++..||+++|.+...+........... .....|+.|++.. |.+... .+.|.
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 99999999888999999999999999999999999887766654443322221 2234567777665 555544 44899
Q ss_pred cCHHHHHHHHHHHHHHHHc----CCCCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCccCeEEEe
Q 001054 687 LNRTEAANVEKIVTTFLRS----GVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILS 762 (1171)
Q Consensus 687 ~N~~EA~~V~~iV~~Llk~----Gv~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~DvVILS 762 (1171)
.|..|+..+..++..|.+. ...+..+|||+||+.|+..+++.+.............+.|.|||+|||.|.|+||+|
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 9999999999999888764 233778999999999999999887654322222234799999999999999999999
Q ss_pred ccccCCcCCcCCCCCcCceeeechhhccceEEEecccccccCch-HHHHHHHHHhcCceecCCC
Q 001054 763 CVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPL-WNGLLTHYKEHECLVEGPL 825 (1171)
Q Consensus 763 ~VRSn~~~~iGFL~D~RRLNVALTRAK~~LIIVGn~~~Ls~~~~-W~~Ll~~~ke~~~lv~g~l 825 (1171)
+||++....+||+.+.||+|||+||||..||++||...|..+.. |..++...+..+|+.+...
T Consensus 752 ~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~ 815 (827)
T KOG1801|consen 752 TVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAA 815 (827)
T ss_pred EEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhccccccccccc
Confidence 99999998899999999999999999999999999999998776 9999999999999987654
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=1e-33 Score=299.36 Aligned_cols=195 Identities=44% Similarity=0.714 Sum_probs=141.2
Q ss_pred chHHHHHHHHHcC-CccEEeeeeccCCCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeec
Q 001054 602 LAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEIS 680 (1171)
Q Consensus 602 l~~SLFERL~~~g-~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~ 680 (1171)
+..|||+||+..+ .+.++|++|||||++|++|+|++||+|+|.+.......... .....+....|++|+++.+.+...
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 88899999999999999999999999999987765544332 122334566889999999888766
Q ss_pred ccC-CcccCHHHHHHHHHHHHHHHHcCCCC---CcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCcc
Q 001054 681 ASG-TSYLNRTEAANVEKIVTTFLRSGVVP---SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREK 756 (1171)
Q Consensus 681 ~~g-~S~~N~~EA~~V~~iV~~Llk~Gv~~---~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~ 756 (1171)
... +|+.|..||+.|+++++.|+..+... .+|+|||||++|+.+|++.|......... ..++|.|||+|||+|+
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 89999999999999999999987766 89999999999999999999865422111 1299999999999999
Q ss_pred CeEEEeccccCCcCCcCCCCCcCceeeechhhccceEEEeccc
Q 001054 757 DYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPK 799 (1171)
Q Consensus 757 DvVILS~VRSn~~~~iGFL~D~RRLNVALTRAK~~LIIVGn~~ 799 (1171)
|+||+++|+++....+||+.+.+|+|||+||||++||||||++
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 9999999999877789999999999999999999999999964
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=1.9e-30 Score=277.42 Aligned_cols=204 Identities=38% Similarity=0.569 Sum_probs=129.3
Q ss_pred CCCHHHHHHHHHhhcCCc-EEEEcCCCChHhHHHHHHHHHHH-------HcCCCcEEEEcCcHHHHHHHHHHHHh-----
Q 001054 390 ELNASQVFAVKSVLQRPI-SLIQGPPGTGKTVTSAAIVYHMA-------KQGQGQVLVCAPSNVAVDQLAEKISA----- 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~l-sLIqGPPGTGKTtTla~iI~~Ll-------k~~~~rILV~ApSN~AVD~L~eRL~~----- 456 (1171)
.||++|++||..++.... ++|+||||||||+|++.++..++ .....+||+||+||.|+|++.++|.+
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 489999999999999776 99999999999999999999883 23556999999999999999999988
Q ss_pred ---cCCeEEEeccccccccCCcchhhhHHHHHhhccc----hhHHHHHHH------HhhhhhhccCCchH---HHHHHHH
Q 001054 457 ---TGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDT----SEKSELHKL------QQLKDEQGELSSSD---EKKYKAL 520 (1171)
Q Consensus 457 ---~glkVVRlg~~sre~i~~~v~~l~L~~~i~~l~~----~~~~~L~kL------~~lk~e~~els~~d---ek~y~~l 520 (1171)
...+++|++... +.....+....+...+..... .....+.++ ..+......+.... ...++..
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 223334444444444433321 000111111 11112222222221 2334444
Q ss_pred HHHHHHHHHhccccccccccccCCCCcccC--CCCEEEEEcCCCCCcccccccccccCceEEEeCCccCCCceeec
Q 001054 521 KRATEREISQSADVICCTCVGAGDPRLANF--RFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1171)
Q Consensus 521 ~r~~e~~iL~~a~VI~~T~~~a~~~~L~~~--kFD~VIIDEASQasEpe~LIpL~~~~kkLILVGD~~QLpPvv~s 594 (1171)
.+.....+++.++||+||+.++....+... .||+||||||+|++++++|+++....+++||||||+||||++.+
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 555567899999999999999977777666 89999999999999999999998777999999999999999865
No 12
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.97 E-value=4.2e-30 Score=312.89 Aligned_cols=238 Identities=23% Similarity=0.292 Sum_probs=141.3
Q ss_pred HHHHHHhhhhhhhhHHhhhcCCchhhhhhhccCCcccCCCCCCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHH
Q 001054 347 MKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV 426 (1171)
Q Consensus 347 L~~~~~~e~~vs~~I~~~llg~~~~~~~~~~~lp~~f~~p~l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI 426 (1171)
|++++..|..++.+|.++......+...+...+.+.|... ..+.+.|+.||..++.+++++|+|+||||||||+..++
T Consensus 111 l~ry~~~E~~iA~~l~~~~~~~~~~~~~~~~~l~~lf~~~--~~~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll 188 (615)
T PRK10875 111 LQRMWQNERTVARFFNEVNHAIEVDEALLRQTLDALFGPV--TDEVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLL 188 (615)
T ss_pred eHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHhcCcC--CCCCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHH
Confidence 4455666777777776543222222222222222333211 12458999999999999999999999999999999999
Q ss_pred HHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhh
Q 001054 427 YHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLK 503 (1171)
Q Consensus 427 ~~Llk~~---~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk 503 (1171)
..+.+.. ..+|+++|||++||.+|.+++.....+ +.- ...++........++|++....
T Consensus 189 ~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~---~~~---------------~~~~~~~~~~~a~TiHrlLg~~ 250 (615)
T PRK10875 189 AALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQ---LPL---------------TDEQKKRIPEEASTLHRLLGAQ 250 (615)
T ss_pred HHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhc---ccc---------------chhhhhcCCCchHHHHHHhCcC
Confidence 8887642 347999999999999999998653111 000 0000111111234555554432
Q ss_pred hhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCcccCCCCEEEEEcCCCCCccc--ccccccccCceEEE
Q 001054 504 DEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPE--CLIPLVLGAKQVVL 581 (1171)
Q Consensus 504 ~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L~~~kFD~VIIDEASQasEpe--~LIpL~~~~kkLIL 581 (1171)
.....+. ...-....+|+||||||||++... .|+..+....||||
T Consensus 251 ~~~~~~~---------------------------------~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al~~~~rlIl 297 (615)
T PRK10875 251 PGSQRLR---------------------------------YHAGNPLHLDVLVVDEASMVDLPMMARLIDALPPHARVIF 297 (615)
T ss_pred CCccchh---------------------------------hccccCCCCCeEEEChHhcccHHHHHHHHHhcccCCEEEE
Confidence 2110000 001122368999999999999743 23444445689999
Q ss_pred eCCccCCCceeecHHHHh------hcchHHHHHHHHHc-----------CCcc-----EEeeeeccCC--CCCCcccccc
Q 001054 582 VGDHCQLGPVIMCKKAAR------AGLAQSLFERLVLL-----------GLKP-----IRLQVQYRMH--PSLSEFPSNS 637 (1171)
Q Consensus 582 VGD~~QLpPvv~s~~a~~------~gl~~SLFERL~~~-----------g~~~-----i~L~~qYRmh--p~I~~f~S~l 637 (1171)
|||++||+||-.+..... .++.....+.+... ..+. ++|+++||.. ..|..++..+
T Consensus 298 vGD~~QL~sV~~G~VL~DL~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~Rf~~~SgI~~lA~~I 377 (615)
T PRK10875 298 LGDRDQLASVEAGAVLGDICRFAEAGYSAERAQQLSRLTGCHLPAGTGTEAASVRDSLCLLRKSYRFGSDSGIGQLAAAV 377 (615)
T ss_pred ecchhhcCCCCCCchHHHHHHhhhcccchhhhhHHhhhccccccccccccCCccccceeecceeecCCCCCcHHHHHHHH
Confidence 999999999965532211 11111111111110 1122 5899999985 5687776554
No 13
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=99.97 E-value=1.9e-30 Score=315.40 Aligned_cols=339 Identities=21% Similarity=0.249 Sum_probs=188.3
Q ss_pred HHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCC----CcEEEEcCcHHHHHHHHHHHHhcCCeEEEecccc
Q 001054 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ----GQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (1171)
Q Consensus 393 esQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~----~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~s 468 (1171)
+.|+.||..++.+++++|+|+||||||||++.++..|.+..+ .+|+++|||++||++|.+.+.....+ +...
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 799999999999999999999999999999999988876532 48999999999999999998653211 1000
Q ss_pred ccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCcc
Q 001054 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (1171)
Q Consensus 469 re~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L~ 548 (1171)
. .....+ .....+++++......... ++ ...-.
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 0113344444432211000 00 00011
Q ss_pred cCCCCEEEEEcCCCCCccc--ccccccccCceEEEeCCccCCCceeecHHHHhh------cchHHHHHHHH-----H---
Q 001054 549 NFRFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARA------GLAQSLFERLV-----L--- 612 (1171)
Q Consensus 549 ~~kFD~VIIDEASQasEpe--~LIpL~~~~kkLILVGD~~QLpPvv~s~~a~~~------gl~~SLFERL~-----~--- 612 (1171)
...+|+||||||||++... .|+..+....|+|||||+.||+||-.+...... ++.......+. .
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 2368999999999999853 233334456899999999999999654221110 00000000000 0
Q ss_pred -cCCc--cEEeeeeccCCC--CCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCc-----------
Q 001054 613 -LGLK--PIRLQVQYRMHP--SLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQ----------- 676 (1171)
Q Consensus 613 -~g~~--~i~L~~qYRmhp--~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~----------- 676 (1171)
...+ .++|+++||... .|..++..+. .|.......... ...... ..|+.....
T Consensus 337 ~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I~-~g~~~~~~~~~~-~~~~~~---------~~~~~~~~~~~~~i~~~~~~ 405 (586)
T TIGR01447 337 RNPLSDNVCFLKTSHRFGKDSGIGQLAKAIN-SGDIEAVLNNLR-SGQLIE---------FEFLNSKEDAIERLKNLFVK 405 (586)
T ss_pred cCCCCCcEEEeceeecCCCCccHHHHHHHHH-cCChhHHHHHhc-cCCCCc---------eEecCCHHHHHHHHHHHHHH
Confidence 0023 679999999965 5877765542 332211000000 000000 000000000
Q ss_pred ---------------------eeecccCCcccCHHHHHHHHHHHHHHHH-------------------------cCCCCC
Q 001054 677 ---------------------EEISASGTSYLNRTEAANVEKIVTTFLR-------------------------SGVVPS 710 (1171)
Q Consensus 677 ---------------------ee~~~~g~S~~N~~EA~~V~~iV~~Llk-------------------------~Gv~~~ 710 (1171)
+...-...-+.-+.-+..+-+.+++++. .|+.++
T Consensus 406 ~~~~~~~~~~~~~~~~~l~~~~~~qvL~~~r~G~~Gv~~LN~~lq~~l~~~~~~~~~~~~~~Gd~Vm~t~Nd~~~gl~NG 485 (586)
T TIGR01447 406 YRTFLQKLAALSDIKEILETFDRLRLLTALRDGPFGVLGLNRRIEQELQEKYFDPDEEGWYIGRPIMVTENDYTLGLFNG 485 (586)
T ss_pred HHHHHHhhhcccchhhhhcccccEEEECeeeCCcHhHHHHHHHHHHHhCcccCCCCCceeecCCeEEEeecCcccCcCCC
Confidence 0000000000000112222233332221 256789
Q ss_pred cEEEEecchhHHHHHHHHHHh-cc--chhhhc---CCCeEEecccCcccCccCeEEEeccccCCcCCcCCCCCcCceeee
Q 001054 711 QIGVITPYEGQRAYIVNYMSR-NG--ALRQQL---YKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVA 784 (1171)
Q Consensus 711 dIGIITPY~aQv~~I~~~L~~-~g--~l~~~~---~~~V~V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL~D~RRLNVA 784 (1171)
|||+|.+.... +.-.+.. .+ .+.... .+-....|||++||+|||.||+.+..... -+.+++++|||
T Consensus 486 diG~i~~~~~~---~~v~f~~~~g~~~~~~~~l~~~~~ayA~TvHKSQGsef~~Vi~~l~~~~~-----~~l~r~llYTa 557 (586)
T TIGR01447 486 DIGVLLRDPDG---LTVWFHFADGSKAVLPSRLPNYETAFAMTVHKSQGSEFDHVILILPNGNS-----PVLTRELLYTG 557 (586)
T ss_pred CeEEEEEeCCc---EEEEEEcCCCeEEechHHcCccceEEEEEeeHhcCCcCCeEEEECCCCCC-----cccccceeEEE
Confidence 99999864321 1100100 00 111111 23355789999999999999998875432 25679999999
Q ss_pred chhhccceEEEeccccc
Q 001054 785 LTRARYGIVILGNPKVL 801 (1171)
Q Consensus 785 LTRAK~~LIIVGn~~~L 801 (1171)
|||||+.|+|+|+.+.|
T Consensus 558 iTRAk~~l~i~~~~~~l 574 (586)
T TIGR01447 558 ITRAKDQLSVWSDKETL 574 (586)
T ss_pred eeehhCeEEEEECHHHH
Confidence 99999999999998754
No 14
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.96 E-value=3.1e-30 Score=322.70 Aligned_cols=303 Identities=18% Similarity=0.195 Sum_probs=168.3
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcC-C--eEE
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATG-L--KVV 462 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~g-l--kVV 462 (1171)
..||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||++|.+|+.+.. . .-+
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 6788999999999999999999999974 45689999999999999999997641 1 001
Q ss_pred Eecc---ccc----c-----ccCCcchhhh-------HHHHHhhccch----hHHHH-HHHHhhhhhhccCCchH-----
Q 001054 463 RLCA---KSR----E-----AVSSPVEHLT-------LHYQVRHLDTS----EKSEL-HKLQQLKDEQGELSSSD----- 513 (1171)
Q Consensus 463 Rlg~---~sr----e-----~i~~~v~~l~-------L~~~i~~l~~~----~~~~L-~kL~~lk~e~~els~~d----- 513 (1171)
.++. ... + ........+. +...++.+... ....+ ..+...+.. .+...+
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 1111 000 0 0000000000 00000100000 00000 000001100 000000
Q ss_pred -------HHHHHHHHHHH-HHHHHhccccccccccccC-CCCc---ccCCCCEEEEEcCCCCCcccc-cccc-cccCceE
Q 001054 514 -------EKKYKALKRAT-EREISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPEC-LIPL-VLGAKQV 579 (1171)
Q Consensus 514 -------ek~y~~l~r~~-e~~iL~~a~VI~~T~~~a~-~~~L---~~~kFD~VIIDEASQasEpe~-LIpL-~~~~kkL 579 (1171)
...|+.+.... +...++..+++..+..... .+.+ ...+|++|+|||+||++..+. |+.+ .....++
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 1222 123799999999999998764 2222 2245789
Q ss_pred EEeCCccCCCceeecHHHHhhcchHHHHHHHHHc--CCccEEeeeeccCCCCCCcccccccccCcccccccccccccCCC
Q 001054 580 VLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGI 657 (1171)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~ 657 (1171)
++|||++|....+++.. ...|.++... +...+.|++|||+++.|++++|.++-.+......
T Consensus 244 ~vVGD~dQsIY~fRGA~-------~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k---------- 306 (721)
T PRK11773 244 MIVGDDDQSIYGWRGAQ-------VENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGK---------- 306 (721)
T ss_pred EEEecCcccccccCCCC-------hHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCc----------
Confidence 99999999665544322 2233333221 3456899999999999999999988543211000
Q ss_pred CCCCCC--CCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchhHHHHH
Q 001054 658 DFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYI 725 (1171)
Q Consensus 658 ~~~~p~--~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~~I 725 (1171)
..|+. ...++.++.. .....||..|++.|..++..|+..+||+||++.+.|...|
T Consensus 307 -~~~~~~~~g~~v~~~~~------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~l 363 (721)
T PRK11773 307 -ELWTDGGDGEPISLYCA------------FNELDEARFVVERIKTWQDNGGALSDCAILYRSNAQSRVL 363 (721)
T ss_pred -ccccCCCCCCeeEEEeC------------CCHHHHHHHHHHHHHHHHHcCCCcccEEEEEecchhHHHH
Confidence 01111 1112222111 1124689999999999999999999999998765544433
No 15
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.96 E-value=4.1e-30 Score=321.62 Aligned_cols=303 Identities=18% Similarity=0.199 Sum_probs=166.8
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcCC---eEE
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL---KVV 462 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~gl---kVV 462 (1171)
..||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||++|.+||.+..- .-+
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 46999999999865 6788999999999999999999999975 456999999999999999999976411 111
Q ss_pred Eecccc---c----c-----ccCCcchhhhH-------HHHHhhccchh----HHHHHH-HHhhhhhh------ccCCch
Q 001054 463 RLCAKS---R----E-----AVSSPVEHLTL-------HYQVRHLDTSE----KSELHK-LQQLKDEQ------GELSSS 512 (1171)
Q Consensus 463 Rlg~~s---r----e-----~i~~~v~~l~L-------~~~i~~l~~~~----~~~L~k-L~~lk~e~------~els~~ 512 (1171)
.++... . + ........+.- ...+..+.... ...+.. +...+... ......
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 111100 0 0 00000000000 00001000000 000000 01111000 000000
Q ss_pred HH----HHHHHHHHHHH-HHHHhccccccccccccC-CCCcc---cCCCCEEEEEcCCCCCcccccc-c-ccccCceEEE
Q 001054 513 DE----KKYKALKRATE-REISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPECLI-P-LVLGAKQVVL 581 (1171)
Q Consensus 513 de----k~y~~l~r~~e-~~iL~~a~VI~~T~~~a~-~~~L~---~~kFD~VIIDEASQasEpe~LI-p-L~~~~kkLIL 581 (1171)
.. ..|+.+..... ...++..+++..+..... .+.+. ..+|++|+|||+||++..+..+ . |....+++++
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 113333344433332221 11121 2379999999999999877432 2 2234578999
Q ss_pred eCCccCCCceeecHHHHhhcchHHHHHHHHHc--CCccEEeeeeccCCCCCCcccccccccCcccccccccccccCCCCC
Q 001054 582 VGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDF 659 (1171)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~ 659 (1171)
|||++|....+++. ....|.++... +...+.|++|||+++.|++++|.++-.+.-.... .
T Consensus 241 VGD~~QsIY~fRGA-------~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~-----------~ 302 (715)
T TIGR01075 241 VGDDDQSIYGWRGA-------QVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGK-----------N 302 (715)
T ss_pred EeCCcccccccCCC-------CHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhccccccc-----------c
Confidence 99999966554432 22333333322 2456899999999999999999988543211000 0
Q ss_pred CCCC--CCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchhHHH
Q 001054 660 PWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRA 723 (1171)
Q Consensus 660 ~~p~--~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~ 723 (1171)
.|.. ...++.++.. .....|+..|++.|..+++.|+.++||+||++.+.|..
T Consensus 303 ~~~~~~~g~~i~~~~~------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~ 356 (715)
T TIGR01075 303 LWTDGEVGEPISLYSA------------FNELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSR 356 (715)
T ss_pred ccCCCCCCCceEEEeC------------CCHHHHHHHHHHHHHHHHHcCCCccCEEEEEecCchHH
Confidence 0111 1112222211 11246899999999999998999999999986544333
No 16
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.96 E-value=4.4e-29 Score=312.96 Aligned_cols=303 Identities=16% Similarity=0.162 Sum_probs=165.3
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcCC---eEE
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL---KVV 462 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~gl---kVV 462 (1171)
..||++|++||... .+..+|.|+||||||+|++.+|.+|+.. .+.+||++||||+||.+|.+||.+..- .-+
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 6788999999999999999999999975 346899999999999999999975411 101
Q ss_pred Eeccccc---cc---------cCCcchhhh-------HHHHHhhccch----hHHHH-HHHHhhhhhhccCCchH-----
Q 001054 463 RLCAKSR---EA---------VSSPVEHLT-------LHYQVRHLDTS----EKSEL-HKLQQLKDEQGELSSSD----- 513 (1171)
Q Consensus 463 Rlg~~sr---e~---------i~~~v~~l~-------L~~~i~~l~~~----~~~~L-~kL~~lk~e~~els~~d----- 513 (1171)
.++.... .. .......+. +...++..... ....+ ..+..++.. .+...+
T Consensus 81 ~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~k~~--~~~~~~~~~~~ 158 (726)
T TIGR01073 81 WISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNE--LLPPEDFAKEA 158 (726)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHc--CCCHHHHHHhh
Confidence 1111000 00 000000000 00000000000 00000 001111110 000000
Q ss_pred ----H----HHHHHHHHH-HHHHHHhccccccccccccC-CCCcc---cCCCCEEEEEcCCCCCccccc-c-cccccCce
Q 001054 514 ----E----KKYKALKRA-TEREISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPECL-I-PLVLGAKQ 578 (1171)
Q Consensus 514 ----e----k~y~~l~r~-~e~~iL~~a~VI~~T~~~a~-~~~L~---~~kFD~VIIDEASQasEpe~L-I-pL~~~~kk 578 (1171)
. ..|+..... .+...++..|++..+..... .+.+. ..+|++|+|||+||++..+.. + .|....++
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 0 011111111 11123334444443332221 11121 237999999999999997742 2 22234578
Q ss_pred EEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc--CCccEEeeeeccCCCCCCcccccccccCcccccccccccccCC
Q 001054 579 VVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSG 656 (1171)
Q Consensus 579 LILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~ 656 (1171)
+++|||++|...-+++. ....|.++... +...+.|++|||+++.|++++|.++-.+.-... ..
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 99999999965554332 22233333221 345689999999999999999998754321100 00
Q ss_pred CCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHcC-CCCCcEEEEecchhHHH
Q 001054 657 IDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRA 723 (1171)
Q Consensus 657 ~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~G-v~~~dIGIITPY~aQv~ 723 (1171)
+....+ ...++.++... ....|+..|...|.+|+..| +..+||+||++.+.|..
T Consensus 304 l~~~~~-~g~~v~~~~~~------------~~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~ 358 (726)
T TIGR01073 304 LWTENS-SGDKITYYEAD------------TERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSR 358 (726)
T ss_pred cccCCC-CCcceEEEeCC------------CHHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHH
Confidence 000000 11122222111 12468899999999998876 68999999987654433
No 17
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.96 E-value=1.3e-28 Score=305.50 Aligned_cols=240 Identities=18% Similarity=0.181 Sum_probs=133.6
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-CCe---EE
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GLK---VV 462 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~-glk---VV 462 (1171)
.||++|++||... .+..+|.|+||||||+|++.+|.+|+.. .+.+||++||||+||++|.+||... +.. -+
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 6788999999999999999999999974 3568999999999999999999763 211 01
Q ss_pred Eecc---cccc---------ccCCcchhhh-------HHHHHhhccchhHHHHHHH----HhhhhhhccCCchH------
Q 001054 463 RLCA---KSRE---------AVSSPVEHLT-------LHYQVRHLDTSEKSELHKL----QQLKDEQGELSSSD------ 513 (1171)
Q Consensus 463 Rlg~---~sre---------~i~~~v~~l~-------L~~~i~~l~~~~~~~L~kL----~~lk~e~~els~~d------ 513 (1171)
.++. -... .+......+. +...+..+.......+..+ ...+.. .+...+
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 1111 0000 0000000000 0000000000000001111 001100 000000
Q ss_pred ---HHHHHHHHHHH-----HHHHHhcccccccccccc-CCCCc---ccCCCCEEEEEcCCCCCccccc-cccc-ccCceE
Q 001054 514 ---EKKYKALKRAT-----EREISQSADVICCTCVGA-GDPRL---ANFRFRQVLIDESTQATEPECL-IPLV-LGAKQV 579 (1171)
Q Consensus 514 ---ek~y~~l~r~~-----e~~iL~~a~VI~~T~~~a-~~~~L---~~~kFD~VIIDEASQasEpe~L-IpL~-~~~kkL 579 (1171)
...+..+.... +...++..+++..+.... ..+.+ ...+|++|+|||+||++..+.. +..+ ....++
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 01111111111 112333344443322211 11111 1237999999999999997743 2222 235689
Q ss_pred EEeCCccCCCceeecHHHHhhcchHHHHHHHHHc--CCccEEeeeeccCCCCCCccccccccc
Q 001054 580 VLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYE 640 (1171)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~ 640 (1171)
++|||++|..+.+++. ....|.++... +...+.|.+|||++++|++++|.++-.
T Consensus 238 ~~VGD~~QsIY~frGA-------~~~~~~~f~~~~~~~~~~~L~~NyRs~~~I~~~an~li~~ 293 (672)
T PRK10919 238 TVVGDDDQSIYSWRGA-------RPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIAN 293 (672)
T ss_pred EEEcCCcccccccCCC-------ChHHHHHHHHhCCCCcEEECCCCCCCcHHHHHHHHHHHhh
Confidence 9999999976655432 33444443332 345689999999999999999998754
No 18
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.96 E-value=2.1e-28 Score=302.15 Aligned_cols=368 Identities=18% Similarity=0.199 Sum_probs=201.1
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-C---CeE
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-G---LKV 461 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~-g---lkV 461 (1171)
..||++|++||... .+..+|.|+||||||+|+++++.+|+.. .+.+||++|+|++||++|.+||.+. + +.+
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 5667999999999999999999999875 3458999999999999999999752 2 222
Q ss_pred EEeccccccc------cCCcchhh--------h-HH-HHHhhccc----------------------hh-----------
Q 001054 462 VRLCAKSREA------VSSPVEHL--------T-LH-YQVRHLDT----------------------SE----------- 492 (1171)
Q Consensus 462 VRlg~~sre~------i~~~v~~l--------~-L~-~~i~~l~~----------------------~~----------- 492 (1171)
-.+.+-.... ....+..+ . +. ........ ..
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 1111100000 00000000 0 00 00000000 00
Q ss_pred HHHHHHHHhhhhhhcc--------CCch----HHHHHH---HHHHHHHH-----HHHhccccccccccccCCCCcccCCC
Q 001054 493 KSELHKLQQLKDEQGE--------LSSS----DEKKYK---ALKRATER-----EISQSADVICCTCVGAGDPRLANFRF 552 (1171)
Q Consensus 493 ~~~L~kL~~lk~e~~e--------ls~~----dek~y~---~l~r~~e~-----~iL~~a~VI~~T~~~a~~~~L~~~kF 552 (1171)
...+..+..+....+. .... ..++++ .+.+..+. ..++..++|........... ...+|
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 11222223222111111111 11269
Q ss_pred CEEEEEcCCCCCccccc-c-cccc--cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc--CCccEEeeeeccC
Q 001054 553 RQVLIDESTQATEPECL-I-PLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRM 626 (1171)
Q Consensus 553 D~VIIDEASQasEpe~L-I-pL~~--~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRm 626 (1171)
++|+|||+||++..+.- + .+.. ...++++|||+.|....+.+. ...++..+... ....+.|+++||+
T Consensus 432 ~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY~frGa-------~~~~~~~f~~~f~~~~~~~L~~nYRs 504 (684)
T PRK11054 432 KHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAIYRFSGA-------DLSLTTAFHERFGEGDRCHLDTTYRF 504 (684)
T ss_pred cEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCccccccCCC-------ChHHHHHHHhhcCCCeEEEeCCCCCC
Confidence 99999999999986642 2 2221 246899999999976654322 23344433321 2345789999999
Q ss_pred CCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHcC
Q 001054 627 HPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG 706 (1171)
Q Consensus 627 hp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~G 706 (1171)
+++|++++|.++-.+.-. ..+.+. .......|.+.... ..+.+.+...+..+..
T Consensus 505 ~~~I~~~An~~i~~n~~~--------~~k~l~-s~~~g~~p~v~~~~---------------~~~~~~il~~l~~~~~-- 558 (684)
T PRK11054 505 NSRIGEVANRFIQQNPHQ--------LKKPLN-SLTKGDKKAVTLLP---------------EDQLEALLDKLSGYAK-- 558 (684)
T ss_pred CHHHHHHHHHHHHhCccc--------cCCccc-ccCCCCCceEEEeC---------------CHHHHHHHHHHHHhhc--
Confidence 999999998876432111 000000 00111233332211 0234444444444433
Q ss_pred CCCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCccCeEEEeccccCCc--C--------------
Q 001054 707 VVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEH--Q-------------- 770 (1171)
Q Consensus 707 v~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~DvVILS~VRSn~~--~-------------- 770 (1171)
..++|+||++|+.+...+.+.+... + ....|.+.|+|++||+|||+|||..+..... .
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 3579999999998875544433321 1 1237999999999999999999987654320 0
Q ss_pred ---CcCCCCCcCceeeechhhccceEEEecc
Q 001054 771 ---GIGFLNDPRRLNVALTRARYGIVILGNP 798 (1171)
Q Consensus 771 ---~iGFL~D~RRLNVALTRAK~~LIIVGn~ 798 (1171)
..-...++|+|||||||||+.|+|+.+.
T Consensus 633 ~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~ 663 (684)
T PRK11054 633 PPEDFPDAEERRLLYVALTRAKHRVWLLFNK 663 (684)
T ss_pred cccccccHHHHHHHHHHhhhhhcEEEEEEcC
Confidence 0012246899999999999999999873
No 19
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=99.95 E-value=7.7e-28 Score=299.75 Aligned_cols=300 Identities=22% Similarity=0.259 Sum_probs=183.5
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~ 467 (1171)
..||+.|++||+.++.+++++|+|+|||||||++..++..+...+ ..+|++||||++||+.|.+.+...
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 258999999999999887754211
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCc
Q 001054 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1171)
Q Consensus 468 sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1171)
..++|..+..... . ... . . .-
T Consensus 392 ----------a~Tih~lL~~~~~---------------~--~~~----~--~--------------------------~~ 412 (720)
T TIGR01448 392 ----------ASTIHRLLGYGPD---------------T--FRH----N--H--------------------------LE 412 (720)
T ss_pred ----------cccHHHHhhccCC---------------c--cch----h--h--------------------------hh
Confidence 1122222211000 0 000 0 0 00
Q ss_pred ccCCCCEEEEEcCCCCCccc--ccccccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC-CccEEeeeec
Q 001054 548 ANFRFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIRLQVQY 624 (1171)
Q Consensus 548 ~~~kFD~VIIDEASQasEpe--~LIpL~~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g-~~~i~L~~qY 624 (1171)
.....|+||||||||++... .|+.......++|||||+.|||||-.+ ..|..++..+ .+.++|+++|
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 01268999999999999743 233333356799999999999999532 3455555554 6778999999
Q ss_pred cCCC--CCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHH
Q 001054 625 RMHP--SLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF 702 (1171)
Q Consensus 625 Rmhp--~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~L 702 (1171)
|... .|..++..+- .|++.. .. ++. +... + .++.+ .....+.+++..+
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 4676665442 332210 00 000 0000 0 00011 1111222333332
Q ss_pred H----HcCCCCCcEEEEecchh---HHHHHHHHHHhcc------------------------------------------
Q 001054 703 L----RSGVVPSQIGVITPYEG---QRAYIVNYMSRNG------------------------------------------ 733 (1171)
Q Consensus 703 l----k~Gv~~~dIGIITPY~a---Qv~~I~~~L~~~g------------------------------------------ 733 (1171)
+ ..++...++-||+|.+. -+..|.+.|+...
T Consensus 533 ~~~~~~~~~~~~d~qVL~p~~~g~~Gv~~lN~~lq~~lnp~~~~~~~~~~~~~~~~~GDkVm~~~N~~~~~v~NGdiG~I 612 (720)
T TIGR01448 533 VGMARVGGIPGADIQVLAPMYKGPLGIDALNQHLQALLNPYQKGQGGIEIAEGEYRKGDRVMQTKNDYNNEIFNGDLGMI 612 (720)
T ss_pred HHHHHhcCCChhHeeEeCccccCccCHHHHHHHHHHHhCccCCCCceeecCCceecCCCEEEEeeecchhccccCCeeEE
Confidence 2 23445556777776532 1233333332110
Q ss_pred -----------------------chhhhcCCCeE---EecccCcccCccCeEEEeccccCCcCCcCCCCCcCceeeechh
Q 001054 734 -----------------------ALRQQLYKEIE---VASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTR 787 (1171)
Q Consensus 734 -----------------------~l~~~~~~~V~---V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL~D~RRLNVALTR 787 (1171)
.+.......++ ..|||++||+|||.||+.+..+.. .+.+++++||||||
T Consensus 613 ~~i~~~~~~~~~~i~v~f~g~~v~~~~~~~~~l~lAYAiTvHKsQGSe~~~Vii~l~~~~~-----~~l~r~llYTAiTR 687 (720)
T TIGR01448 613 VKIEGAKQGKKDQVVVDFDGNEVELTRAELFNLTLAYATSIHKSQGSEFPTVILPIHTAHM-----RMLYRNLLYTALTR 687 (720)
T ss_pred EeccccccCCCceEEEEECCeEEEEcHHHhhhhhhhheeeehhccCccCCEEEEECCcccc-----hhhhhchheeeeee
Confidence 00000001111 359999999999999998766542 37789999999999
Q ss_pred hccceEEEecccccc
Q 001054 788 ARYGIVILGNPKVLS 802 (1171)
Q Consensus 788 AK~~LIIVGn~~~Ls 802 (1171)
||+.|+|||+.+.+.
T Consensus 688 Ak~~l~lvg~~~a~~ 702 (720)
T TIGR01448 688 AKKRVILVGSAEAFD 702 (720)
T ss_pred eceEEEEEECHHHHH
Confidence 999999999987653
No 20
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.94 E-value=1.1e-27 Score=287.99 Aligned_cols=417 Identities=30% Similarity=0.396 Sum_probs=289.4
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCe---EEEec
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK---VVRLC 465 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~glk---VVRlg 465 (1171)
..|+.|.+||.+-...+++.+.||||||||.+++.++..+... +..+.|+++.||.|...+-+++.+..++ +.|++
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 3588999999999999999999999999999999999888766 5568999999999999999999875432 34444
Q ss_pred ccccccc-CC-----------cchhhhHHHHHhhccchh------------------H-------HHHHHHHh-------
Q 001054 466 AKSREAV-SS-----------PVEHLTLHYQVRHLDTSE------------------K-------SELHKLQQ------- 501 (1171)
Q Consensus 466 ~~sre~i-~~-----------~v~~l~L~~~i~~l~~~~------------------~-------~~L~kL~~------- 501 (1171)
+...+.- +. ....+.+.+.++++..+. . +-+.++.+
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 001111222222211100 0 00111110
Q ss_pred ------------hhhhhccC-C--------chHHHHHHHHHHHH---H----------------HHHHhccccccccccc
Q 001054 502 ------------LKDEQGEL-S--------SSDEKKYKALKRAT---E----------------REISQSADVICCTCVG 541 (1171)
Q Consensus 502 ------------lk~e~~el-s--------~~dek~y~~l~r~~---e----------------~~iL~~a~VI~~T~~~ 541 (1171)
+.+..... . ...++.|+.+.... + -.+.+.+++|.+||+.
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 00112233222111 1 1134788999999998
Q ss_pred cCCCC----cccCCCCEEEEEcCCCCCccccccccccc--------CceEEEeCCccCCCceeecHH-HHhhcchHHHHH
Q 001054 542 AGDPR----LANFRFRQVLIDESTQATEPECLIPLVLG--------AKQVVLVGDHCQLGPVIMCKK-AARAGLAQSLFE 608 (1171)
Q Consensus 542 a~~~~----L~~~kFD~VIIDEASQasEpe~LIpL~~~--------~kkLILVGD~~QLpPvv~s~~-a~~~gl~~SLFE 608 (1171)
+...+ -..++||-+++.|++|+.|.+..+++++. -+++|++|||.|+||++.... .......+|+|.
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 87544 23468999999999999999999998752 368999999999999995533 344566789999
Q ss_pred HHHHcCCccEEeeeeccCCCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEc---CCceeecccCCc
Q 001054 609 RLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQ---MGQEEISASGTS 685 (1171)
Q Consensus 609 RL~~~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~---~G~ee~~~~g~S 685 (1171)
|+...+++.+.|+.|+|..+.|+.+.+..+-.-..-.++....+... .......+..|+++ .|..+......-
T Consensus 1058 r~vRl~ip~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f~~----aNagf~~~~qlinv~Df~g~gEt~p~p~f 1133 (1320)
T KOG1806|consen 1058 RLVRLGVPIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPRFQY----ANAGFAYEFQFINVPDFKGSGETEPSPGF 1133 (1320)
T ss_pred cceecccceecchhhhhHHHHHHHHHHhhhcccccCcCCccchhhhc----cccCceeeEEEecchhhccccccCCCccc
Confidence 99999999999999999999999998776433222222222111100 00001123444433 455555556667
Q ss_pred ccCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCccCeEEEeccc
Q 001054 686 YLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVR 765 (1171)
Q Consensus 686 ~~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~DvVILS~VR 765 (1171)
+.|..||+.++.+...+...|++.+.|-|+|.|++|+.+|++.+.+......-....-.|.|||++||...|+||+|+|+
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 88999999999999999999999999999999999999999999876554444455678999999999999999999999
Q ss_pred cCCcCCcCCCCCcCceeeechhhccceEEEeccccccc----CchHHHHHHH
Q 001054 766 SNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK----QPLWNGLLTH 813 (1171)
Q Consensus 766 Sn~~~~iGFL~D~RRLNVALTRAK~~LIIVGn~~~Ls~----~~~W~~Ll~~ 813 (1171)
+. .+|.+.|.|||+||++|||.+|+|++....+++ .+.|+.|.+.
T Consensus 1214 tr---~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~ 1262 (1320)
T KOG1806|consen 1214 TR---EVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKR 1262 (1320)
T ss_pred hh---hhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhC
Confidence 86 468899999999999999999999998776654 4556555443
No 21
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.94 E-value=3.2e-26 Score=284.75 Aligned_cols=242 Identities=19% Similarity=0.160 Sum_probs=130.4
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-CC---eEE
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GL---KVV 462 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~-gl---kVV 462 (1171)
.||++|++||... .+..+|.|+||||||+|++.+|.+|++. .+.+||++||||+|+.+|.+||.+. +. .-+
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 6778999999999999999999999964 4568999999999999999999753 11 111
Q ss_pred Eeccccc---c---------ccCCcchhh-------hHHHHHhhccchhHHHHHHHHhhhhhh--ccCCchH--------
Q 001054 463 RLCAKSR---E---------AVSSPVEHL-------TLHYQVRHLDTSEKSELHKLQQLKDEQ--GELSSSD-------- 513 (1171)
Q Consensus 463 Rlg~~sr---e---------~i~~~v~~l-------~L~~~i~~l~~~~~~~L~kL~~lk~e~--~els~~d-------- 513 (1171)
.++...+ . .+......+ -+...+..........+.++..+..+. ..++..+
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 1111000 0 000000000 000000000000000011111100000 0011000
Q ss_pred -H----HHHHHHHHHHH-HHHHhccccccccccccC-CCCcc---cCCCCEEEEEcCCCCCcccc--cccccccCceEEE
Q 001054 514 -E----KKYKALKRATE-REISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVL 581 (1171)
Q Consensus 514 -e----k~y~~l~r~~e-~~iL~~a~VI~~T~~~a~-~~~L~---~~kFD~VIIDEASQasEpe~--LIpL~~~~kkLIL 581 (1171)
. ..|........ ...++..+++........ .+.+. ..+|++|+|||+||++..+. +-.+.....++++
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 01111111111 112333333333222211 12222 23799999999999998764 2222223468999
Q ss_pred eCCccCCCceeecHHHHhhcchHHHHHHHHHc--CCccEEeeeeccCCCCCCccccccccc
Q 001054 582 VGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYE 640 (1171)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~--g~~~i~L~~qYRmhp~I~~f~S~lFY~ 640 (1171)
|||++|...-+++. ....|.++... +...+.|.+|||++++|+++++.+|-.
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 99999965544322 22333333321 345678999999999999999987643
No 22
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.91 E-value=5.7e-24 Score=264.28 Aligned_cols=312 Identities=19% Similarity=0.163 Sum_probs=176.5
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcCCe-E---E
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGLK-V---V 462 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~glk-V---V 462 (1171)
.||++|++||... .+..+|.++||||||+|++.+|.+|+.. .+.+||++|+||+||.+|++|+.+.... . +
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 7888999999999999999999999987 3458999999999999999999875321 0 1
Q ss_pred Eecc---ccc-------cc--cCCcchhh---hHHHHHhhc-------cchh--HHHHH-HHHhhhhhhc---cCC----
Q 001054 463 RLCA---KSR-------EA--VSSPVEHL---TLHYQVRHL-------DTSE--KSELH-KLQQLKDEQG---ELS---- 510 (1171)
Q Consensus 463 Rlg~---~sr-------e~--i~~~v~~l---~L~~~i~~l-------~~~~--~~~L~-kL~~lk~e~~---els---- 510 (1171)
.++. ..- .. .......+ .....++.+ +... ...+. .+...+.... ...
T Consensus 80 ~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (655)
T COG0210 80 TVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASALLL 159 (655)
T ss_pred EEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhhhhh
Confidence 1111 000 00 00000000 000011100 0000 00000 0000010000 000
Q ss_pred ----chHHH----HHHHHHHHHH-HHHHhccccccccccccCC-CC-cc--cCCCCEEEEEcCCCCCcccc-ccccc-cc
Q 001054 511 ----SSDEK----KYKALKRATE-REISQSADVICCTCVGAGD-PR-LA--NFRFRQVLIDESTQATEPEC-LIPLV-LG 575 (1171)
Q Consensus 511 ----~~dek----~y~~l~r~~e-~~iL~~a~VI~~T~~~a~~-~~-L~--~~kFD~VIIDEASQasEpe~-LIpL~-~~ 575 (1171)
....+ .|....+... ...++..+.+.-++..... +. +. ..+|++|+|||+||++..+. |+.+. ..
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 1123333344333332221 11 11 34899999999999998664 22222 23
Q ss_pred CceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC--CccEEeeeeccCCCCCCcccccccccCcccccccccccc
Q 001054 576 AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ 653 (1171)
Q Consensus 576 ~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g--~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~ 653 (1171)
...+++|||++|....+++.. ...+..+.... .+.+.|..|||+.+.|+.++|.++-.++-. .
T Consensus 240 ~~~l~~VGD~dQsIY~frGA~-------~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r--------~ 304 (655)
T COG0210 240 AANLFVVGDDDQSIYGFRGAD-------PENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKR--------Q 304 (655)
T ss_pred CCCEEEEcCCccccceeCCCC-------hHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCcc--------C
Confidence 468999999999766655432 33333333322 467899999999999999999887522111 0
Q ss_pred cCCCCCC-CCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHcC-CCCCcEEEEecchhHHHHHHHHHHh
Q 001054 654 SSGIDFP-WPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYMSR 731 (1171)
Q Consensus 654 l~~~~~~-~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~G-v~~~dIGIITPY~aQv~~I~~~L~~ 731 (1171)
.+.+... ......+.+ ........||..|...+..+...+ ...+||+|+...+.|...+...+.+
T Consensus 305 ~k~l~~~~~~~~~~~~~-------------~~~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s~~~e~~l~~ 371 (655)
T COG0210 305 AKTLRTEVEGSGEKVVL-------------LLANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQSRLIEEALRA 371 (655)
T ss_pred CCcceeccCCCCCCceE-------------EeCCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcchHHHHHHHHH
Confidence 0000000 000111111 123345679999999999999988 8899999999988887777766543
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=99.91 E-value=1.2e-23 Score=263.12 Aligned_cols=155 Identities=24% Similarity=0.219 Sum_probs=108.9
Q ss_pred CCCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001054 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~ 467 (1171)
..||+.|++||..++. .++++|+|+|||||||++..++..+...+ .+|++||||++|+..|.+... +..
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 58999999999999999998877665555 499999999999999987432 111
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCc
Q 001054 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1171)
Q Consensus 468 sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1171)
.+++..+..+.. . ..
T Consensus 421 -----------~Ti~~~~~~~~~----------------------------------------------------~--~~ 435 (744)
T TIGR02768 421 -----------RTLASLEYAWAN----------------------------------------------------G--RD 435 (744)
T ss_pred -----------eeHHHHHhhhcc----------------------------------------------------C--cc
Confidence 111111000000 0 00
Q ss_pred ccCCCCEEEEEcCCCCCcccc--ccccc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCccEEeeeec
Q 001054 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1171)
Q Consensus 548 ~~~kFD~VIIDEASQasEpe~--LIpL~-~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qY 624 (1171)
.....++||||||+|++...+ |+... ....+||||||++|||||..+ ..|..|.. ....+.|+..|
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 34544443 35678999999
Q ss_pred cCCCC
Q 001054 625 RMHPS 629 (1171)
Q Consensus 625 Rmhp~ 629 (1171)
|....
T Consensus 505 RQ~~~ 509 (744)
T TIGR02768 505 RQREA 509 (744)
T ss_pred ecCCH
Confidence 98654
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=5.6e-23 Score=266.73 Aligned_cols=173 Identities=16% Similarity=0.139 Sum_probs=99.6
Q ss_pred CCCCEEEEEcCCCCCcccccc--cccccCc--eEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCccEEeeeecc
Q 001054 550 FRFRQVLIDESTQATEPECLI--PLVLGAK--QVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYR 625 (1171)
Q Consensus 550 ~kFD~VIIDEASQasEpe~LI--pL~~~~k--kLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qYR 625 (1171)
.+|++|+|||+||++..+.-| .+..... .+++|||++|.++-+++.. ...|-++.......+.|.+|||
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQSIY~FRGAD-------~~~~~~~~~~~~~~~~L~~NyR 367 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQAIYSFRGAD-------IFTYLQAKSKADARYTLGTNWR 367 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCccccccCCCCC-------HHHHHHHHHhcCcEEECCCCCC
Confidence 389999999999999977422 2222222 7999999999776665432 2333333322225689999999
Q ss_pred CCCCCCcccccccccCccccc-----cccccccc-CCCCCCCC-CCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHH
Q 001054 626 MHPSLSEFPSNSFYEGTLQNG-----VTINERQS-SGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKI 698 (1171)
Q Consensus 626 mhp~I~~f~S~lFY~g~L~~~-----~~~~~r~l-~~~~~~~p-~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~i 698 (1171)
+++.|++++|.+|-...-... ..+..... ........ ....++.++....... . ....-..+|..+...
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~-~---~~~~~~~~a~~~a~~ 443 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE-G---VDDYRQTIAQKCARE 443 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc-c---cchHHHHHHHHHHHH
Confidence 999999999999854211100 00000000 00000000 1112444443322110 0 011122445566666
Q ss_pred HHHHHH---------------cCCCCCcEEEEecchhHHHHHHHHHHhcc
Q 001054 699 VTTFLR---------------SGVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1171)
Q Consensus 699 V~~Llk---------------~Gv~~~dIGIITPY~aQv~~I~~~L~~~g 733 (1171)
|.+++. .++.++||+||++.+.+...|++.|.+.+
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 666653 24678999999999888888888776654
No 25
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.89 E-value=1.5e-22 Score=256.95 Aligned_cols=169 Identities=22% Similarity=0.255 Sum_probs=114.7
Q ss_pred CCCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001054 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~ 467 (1171)
..||++|++||..++. +++++|+|+|||||||++..++..+...+ .+|+.+|||++||..|.+.. |+..
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 78999999999999999998877665555 49999999999999997643 2211
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCc
Q 001054 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1171)
Q Consensus 468 sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1171)
.+++..+..+.. +...+
T Consensus 450 -----------~TIas~ll~~~~----------------------------------------------------~~~~l 466 (1102)
T PRK13826 450 -----------RTLSSWELRWNQ----------------------------------------------------GRDQL 466 (1102)
T ss_pred -----------eeHHHHHhhhcc----------------------------------------------------CccCC
Confidence 111111000000 00001
Q ss_pred ccCCCCEEEEEcCCCCCcccc--ccccc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCccEEeeeec
Q 001054 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1171)
Q Consensus 548 ~~~kFD~VIIDEASQasEpe~--LIpL~-~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qY 624 (1171)
..-++||||||+|+....+ |+... ....+||||||+.||+||-.+ ..|..|.. ....+.|++.|
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 1357999999999988543 33333 245799999999999999643 34555553 45678999999
Q ss_pred cCCCCCCcccccccccCcc
Q 001054 625 RMHPSLSEFPSNSFYEGTL 643 (1171)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L 643 (1171)
|...+-..-++..+..|..
T Consensus 534 RQ~~~~~r~Aa~~i~~G~~ 552 (1102)
T PRK13826 534 RQREQWMRDASLDLARGNV 552 (1102)
T ss_pred ecCChHHHHHHHHHHcCCc
Confidence 9876533333444445443
No 26
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=99.89 E-value=8.8e-23 Score=267.64 Aligned_cols=64 Identities=22% Similarity=0.281 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHh
Q 001054 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 391 LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~--~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+|++|++||..- ....||.|+||||||+|+++++..++..+ ..+|||+||||+||.+|++||.+
T Consensus 2 ~t~~Q~~ai~~~--~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~ 67 (1232)
T TIGR02785 2 WTDEQWQAIYTR--GQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEE 67 (1232)
T ss_pred CCHHHHHHHhCC--CCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHH
Confidence 689999999843 56789999999999999999998777653 24799999999999999999865
No 27
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.89 E-value=2.3e-22 Score=254.35 Aligned_cols=169 Identities=21% Similarity=0.207 Sum_probs=112.4
Q ss_pred CCCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001054 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~ 467 (1171)
..||++|++||..++. .++++|+|+|||||||++..++..+...+ .+|++||||++||.+|.+.. |+.
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 4699999999999987 57999999999999999876655544444 59999999999999887621 110
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCc
Q 001054 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1171)
Q Consensus 468 sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1171)
-.+++ ++..- +. . + ..
T Consensus 414 ----------a~TI~---------------sll~~--------------~~-----------~------------~--~~ 429 (988)
T PRK13889 414 ----------SRTIA---------------SLEHG--------------WG-----------Q------------G--RD 429 (988)
T ss_pred ----------hhhHH---------------HHHhh--------------hc-----------c------------c--cc
Confidence 11122 11100 00 0 0 00
Q ss_pred ccCCCCEEEEEcCCCCCcccc--ccccc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCccEEeeeec
Q 001054 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1171)
Q Consensus 548 ~~~kFD~VIIDEASQasEpe~--LIpL~-~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qY 624 (1171)
.....++||||||+|+....+ |+... ....+||||||++||+||-.+ ..|..|.. ....+.|++.+
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 33222 345799999999999999532 34554443 34568999999
Q ss_pred cCCCCCCcccccccccCcc
Q 001054 625 RMHPSLSEFPSNSFYEGTL 643 (1171)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L 643 (1171)
|.......-+...+..|+.
T Consensus 499 RQ~~~~~r~aa~~i~~G~~ 517 (988)
T PRK13889 499 RQREDWQRDATRDLATGRT 517 (988)
T ss_pred cCCCHHHHHHHHHHHcCCc
Confidence 9976544334444455543
No 28
>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=263.66 Aligned_cols=173 Identities=18% Similarity=0.197 Sum_probs=107.9
Q ss_pred CCCCEEEEEcCCCCCcccc--ccccccc----CceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHH--cCCccEEee
Q 001054 550 FRFRQVLIDESTQATEPEC--LIPLVLG----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL--LGLKPIRLQ 621 (1171)
Q Consensus 550 ~kFD~VIIDEASQasEpe~--LIpL~~~----~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~--~g~~~i~L~ 621 (1171)
.+|++|+|||+||++..+. +-.+... ...++||||+||.++-+++ -+..+|..... .....+.|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQSIY~FRg-------AD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQSIYRFRG-------ADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchHHhhhhcC-------CChHHHHHHhhccccCceeecc
Confidence 3799999999999998764 2223222 2489999999997665543 34566666665 456678999
Q ss_pred eeccCCCCCCcccccccccC------cccccccccc--c-ccCCCCCCCCCCCCCeEE-EEcCC--ceeecccCCcccCH
Q 001054 622 VQYRMHPSLSEFPSNSFYEG------TLQNGVTINE--R-QSSGIDFPWPVPNRPMFF-YVQMG--QEEISASGTSYLNR 689 (1171)
Q Consensus 622 ~qYRmhp~I~~f~S~lFY~g------~L~~~~~~~~--r-~l~~~~~~~p~~~~Pvif-~~~~G--~ee~~~~g~S~~N~ 689 (1171)
+|||+.++|+++.|.+|-.- .......... + ........|+ .|... +.... ..+...........
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 12111 11110 00101001134455
Q ss_pred HHHHHHHHHHHHHHH--------cCCCCCcEEEEecchhHHHHHHHHHHhc
Q 001054 690 TEAANVEKIVTTFLR--------SGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1171)
Q Consensus 690 ~EA~~V~~iV~~Llk--------~Gv~~~dIGIITPY~aQv~~I~~~L~~~ 732 (1171)
.+|..|...++.+.. ..+.++||+||++-+.+...|++.|++.
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 677778888888774 4588999999999999999999988877
No 29
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.87 E-value=1.6e-21 Score=249.64 Aligned_cols=156 Identities=17% Similarity=0.185 Sum_probs=102.2
Q ss_pred CCCCEEEEEcCCCCCcccc--cccccc----c-----CceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc-CCcc
Q 001054 550 FRFRQVLIDESTQATEPEC--LIPLVL----G-----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKP 617 (1171)
Q Consensus 550 ~kFD~VIIDEASQasEpe~--LIpL~~----~-----~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~-g~~~ 617 (1171)
.+|++|+|||+||++..+. +.+|.. + .+.+++|||++|..+-+++ -...+|.++... ....
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQSIY~FRG-------A~~~~f~~~~~~~~~~~ 399 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQSIYRFRG-------GKKELFDKVSKDFKQKV 399 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhhhhhhcC-------CChHHHHHHHHHhhhhh
Confidence 4799999999999999763 333321 1 3579999999996554432 234566665432 1245
Q ss_pred EEeeeeccCCCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHH
Q 001054 618 IRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEK 697 (1171)
Q Consensus 618 i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~ 697 (1171)
+.|.+|||+++.|++++|.+|-...-. .... .. ........+.++... .....++..|++
T Consensus 400 ~~L~~NyRS~~~Iv~~~N~~f~~~~~~--~~~~------~~-~~~~~~g~v~i~~~~-----------~~~~~~a~~ia~ 459 (910)
T PRK13909 400 DNLDTNYRSAPLIVDFVNEVFKKKYKN--YKTQ------YA-EQHKSGGYVEVVEVA-----------DESEELLEQLLQ 459 (910)
T ss_pred cccccCCCCChHHHHHHHHHHHHHHHh--hhhh------hc-ccccCCCcEEEEECC-----------CccHHHHHHHHH
Confidence 789999999999999999998541100 0000 00 000011112222110 112346788899
Q ss_pred HHHHHHHcCCCCCcEEEEecchhHHHHHHHHHHhc
Q 001054 698 IVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1171)
Q Consensus 698 iV~~Llk~Gv~~~dIGIITPY~aQv~~I~~~L~~~ 732 (1171)
.|..++..|+..+||+||++.+.+...|.+.|.+.
T Consensus 460 ~I~~l~~~g~~~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 460 EIQFLLEKGIDPDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHHHcCCCcCCEEEEEecCccHHHHHHHHHhc
Confidence 99999999999999999999998888888877776
No 30
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.85 E-value=3.5e-21 Score=250.81 Aligned_cols=173 Identities=15% Similarity=0.180 Sum_probs=100.8
Q ss_pred CCCCEEEEEcCCCCCcccc--cccccc--cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCccEEeeeecc
Q 001054 550 FRFRQVLIDESTQATEPEC--LIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYR 625 (1171)
Q Consensus 550 ~kFD~VIIDEASQasEpe~--LIpL~~--~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qYR 625 (1171)
.+|++|+|||+||++..+. +..+.. ....+++|||++|.++-+++... ..|-.........+.|.+|||
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQsIY~FRGAd~-------~~~l~~~~~~~~~~~L~~NyR 448 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQAIYAFRGADI-------FTYMKARSEVSAHYTLDTNWR 448 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCccccccCCCCCc-------hHHHHHHhccCCeeECCCCcC
Confidence 3899999999999999764 223322 13479999999997666544321 111111112234579999999
Q ss_pred CCCCCCcccccccccCccc---cccc---ccc-cccCCCCCCCC-CCCCCeEEEEcCCceeecccCCcccCHHHHHHHHH
Q 001054 626 MHPSLSEFPSNSFYEGTLQ---NGVT---INE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEK 697 (1171)
Q Consensus 626 mhp~I~~f~S~lFY~g~L~---~~~~---~~~-r~l~~~~~~~p-~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~ 697 (1171)
+++.|++++|.+|....-. .... +.. .......+... ....++.++...+... ........||..|..
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 0112233333322111 111233557888888
Q ss_pred HHHHHHHc---------------CCCCCcEEEEecchhHHHHHHHHHHhcc
Q 001054 698 IVTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1171)
Q Consensus 698 iV~~Llk~---------------Gv~~~dIGIITPY~aQv~~I~~~L~~~g 733 (1171)
.|.+++.. ++.++||+||++.+.|...|++.|.+.+
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 88887753 3678899999999988888887776544
No 31
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=99.84 E-value=6.9e-20 Score=240.11 Aligned_cols=162 Identities=14% Similarity=0.170 Sum_probs=93.1
Q ss_pred CCCCEEEEEcCCCCCcccc--ccccccc-----------CceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHH----
Q 001054 550 FRFRQVLIDESTQATEPEC--LIPLVLG-----------AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL---- 612 (1171)
Q Consensus 550 ~kFD~VIIDEASQasEpe~--LIpL~~~-----------~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~---- 612 (1171)
.+|++|+|||+||++..+. +.+|... .+.+++|||++|.++-+++.. ..+|.++..
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQSIY~FRGAd-------~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQSIYSFQGAD-------PDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcccCccccCCC-------HHHHHHHHHHHHH
Confidence 4899999999999999764 3333321 357999999999777765433 333333221
Q ss_pred ----c--CCccEEeeeeccCCCCCCcccccccccCccccccccc--ccccCCCCCCCCCCCCCeEEEEcCCce---eec-
Q 001054 613 ----L--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTIN--ERQSSGIDFPWPVPNRPMFFYVQMGQE---EIS- 680 (1171)
Q Consensus 613 ----~--g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~--~r~l~~~~~~~p~~~~Pvif~~~~G~e---e~~- 680 (1171)
. ....+.|++|||+++.|+++.|.+|-........... ........ ......+.++.....+ +..
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 0000112222111000 000
Q ss_pred ------ccCCcccCHHHHHHHHHHHHHHHHcC----------CCCCcEEEEecchhH
Q 001054 681 ------ASGTSYLNRTEAANVEKIVTTFLRSG----------VVPSQIGVITPYEGQ 721 (1171)
Q Consensus 681 ------~~g~S~~N~~EA~~V~~iV~~Llk~G----------v~~~dIGIITPY~aQ 721 (1171)
..........||..|.+.|..++..| +.++||+||++.+.+
T Consensus 540 ~~~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~ 596 (1141)
T TIGR02784 540 WTAPVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDA 596 (1141)
T ss_pred cccccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCch
Confidence 00000111247899999999998776 578999999987765
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=2.3e-19 Score=191.49 Aligned_cols=174 Identities=28% Similarity=0.347 Sum_probs=109.9
Q ss_pred CCCHHHHHHHHHhhcC--CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001054 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~ 467 (1171)
.||++|++||..++.+ ++++|+|+||||||+++..++..+...+ .+|+++||||+|+++|.+++. ++..
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT~~Aa~~L~~~~~---~~a~----- 71 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPTNKAAKELREKTG---IEAQ----- 71 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHHT---S-EE-----
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCcHHHHHHHHHhhC---cchh-----
Confidence 4899999999999864 5899999999999999999887777765 699999999999999999853 1111
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCc
Q 001054 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1171)
Q Consensus 468 sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L 547 (1171)
+++..+..... .. . ....
T Consensus 72 ------------Ti~~~l~~~~~---------------~~-~----------------------------------~~~~ 89 (196)
T PF13604_consen 72 ------------TIHSFLYRIPN---------------GD-D----------------------------------EGRP 89 (196)
T ss_dssp ------------EHHHHTTEECC---------------EE-C----------------------------------CSSC
T ss_pred ------------hHHHHHhcCCc---------------cc-c----------------------------------cccc
Confidence 12222111111 00 0 0000
Q ss_pred ccCCCCEEEEEcCCCCCcccc--cccccc-cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCccEEeeeec
Q 001054 548 ANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1171)
Q Consensus 548 ~~~kFD~VIIDEASQasEpe~--LIpL~~-~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qY 624 (1171)
...+.++||||||+|++...+ ++.+.. ...++|||||++||+|+.. .+.|..+.......+.|++.+
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 022578999999999997553 233222 2568999999999999953 356666666555589999999
Q ss_pred cCCCCCCcccccccccCccc
Q 001054 625 RMHPSLSEFPSNSFYEGTLQ 644 (1171)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L~ 644 (1171)
|....-..-+...+.+|...
T Consensus 160 Rq~~~~~~~~~~~~~~g~~~ 179 (196)
T PF13604_consen 160 RQKDPELREAAKAIREGDAE 179 (196)
T ss_dssp CCCCTHHHHHHHHHCTT---
T ss_pred cCCChHHHHHHHHHHcCCCc
Confidence 99744444445555555443
No 33
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.78 E-value=3e-18 Score=225.85 Aligned_cols=173 Identities=20% Similarity=0.264 Sum_probs=117.2
Q ss_pred CCCCHHHHHHHHHhhc--CCcEEEEcCCCChHhHHHHHHHHHHHH---cCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001054 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAK---QGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Llk---~~~~rILV~ApSN~AVD~L~eRL~~~glkVVR 463 (1171)
..||+.|++||..++. ..+++|+|+|||||||++..++..+.. ....+|+.||||++||.+|.+ .|++
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 233479999999999998875 2321
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccC
Q 001054 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1171)
Q Consensus 464 lg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~ 543 (1171)
-.+++..+..... . ..
T Consensus 1039 --------------A~TI~s~L~~~~~------------~--------------------------------------~~ 1054 (1747)
T PRK13709 1039 --------------AQTLASFLHDTQL------------Q--------------------------------------QR 1054 (1747)
T ss_pred --------------hhhHHHHhccccc------------c--------------------------------------cc
Confidence 1222222111000 0 00
Q ss_pred CCCcccCCCCEEEEEcCCCCCcccc--cccccc-cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc-CCccEE
Q 001054 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (1171)
Q Consensus 544 ~~~L~~~kFD~VIIDEASQasEpe~--LIpL~~-~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~-g~~~i~ 619 (1171)
.........++||||||+|++...+ |+-++. ...++|||||.+||+||-. ...|..|+.. +.+...
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 0000112468999999999987443 333332 3579999999999999952 3677777764 577899
Q ss_pred eeeeccCCCCCCcccccccccCcc
Q 001054 620 LQVQYRMHPSLSEFPSNSFYEGTL 643 (1171)
Q Consensus 620 L~~qYRmhp~I~~f~S~lFY~g~L 643 (1171)
|++.+|....+ .-+...+.+|..
T Consensus 1125 L~eI~RQ~~~l-r~Av~~~~~g~~ 1147 (1747)
T PRK13709 1125 MKEIVRQTPEL-REAVYSLINRDV 1147 (1747)
T ss_pred eCeEEcCcHHH-HHHHHHHHccCH
Confidence 99999998733 333344455443
No 34
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.77 E-value=4.3e-18 Score=221.75 Aligned_cols=166 Identities=22% Similarity=0.296 Sum_probs=115.9
Q ss_pred CCCCHHHHHHHHHhhc--CCcEEEEcCCCChHhHHHHHHHHHHH---HcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001054 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA---KQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Ll---k~~~~rILV~ApSN~AVD~L~eRL~~~glkVVR 463 (1171)
..||+.|++||..+|. .++++|+|+|||||||++..++..+. +....+|+.+|||++||.+|.+. |++
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 001054 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1171)
Q Consensus 464 lg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~ 543 (1171)
-.+++..+..... +. ...
T Consensus 907 --------------A~TIasfL~~~~~--------------------------~~----------------------~~~ 924 (1623)
T PRK14712 907 --------------AQTLASFLHDTQL--------------------------QQ----------------------RSG 924 (1623)
T ss_pred --------------HhhHHHHhccccc--------------------------hh----------------------hcc
Confidence 1222222111000 00 000
Q ss_pred CCCcccCCCCEEEEEcCCCCCcccc--cccccc-cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHc-CCccEE
Q 001054 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (1171)
Q Consensus 544 ~~~L~~~kFD~VIIDEASQasEpe~--LIpL~~-~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~-g~~~i~ 619 (1171)
.....+.++||||||+|+....+ ++.++. ...+||||||++||+||- ..+.|+.|+.. +.+...
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 00112468999999999988443 333333 357999999999999995 34678888876 578899
Q ss_pred eeeeccCCCCCCcccc
Q 001054 620 LQVQYRMHPSLSEFPS 635 (1171)
Q Consensus 620 L~~qYRmhp~I~~f~S 635 (1171)
|++.+|..+++...+.
T Consensus 993 L~eI~RQ~~elr~AV~ 1008 (1623)
T PRK14712 993 MKEIVRQTPELREAVY 1008 (1623)
T ss_pred eCeeecCCHHHHHHHH
Confidence 9999999877665543
No 35
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.71 E-value=5.1e-17 Score=190.32 Aligned_cols=208 Identities=21% Similarity=0.227 Sum_probs=138.4
Q ss_pred CCCCEEEEEcCCCCCcccccccc-cccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHH---HHc-CCccEEeeeec
Q 001054 550 FRFRQVLIDESTQATEPECLIPL-VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERL---VLL-GLKPIRLQVQY 624 (1171)
Q Consensus 550 ~kFD~VIIDEASQasEpe~LIpL-~~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL---~~~-g~~~i~L~~qY 624 (1171)
.++.++||||||+.+..+....- +..+..+-+|||-.|...--.. ..+.++|. +.. ....+.|..+|
T Consensus 527 ~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~i~~~~~--------e~~~~e~~~~~fed~~~e~v~l~~sy 598 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQVIYDEAQ--------ELSPMERMDVFFEDPSFEYVGLIASY 598 (747)
T ss_pred ccccceeechhhhcchhhhHHHhhhhhhccceEeccCCceehhhhc--------ccCHHHHHHHHHhCCCchhhhhhhhh
Confidence 46899999999999986632111 1245788999999994222110 11222222 222 24457899999
Q ss_pred cCCCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHH
Q 001054 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (1171)
Q Consensus 625 Rmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk 704 (1171)
|++.+|.+|++.+.-+ ...... ...+..+|... .+-.|..-.+.+..++.+|.+
T Consensus 599 rSt~eI~efan~~l~d-----~~~~~p--------~~rsge~p~~i-------------~~~~ne~l~qr~~~ii~~mkk 652 (747)
T COG3973 599 RSTAEIDEFANSLLPD-----RFRIHP--------LTRSGEKPAVI-------------MSVANEELVQRNPDIIPRMKK 652 (747)
T ss_pred cChHHHHHHHHHhccC-----CCccch--------hhcCCCCceee-------------eccchHHHHHhhHHHHHHHHh
Confidence 9999999999888532 000000 00112233222 234455566777778888877
Q ss_pred cCCCCCcEEEEecchhHHHHHHHHHHhccchh------hhcCCCeEEecccCcccCccCeEEEeccccCCcCCcCCCCCc
Q 001054 705 SGVVPSQIGVITPYEGQRAYIVNYMSRNGALR------QQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDP 778 (1171)
Q Consensus 705 ~Gv~~~dIGIITPY~aQv~~I~~~L~~~g~l~------~~~~~~V~V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL~D~ 778 (1171)
.|. +.|+||++...++..+...|+....++ ........|.-|+-.||.|||.||+......+. -..+.
T Consensus 653 ~~~--etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s~~e~----te~~~ 726 (747)
T COG3973 653 RGS--ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPSIVEE----TEQDL 726 (747)
T ss_pred cCC--CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecchhhcc----cccch
Confidence 654 789999999999999999987654332 223446789999999999999999865531111 13568
Q ss_pred CceeeechhhccceEEEec
Q 001054 779 RRLNVALTRARYGIVILGN 797 (1171)
Q Consensus 779 RRLNVALTRAK~~LIIVGn 797 (1171)
|.||||+|||-+.|+|+|.
T Consensus 727 r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 727 RDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred hhHHHHHHHHHHHHHHhhc
Confidence 9999999999999999874
No 36
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=99.69 E-value=1.8e-16 Score=214.38 Aligned_cols=171 Identities=22% Similarity=0.266 Sum_probs=112.6
Q ss_pred CCCCHHHHHHHHHhhc--CCcEEEEcCCCChHhHHHHHHHH---HHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001054 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVY---HMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~---~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVR 463 (1171)
..||+.|++||..++. ..+++|+|+|||||||++..++. .+.+....+|+.+|||++||.+|.+ .|++
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 47899999999999999965443 3344445589999999999999965 2321
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccC
Q 001054 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1171)
Q Consensus 464 lg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~ 543 (1171)
-.+++..+..+.. +
T Consensus 1091 --------------a~Ti~s~l~~~~~--------------------------~-------------------------- 1104 (1960)
T TIGR02760 1091 --------------AQTLDSFLTDISL--------------------------Y-------------------------- 1104 (1960)
T ss_pred --------------hHhHHHHhcCccc--------------------------c--------------------------
Confidence 1122211110000 0
Q ss_pred CCCcccCCCCEEEEEcCCCCCcccc--ccccc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcC-CccEE
Q 001054 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIR 619 (1171)
Q Consensus 544 ~~~L~~~kFD~VIIDEASQasEpe~--LIpL~-~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g-~~~i~ 619 (1171)
...-...+.++||||||+|+...++ |+-+. ....++|||||++||+||-.+ ..|+-++..+ .+.+.
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 0000012568999999999998543 33332 345799999999999998422 4566565544 77889
Q ss_pred eeeeccCC-CCCCcccccccccCc
Q 001054 620 LQVQYRMH-PSLSEFPSNSFYEGT 642 (1171)
Q Consensus 620 L~~qYRmh-p~I~~f~S~lFY~g~ 642 (1171)
|++.+|.. ...+.-+...+-++.
T Consensus 1175 L~~I~RQ~~~~~l~~a~~~~~~~~ 1198 (1960)
T TIGR02760 1175 MKEIVRQNNSAELKAAHNSLDKRS 1198 (1960)
T ss_pred eeeEecCCCCHHHHHHHHHHhcCc
Confidence 99999994 333333344444444
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=7.4e-17 Score=174.74 Aligned_cols=168 Identities=21% Similarity=0.217 Sum_probs=95.0
Q ss_pred CCCEEEEEcCCCCCcccccc-cccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCccEEeeeeccCCCC
Q 001054 551 RFRQVLIDESTQATEPECLI-PLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPS 629 (1171)
Q Consensus 551 kFD~VIIDEASQasEpe~LI-pL~~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~qYRmhp~ 629 (1171)
.+++|||||+++...-+.+. ......+.++++||+.|.+..-+..... +............+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFL--------LPHFISDISHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccce--------ecccccceeeeecceeEeecccc
Confidence 58999999999998644333 2223557999999999987664321111 11111001233467788999888
Q ss_pred CCcccccc-cccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHcCCC
Q 001054 630 LSEFPSNS-FYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVV 708 (1171)
Q Consensus 630 I~~f~S~l-FY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~Gv~ 708 (1171)
+..+.+.. .......... .. .+... -.+.+
T Consensus 134 ~~~~~~~~~~~~~~~~~~~-------------------~~-~~~~~-----------------------------~~~~~ 164 (234)
T PF01443_consen 134 RFDIISALVYTEDHVESSV-------------------EF-RVETD-----------------------------PSGVD 164 (234)
T ss_pred cceeeecccccCCceeecc-------------------cc-ccccc-----------------------------CcccC
Confidence 88887665 1111110000 00 00000 00011
Q ss_pred CCcEEEEecchhHHHHHHHHHHhccchhhhcCCCe-EEecccCcccCccCeEEEeccccCCcCCcCCC-CCcCceeeech
Q 001054 709 PSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI-EVASVDSFQGREKDYIILSCVRSNEHQGIGFL-NDPRRLNVALT 786 (1171)
Q Consensus 709 ~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V-~V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL-~D~RRLNVALT 786 (1171)
..+.+++.....+ .. ... .+.|+|++||+|||.|++........ ... .+++++|||||
T Consensus 165 -~~~~~~~~~~~~~-------~~---------~~~~~~~T~~e~qG~tf~~V~l~~~~~~~~---~~~~~~~~~~~VALT 224 (234)
T PF01443_consen 165 -KVIVYLTFTQAEK-------EQ---------LGSDRVFTVHESQGLTFDNVTLVLLSDTDN---ELYSESRNHLYVALT 224 (234)
T ss_pred -cccchhhHHHHHH-------HH---------cCCCceechHHcceEEeCCEEEEECCCccc---ccccCCcccEEEEcc
Confidence 1122222111111 11 112 59999999999999999876644321 222 36999999999
Q ss_pred hhccceEEE
Q 001054 787 RARYGIVIL 795 (1171)
Q Consensus 787 RAK~~LIIV 795 (1171)
|||+.|+|+
T Consensus 225 R~~~~l~i~ 233 (234)
T PF01443_consen 225 RHTKSLVIL 233 (234)
T ss_pred ccccEEEEE
Confidence 999999986
No 38
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.58 E-value=1e-15 Score=192.02 Aligned_cols=133 Identities=28% Similarity=0.343 Sum_probs=94.5
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecccc
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~s 468 (1171)
..++++|..|+..++..+.++|.|+||||||+++..++..+.... ..+|+.|+|.+|+..|.+.-...
T Consensus 318 ~~~~~~q~~a~~vl~~de~smlt~~~~~~~~~~~~~~~~l~~~~~-~~~l~aa~tG~a~~~l~e~tg~~----------- 385 (696)
T COG0507 318 LRLSLEQKEALDVLVVDEVSMLTGGPGTGKTTAIKAIARLIKEGD-GDQLLAAPTGKAAKRLNESTGLE----------- 385 (696)
T ss_pred CCcCcccHHHHHHHhcCCeeEEeccCCcchHHHHHHHHHHHHhcC-CcEEeechhhHHHHHHHHhhCcc-----------
Confidence 478999999999999999999999999999999988886655543 47999999999999888853111
Q ss_pred ccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCcc
Q 001054 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (1171)
Q Consensus 469 re~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L~ 548 (1171)
-.++| ++..+..... ....
T Consensus 386 ---------a~ti~---------------~~~~~~~~~~-------------------------------------~~~~ 404 (696)
T COG0507 386 ---------ARTIH---------------RLLGLWEKTG-------------------------------------NNEE 404 (696)
T ss_pred ---------hhHHH---------------HHHhccccCC-------------------------------------CCCC
Confidence 11122 2211111000 0112
Q ss_pred cCCCCEEEEEcCCCCCcccccccc---cccCceEEEeCCccCCCceeecH
Q 001054 549 NFRFRQVLIDESTQATEPECLIPL---VLGAKQVVLVGDHCQLGPVIMCK 595 (1171)
Q Consensus 549 ~~kFD~VIIDEASQasEpe~LIpL---~~~~kkLILVGD~~QLpPvv~s~ 595 (1171)
....|.+||||++|+.. ....-+ .....++|+|||..||+++..+.
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 23689999999999998 322222 23467999999999999997654
No 39
>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=1.7e-15 Score=169.84 Aligned_cols=64 Identities=25% Similarity=0.330 Sum_probs=56.2
Q ss_pred CCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHh
Q 001054 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 391 LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~---~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
||++|+++|+. ..+..+|.|+||||||+|+++++.+|+... +.+||++||||+|+++|.+||..
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 78999999998 488899999999999999999999988864 56899999999999999999876
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=99.54 E-value=1.2e-13 Score=187.50 Aligned_cols=167 Identities=20% Similarity=0.219 Sum_probs=113.5
Q ss_pred CCCHHHHHHHHHhhcC--CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001054 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~ 467 (1171)
.||+.|++||..++.. .+.+|+|+|||||||++..++..+-..+ .+|++||||++|+..|.+.+....
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G-~~V~~lAPTgrAA~~L~e~~g~~A--------- 498 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQG-YEIQIITAGSLSAQELRQKIPRLA--------- 498 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhcC-CeEEEEeCCHHHHHHHHHHhcchh---------
Confidence 6999999999999874 7999999999999999999887665555 499999999999999998653211
Q ss_pred cccccCCcchhhhHHHHHhhccchh-HHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCC
Q 001054 468 SREAVSSPVEHLTLHYQVRHLDTSE-KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1171)
Q Consensus 468 sre~i~~~v~~l~L~~~i~~l~~~~-~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~ 546 (1171)
.+++..+..+.... ..++..+ + ...
T Consensus 499 -----------~Ti~~~l~~l~~~~~~~tv~~f-----------------------------l--------------~~~ 524 (1960)
T TIGR02760 499 -----------STFITWVKNLFNDDQDHTVQGL-----------------------------L--------------DKS 524 (1960)
T ss_pred -----------hhHHHHHHhhcccccchhHHHh-----------------------------h--------------ccc
Confidence 12222221111100 0000000 0 000
Q ss_pred cccCCCCEEEEEcCCCCCcccc--ccccc-ccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHHcCCccEEeeee
Q 001054 547 LANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQ 623 (1171)
Q Consensus 547 L~~~kFD~VIIDEASQasEpe~--LIpL~-~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~~g~~~i~L~~q 623 (1171)
..-..-++||||||+|++..++ |+-.. ....+||||||+.||++|- ....|.-|...+.+.++|+..
T Consensus 525 ~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~----------aG~~f~~L~~~gv~t~~l~~i 594 (1960)
T TIGR02760 525 SPFSNKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMS----------AGSAIDLLKEGGVTTYAWVDT 594 (1960)
T ss_pred CCCCCCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccc----------cchHHHHHHHCCCcEEEeecc
Confidence 0012578999999999998654 33322 2457999999999999984 235666677778888888877
Q ss_pred ccCCCCC
Q 001054 624 YRMHPSL 630 (1171)
Q Consensus 624 YRmhp~I 630 (1171)
-|....|
T Consensus 595 ~rq~~~v 601 (1960)
T TIGR02760 595 KQQKASV 601 (1960)
T ss_pred cccCcce
Confidence 6665444
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=99.50 E-value=2.3e-14 Score=166.10 Aligned_cols=164 Identities=18% Similarity=0.231 Sum_probs=101.9
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH--HHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM--AKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHY 483 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L--lk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~~sre~i~~~v~~l~L~~ 483 (1171)
.+++|+|.||||||.++..++..| ... ..++++++++..-++.|.+.|....... . ....+.....
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~-~~~~~~l~~n~~l~~~l~~~l~~~~~~~-----~------~~~~~~~~~~ 69 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEE-GKKVLYLCGNHPLRNKLREQLAKKYNPK-----L------KKSDFRKPTS 69 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhcccc-CCceEEEEecchHHHHHHHHHhhhcccc-----h------hhhhhhhhHH
Confidence 468999999999999999999998 443 3488899999998888888876542000 0 0000000000
Q ss_pred HHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCCcccCCCCEEEEEcCCCC
Q 001054 484 QVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQA 563 (1171)
Q Consensus 484 ~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~L~~~kFD~VIIDEASQa 563 (1171)
.+.... ........||+||||||+.+
T Consensus 70 --------------------------------------------~i~~~~----------~~~~~~~~~DviivDEAqrl 95 (352)
T PF09848_consen 70 --------------------------------------------FINNYS----------ESDKEKNKYDVIIVDEAQRL 95 (352)
T ss_pred --------------------------------------------HHhhcc----------cccccCCcCCEEEEehhHhh
Confidence 000000 01122347999999999999
Q ss_pred Ccc----------cccccccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHHH-cCCcc---EEeeeeccC--C
Q 001054 564 TEP----------ECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL-LGLKP---IRLQVQYRM--H 627 (1171)
Q Consensus 564 sEp----------e~LIpL~~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~~-~g~~~---i~L~~qYRm--h 627 (1171)
..- ..|.-+...++.+|++-|+.| ++..... .....++.+.. .+... +.|++|||+ .
T Consensus 96 ~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q---~i~~~e~----~~~~~l~~~~~~~~~~~~~~~~L~~q~R~~~~ 168 (352)
T PF09848_consen 96 RTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQ---SIRPSEI----GTLENLEEIAENLGIEVRHFFELKTQFRCHGS 168 (352)
T ss_pred hhccccccccccHHHHHHHHhcCCEEEEEEcccc---EeecccC----CCHHHHHHHHHhcCCccccCcCcCcceecCCC
Confidence 871 234444445678888899999 2221110 12233444333 23322 489999999 8
Q ss_pred CCCCcccccccccCc
Q 001054 628 PSLSEFPSNSFYEGT 642 (1171)
Q Consensus 628 p~I~~f~S~lFY~g~ 642 (1171)
+++.+|+..+++...
T Consensus 169 ~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 169 KEYIDWIDNLLDNKN 183 (352)
T ss_pred HHHHHHHHHHHhccc
Confidence 899999998886543
No 42
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.44 E-value=1.2e-13 Score=159.03 Aligned_cols=359 Identities=14% Similarity=0.107 Sum_probs=193.0
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC---------
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG--------- 458 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~g--------- 458 (1171)
.+|+..|++|+-... .+.-.|.|-+|+|||.+++..+++|... +..+|+++.+|...+..|+.++.+..
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 468889988765432 3445899999999999999999888654 66799999999999999998876531
Q ss_pred --CeEEEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhcccccc
Q 001054 459 --LKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIC 536 (1171)
Q Consensus 459 --lkVVRlg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~ 536 (1171)
-+.++.+..... ... ++.....+ ..+++. .++... ..++.. -.+++..++
T Consensus 240 W~~~l~~h~wgG~t--~~g--~y~~~~~~--------------~~~~~~--~fsg~g-~~F~~a----C~eli~~~~--- 291 (660)
T COG3972 240 WGTKLFCHNWGGLT--KEG--FYGMYRYI--------------CHYYEI--PFSGFG-NGFDAA----CKELIADIN--- 291 (660)
T ss_pred ccceEEEeccCCCC--CCc--chHHHHHH--------------hccccc--ccCCCC-cchHHH----HHHHHHhhh---
Confidence 112222111000 000 00000000 000000 000000 001111 111111111
Q ss_pred ccccccCCCCcccCCCCEEEEEcCCCCCcc--cccccccccCceEEEeCCccCCCceeecHHHHhhcchHHHHHHH----
Q 001054 537 CTCVGAGDPRLANFRFRQVLIDESTQATEP--ECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERL---- 610 (1171)
Q Consensus 537 ~T~~~a~~~~L~~~kFD~VIIDEASQasEp--e~LIpL~~~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL---- 610 (1171)
.+.-+|+|+|||+|+.... ++..-+....|++|.++|.-|--.-+.... ..++|-.-
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 1235999999999998752 212222235689999999999322211110 11222110
Q ss_pred -----HHcCCccEEeeeeccCCCCCCccccccc---ccCccc--------c--ccccccccc---CCCCCCCCCCCCCeE
Q 001054 611 -----VLLGLKPIRLQVQYRMHPSLSEFPSNSF---YEGTLQ--------N--GVTINERQS---SGIDFPWPVPNRPMF 669 (1171)
Q Consensus 611 -----~~~g~~~i~L~~qYRmhp~I~~f~S~lF---Y~g~L~--------~--~~~~~~r~l---~~~~~~~p~~~~Pvi 669 (1171)
....-.-+.|.+.||..|..+-++-.+= |.+-.+ . +..+..-.+ ..+...-+....|.+
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 0011123679999999887765544332 222111 0 000000000 000000011112222
Q ss_pred EEEcCCc-eeecccCCcccCHHHHHHHHHHHHHHHHcCCCCCcEEEEecchh----HHHHHHHHHHhccch---------
Q 001054 670 FYVQMGQ-EEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEG----QRAYIVNYMSRNGAL--------- 735 (1171)
Q Consensus 670 f~~~~G~-ee~~~~g~S~~N~~EA~~V~~iV~~Llk~Gv~~~dIGIITPY~a----Qv~~I~~~L~~~g~l--------- 735 (1171)
+ ...+. +....-..+-.-..|+.+|+.-|.++.+.++..+||.||.+-.. -...|.+-|...+.-
T Consensus 435 l-~e~~~p~~i~~fi~fd~~~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s 513 (660)
T COG3972 435 L-PENHKPTAIHLFIGFDNGPDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDIS 513 (660)
T ss_pred c-cccCChhhhheeeccCCcchhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcc
Confidence 2 22111 11111111112356888888888888888999999999987533 233344444333210
Q ss_pred ---hhhcCCCeEEecccCcccCccCeEEEeccccCCcCCcCCCCCcCceeeechhhccceEEEec
Q 001054 736 ---RQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGN 797 (1171)
Q Consensus 736 ---~~~~~~~V~V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL~D~RRLNVALTRAK~~LIIVGn 797 (1171)
.......|.+++|..+||.|+.+|+...+..-. .|+...++.+++|+||.|.-+-|+|-
T Consensus 514 ~e~~f~~dgkvtis~IyrAKGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~gl 575 (660)
T COG3972 514 HETKFKQDGKVTISRIYRAKGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVGL 575 (660)
T ss_pred cccccccCceEEeeeehhccCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhcc
Confidence 011123699999999999999999998775543 45566677999999999999988883
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=99.30 E-value=1.6e-12 Score=151.50 Aligned_cols=60 Identities=30% Similarity=0.440 Sum_probs=51.1
Q ss_pred CCCHHHHHHHHHhh------cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHH
Q 001054 390 ELNASQVFAVKSVL------QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQL 450 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL------~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L 450 (1171)
.||++|+.++..++ ......|.|++|||||+++.+++..+... ...|++||+|+.||.+|
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~-~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR-GKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc-cceEEEecchHHHHHhc
Confidence 48999999988873 34567899999999999999998876554 45899999999999887
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=99.28 E-value=1.9e-12 Score=146.70 Aligned_cols=96 Identities=20% Similarity=0.295 Sum_probs=59.8
Q ss_pred EEeeeeccCCCCCCccccccccc-----CcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHH
Q 001054 618 IRLQVQYRMHPSLSEFPSNSFYE-----GTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEA 692 (1171)
Q Consensus 618 i~L~~qYRmhp~I~~f~S~lFY~-----g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA 692 (1171)
+.|++|||+++.|++++|.+|-. ..-........ ........+.++.. .....|+
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~------------~~~~~e~ 60 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENILPNDNKDRYEKEIQS--------AENSEDGKISIIEF------------DNEEEEA 60 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC---TTSSSSCCCEEEE--------SSTCEESSEEEEEE------------SSHHHHH
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhhhhhhccchhhhhhcc--------ccccccCCceeecc------------CCHHHHH
Confidence 57999999999999999999822 11110000000 00000011222211 1234588
Q ss_pred HHHHHHHHHHHHcCCCCCcEEEEecchhHHHHHHHHHHhcc
Q 001054 693 ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1171)
Q Consensus 693 ~~V~~iV~~Llk~Gv~~~dIGIITPY~aQv~~I~~~L~~~g 733 (1171)
+.|.+.|.++...+++++||+||++.+.+...|.+.|...+
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 99999999998889999999999999998888888776654
No 45
>PF13245 AAA_19: Part of AAA domain
Probab=99.20 E-value=3.4e-11 Score=110.01 Aligned_cols=58 Identities=43% Similarity=0.644 Sum_probs=51.0
Q ss_pred HHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHH
Q 001054 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKI 454 (1171)
Q Consensus 397 ~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL 454 (1171)
+||..++. +++++|+||||||||+|++.++..++.. +..+||+++|||.|+|+|.+|+
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 8889999999999999999999998864 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=98.88 E-value=1.4e-09 Score=117.11 Aligned_cols=57 Identities=28% Similarity=0.558 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCC-CcEEEEcCcHH
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNV 445 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~-~rILV~ApSN~ 445 (1171)
..+|..|+.++..++..+++++.||+|||||.++++...++++.+. .+|+++-|+-.
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVE 60 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCC
Confidence 3579999999999999999999999999999999999888887744 46777665543
No 47
>PRK10536 hypothetical protein; Provisional
Probab=98.86 E-value=9.4e-09 Score=113.76 Aligned_cols=57 Identities=23% Similarity=0.289 Sum_probs=44.9
Q ss_pred CCCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcCc
Q 001054 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPS 443 (1171)
Q Consensus 387 ~l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApS 443 (1171)
.+..+|..|..++..+....+++|.|++|||||+++.++...++..+ -.+|+++-|+
T Consensus 56 ~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~ 113 (262)
T PRK10536 56 PILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPV 113 (262)
T ss_pred cccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCC
Confidence 35678999999999888888999999999999999999888655333 3355555443
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=98.77 E-value=9.5e-08 Score=126.88 Aligned_cols=160 Identities=12% Similarity=0.061 Sum_probs=84.2
Q ss_pred CCCEEEEEcCCCCCcccc--cccccccCceEEEeCCccCCCceeecHHH-HhhcchHHHHHHHHHcCCccEEeeeeccCC
Q 001054 551 RFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKA-ARAGLAQSLFERLVLLGLKPIRLQVQYRMH 627 (1171)
Q Consensus 551 kFD~VIIDEASQasEpe~--LIpL~~~~kkLILVGD~~QLpPvv~s~~a-~~~gl~~SLFERL~~~g~~~i~L~~qYRmh 627 (1171)
+..+|+|||+++++..+. +-.|...++++++|||.+|.. ..... ....+....+.++.. +.+..+||..
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 333334567899999999961 11000 001122333444332 2223445544
Q ss_pred CCCCcccccccccC-cccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHHHHHHc-
Q 001054 628 PSLSEFPSNSFYEG-TLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS- 705 (1171)
Q Consensus 628 p~I~~f~S~lFY~g-~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~~Llk~- 705 (1171)
+.|....+.....+ .+. ....................+.++.... -..|++.|...|.++++.
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 44322111110000 000 0000000000000001112222222211 246899999999998886
Q ss_pred CCCCCcEEEEecc-hhHHHHHHHHHHhcc
Q 001054 706 GVVPSQIGVITPY-EGQRAYIVNYMSRNG 733 (1171)
Q Consensus 706 Gv~~~dIGIITPY-~aQv~~I~~~L~~~g 733 (1171)
|+.++||+||++. +.+...|...|.+.+
T Consensus 333 g~~~~DIAVL~R~~~~y~~~i~~~f~~~~ 361 (1158)
T TIGR02773 333 QYRYQDIAILTRDLEDYAKLVEAVFSDYE 361 (1158)
T ss_pred CCChhheEEEeCCHHHHHHHHHHHHHhCC
Confidence 8999999999999 888888988887643
No 49
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.75 E-value=4.6e-08 Score=100.81 Aligned_cols=69 Identities=26% Similarity=0.371 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHhhcC-CcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 389 PELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~-~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
..+++.|.+++..++.. ...+|.|++|||||+++...+..++... ..++|+++||..++.++..++...
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHH
Confidence 46899999999999887 8999999999999998888777766553 458999999999999999888765
No 50
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.65 E-value=6.7e-09 Score=128.73 Aligned_cols=390 Identities=23% Similarity=0.277 Sum_probs=235.2
Q ss_pred CCCCHHHHHHHHHhhc-----CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH-Hhc---CC
Q 001054 389 PELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI-SAT---GL 459 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL-~~~---gl 459 (1171)
..++..|+.|+..... ....|+.|+ |+|||.+++.-+..+......++++|.+++.|++...... ++. +.
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 4567777776655322 356788998 9999999988887777666679999999999966443332 221 11
Q ss_pred eEE---EeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhcccccc
Q 001054 460 KVV---RLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIC 536 (1171)
Q Consensus 460 kVV---Rlg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~ 536 (1171)
++. |+....+....... .+.+... +.. ....+ ..-....+++ .+|.+
T Consensus 198 ~~~~~~r~~~~~r~l~~~~p------------------vv~~~~~-------if~-~~~~~---~~pq~~~~~~-Hrv~~ 247 (775)
T KOG1804|consen 198 PEATPLRVYSRKRPLAQVNP------------------VVLQYCF-------IFD-SHITF---RRPQVEDLFK-HRVVV 247 (775)
T ss_pred cccccccceeecccccccCC------------------ceeeeee-------ecc-chhhh---ccchhhhhcc-cceeE
Confidence 110 22111111000000 0000000 000 00000 0000112223 56666
Q ss_pred ccccccC---CCCcccCCCCEEEEEcCCCCCcccccccccc--cCceEEEeCCccCCCceeecHHHHhhcchHHHHHHHH
Q 001054 537 CTCVGAG---DPRLANFRFRQVLIDESTQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLV 611 (1171)
Q Consensus 537 ~T~~~a~---~~~L~~~kFD~VIIDEASQasEpe~LIpL~~--~~kkLILVGD~~QLpPvv~s~~a~~~gl~~SLFERL~ 611 (1171)
.|..... ...+....|.+++.|||.++.+.+.+.|+.+ ..++++|+||+.||-|.+.+.......+. .+..++.
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 2233444688999999999999999999775 45799999999999988766544433332 2222221
Q ss_pred H----cCCccEEeeeeccCCCCCCcccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEcCCceeecccCCccc
Q 001054 612 L----LGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYL 687 (1171)
Q Consensus 612 ~----~g~~~i~L~~qYRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~p~~~~Pvif~~~~G~ee~~~~g~S~~ 687 (1171)
. .+...+-.+.|||.+-.|..|.+..||...........+ .+......|..|....+.+........++
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 1 122335689999999999999999999754432222211 12222246777777777766666677888
Q ss_pred CHHHHHHHHHHHHHHHHcC-----C-CCCcEEEEecchhHHHHHHHHHHhccchhhhcCCCeEEecccCcccCccC---e
Q 001054 688 NRTEAANVEKIVTTFLRSG-----V-VPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKD---Y 758 (1171)
Q Consensus 688 N~~EA~~V~~iV~~Llk~G-----v-~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~~V~V~TVdsfQG~E~D---v 758 (1171)
|..|...++.-++.+.+.. + .-..+|++++|..|+..++..|...+....+ -.---+|..+- .
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 8888888888887776432 1 2346889999999998888777432211110 00001111111 4
Q ss_pred EEEecccc--------CCcCCcCCCCCcCceeeechhhccceEEEeccccccc----CchHHHHHHHHHhcCceecCCCc
Q 001054 759 IILSCVRS--------NEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK----QPLWNGLLTHYKEHECLVEGPLN 826 (1171)
Q Consensus 759 VILS~VRS--------n~~~~iGFL~D~RRLNVALTRAK~~LIIVGn~~~Ls~----~~~W~~Ll~~~ke~~~lv~g~l~ 826 (1171)
|||++... ..... +-.++.+|+.|+|||-..+-.+|+...+.. ..+|.+.+..+-.+..++++.+.
T Consensus 472 vvLsgdh~Qlgpv~~s~~A~~--~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~ 549 (775)
T KOG1804|consen 472 VVLSGDHTQLGPVSKSARAEE--LGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELT 549 (775)
T ss_pred EEEccCcccccccccchhhhh--hcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhccccccccccee
Confidence 44444322 11112 234588999999999999999999987765 56899999999999998877765
Q ss_pred c
Q 001054 827 N 827 (1171)
Q Consensus 827 ~ 827 (1171)
.
T Consensus 550 ~ 550 (775)
T KOG1804|consen 550 A 550 (775)
T ss_pred e
Confidence 4
No 51
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.57 E-value=4.6e-06 Score=100.54 Aligned_cols=70 Identities=21% Similarity=0.252 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHH-HHHHHcC-------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV-YHMAKQG-------QGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI-~~Llk~~-------~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+..+++-|.+||..++...-.||++|.|||||.+...-+ ..+.... ..++||++||...|.++.+.+...
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 347899999999999987778999999999998755443 3333221 127999999999999999887653
No 52
>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=98.55 E-value=1.1e-08 Score=97.61 Aligned_cols=50 Identities=26% Similarity=0.229 Sum_probs=40.2
Q ss_pred CeEEecccCcccCccCeEEEeccccCCcCCcCCCCCcCceeeechhhccceEEE
Q 001054 742 EIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVIL 795 (1171)
Q Consensus 742 ~V~V~TVdsfQG~E~DvVILS~VRSn~~~~iGFL~D~RRLNVALTRAK~~LIIV 795 (1171)
.+.+.|||++||+|||.||+........ -...+|+|||||||||+.|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~~----~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSNF----DELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGSG----CGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCcccC----CchhhccEEeeHhHhhhhhCCC
Confidence 6889999999999999999988766511 1345788999999999999997
No 53
>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=3e-07 Score=89.15 Aligned_cols=51 Identities=31% Similarity=0.504 Sum_probs=44.6
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
..+|.||+|||||+++...+..+... ...+|++++|++..++++.+++...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 46899999999999999999888765 4569999999999999999988764
No 54
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=98.41 E-value=2.7e-06 Score=87.30 Aligned_cols=66 Identities=23% Similarity=0.375 Sum_probs=55.8
Q ss_pred CHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 392 NesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
++.|.+++..++.+.-++|.||+|+|||++....+...+... ..++++++|+...++++.+++...
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
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.35 E-value=0.00049 Score=85.54 Aligned_cols=70 Identities=17% Similarity=0.185 Sum_probs=55.9
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHH-HHHHHHHcC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~~--------~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+..+++-|.++|..++...-+++++|.|||||.+... ++..|++.. ..++||++||...+.++.+.+...
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 3478999999999999887889999999999987544 344444321 248999999999999998887654
No 56
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.32 E-value=1.5e-05 Score=99.71 Aligned_cols=69 Identities=23% Similarity=0.238 Sum_probs=54.8
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHH-c-CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAK-Q-GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk-~-~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+.++++-|.+||..++...-+|+++|.|||||.+...-+...+. . ...++||++||...|.++.+.+..
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 34789999999999998888999999999999876443333332 2 334899999999999999887765
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=98.30 E-value=6.7e-06 Score=87.48 Aligned_cols=69 Identities=23% Similarity=0.220 Sum_probs=56.6
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHH-HHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~---~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
..+++.|++|+..++...-.+|.+|.|+|||.+ +..++..+.+. ...++++++||...+.++.+.+...
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 468999999999999878899999999999987 45555555554 3458999999999999988877654
No 58
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=98.29 E-value=3.1e-07 Score=113.28 Aligned_cols=65 Identities=31% Similarity=0.388 Sum_probs=52.1
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHh
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~---~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
-||.+|..++..- .+..-+|.| ||+|||.++...+.+++..+ ...|++.|.||+|+|.+.+++..
T Consensus 13 ~l~~~q~~~~~~~-~~~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~ 80 (853)
T KOG2108|consen 13 LLNKSQRFSALSP-LRRKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIA 80 (853)
T ss_pred hhhhhhhhhhcCC-Ccccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHH
Confidence 4777887776642 144557777 99999999999999988763 33699999999999999999865
No 59
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=98.25 E-value=1.9e-05 Score=102.19 Aligned_cols=67 Identities=24% Similarity=0.288 Sum_probs=55.1
Q ss_pred CCCHHHHHHHHHhhcC------CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~------~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
++++.|.+||..++.. .-.||+|+-|||||.+....+...+..+ .++||++||..-|.+..+.+.+.
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g-~qvlvLvPT~~LA~Q~~~~f~~~ 523 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG-KQVAVLVPTTLLAQQHFETFKER 523 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC-CeEEEEeCcHHHHHHHHHHHHHH
Confidence 5899999999998863 2469999999999998776665555555 49999999999999998887653
No 60
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.19 E-value=2.5e-05 Score=103.10 Aligned_cols=66 Identities=24% Similarity=0.292 Sum_probs=54.7
Q ss_pred CCCHHHHHHHHHhhcC------CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~------~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
++++.|.+|+..++.. .-.||+|+.|||||.++...+...+..+ .++||++||..-|.++.+.+.+
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 6899999999998863 3479999999999998776665555544 4999999999999998887765
No 61
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.14 E-value=8.6e-06 Score=97.38 Aligned_cols=69 Identities=25% Similarity=0.285 Sum_probs=54.7
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHH-HHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAI-VYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~i-I~~Llk~-----~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
..++++-|.+||..++...-+++.+|.|||||.+.... +.+|... +..++|+++||...|.++.+.+..
T Consensus 21 ~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~ 95 (434)
T PRK11192 21 YTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARE 95 (434)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHH
Confidence 34678999999999998878999999999999875443 3444332 235899999999999999887654
No 62
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.11 E-value=1.3e-05 Score=97.75 Aligned_cols=68 Identities=22% Similarity=0.238 Sum_probs=59.9
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.|.+.|++||..++...-.++++|.|+|||.+++.++..++.....++|+++||...++++.+++.+.
T Consensus 114 ~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 114 EPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 68899999999999877789999999999999887777666665559999999999999999998775
No 63
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.10 E-value=2.7e-05 Score=98.24 Aligned_cols=75 Identities=31% Similarity=0.382 Sum_probs=62.2
Q ss_pred CCCCHHHHHHHHHhhc---CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-CCeEEEe
Q 001054 389 PELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GLKVVRL 464 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~---~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~-glkVVRl 464 (1171)
..|++.|++|++.++. ....||+|+.|||||.+...++...+..+ .++|+++||..-+.++.+++.+. +.++..+
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g-~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~ 221 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQG-KQALVLVPEIALTPQMLARFRARFGAPVAVL 221 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHHHhCCCEEEE
Confidence 4699999999999886 36799999999999999888887777665 48999999999999999999763 4444433
No 64
>PTZ00424 helicase 45; Provisional
Probab=98.05 E-value=2e-05 Score=92.90 Aligned_cols=70 Identities=24% Similarity=0.265 Sum_probs=56.2
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
...+++.|.+|+..++...-.+|++|.|||||.+....+...+.. ...++|+++||...+.++.+.+...
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 346899999999999987778999999999998766555444433 3458999999999999888776554
No 65
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.00 E-value=3.7e-05 Score=92.70 Aligned_cols=70 Identities=23% Similarity=0.246 Sum_probs=54.7
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
...+++-|.+|+..++...-.+|++|.|||||.+....+...+.. ...++|+++||...++++.+.+...
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 357899999999999998889999999999997654433333322 2337999999999999998877653
No 66
>PRK02362 ski2-like helicase; Provisional
Probab=97.99 E-value=1e-05 Score=103.08 Aligned_cols=77 Identities=23% Similarity=0.292 Sum_probs=59.2
Q ss_pred CCCCCCHHHHHHHHH-hhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc---CCeEE
Q 001054 387 GLPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT---GLKVV 462 (1171)
Q Consensus 387 ~l~~LNesQ~~AV~~-aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~---glkVV 462 (1171)
.+.+|++.|.+|+.. .+...-.+|.+|.|+|||.+....+...+.. ..++|+++|+..-|++..+++.+. ++++.
T Consensus 20 g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~-~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~ 98 (737)
T PRK02362 20 GIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-GGKALYIVPLRALASEKFEEFERFEELGVRVG 98 (737)
T ss_pred CCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHHHHhhcCCCEEE
Confidence 345799999999988 4557788999999999999876544444433 459999999999999999888754 44444
Q ss_pred Ee
Q 001054 463 RL 464 (1171)
Q Consensus 463 Rl 464 (1171)
.+
T Consensus 99 ~~ 100 (737)
T PRK02362 99 IS 100 (737)
T ss_pred EE
Confidence 33
No 67
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.96 E-value=5.4e-05 Score=95.73 Aligned_cols=67 Identities=30% Similarity=0.380 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHhhcC------CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~------~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+|++.|++|+..++.. .-.||+|+.|||||.+....+...+..+ .++|++|||...|.++.+++.+.
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g-~q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAG-YQAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcC-CeEEEEeccHHHHHHHHHHHHHH
Confidence 6999999999988763 2479999999999998877766666554 48999999999999999987754
No 68
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.96 E-value=4.8e-05 Score=95.41 Aligned_cols=67 Identities=30% Similarity=0.401 Sum_probs=55.1
Q ss_pred CCCHHHHHHHHHhhcC---C---cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQR---P---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~---~---lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+|++.|++|+..++.. + ..||+|+.|||||.+....+...+..+ .++|+++||...|.++.+.+.+.
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g-~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAG-YQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcC-CcEEEECCHHHHHHHHHHHHHHH
Confidence 6999999999988763 2 369999999999998766665555554 49999999999999998887653
No 69
>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=97.95 E-value=1.7e-05 Score=80.91 Aligned_cols=53 Identities=28% Similarity=0.426 Sum_probs=42.7
Q ss_pred CCcEEEEcCCCChHhH-HHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 405 RPISLIQGPPGTGKTV-TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTt-Tla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
..+.+|.=.||+|||+ ++.+++.+.++.+. |+||++||...++++.+.|....
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 68888888888765 99999999999999999997653
No 70
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.94 E-value=4.1e-05 Score=91.42 Aligned_cols=69 Identities=20% Similarity=0.186 Sum_probs=54.0
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHH-HHHHHHc--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAI-VYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~i-I~~Llk~--------~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+..+++-|.+|+..++...-.++++|.|||||.+.... +..++.. ...++||++||...|.++.+.+..
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 45789999999999998888899999999999875433 3344332 124799999999999998776543
No 71
>PRK00254 ski2-like helicase; Provisional
Probab=97.93 E-value=2.4e-05 Score=99.61 Aligned_cols=69 Identities=23% Similarity=0.374 Sum_probs=55.5
Q ss_pred CCCCCCHHHHHHHHH-hhcCCcEEEEcCCCChHhHHHH-HHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 387 GLPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 387 ~l~~LNesQ~~AV~~-aL~~~lsLIqGPPGTGKTtTla-~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
...+|++.|.+|+.. ++.+.-++|.+|.|+|||.+.. .++..+.+. ..++|+++|+..-+++..+++..
T Consensus 20 g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~-~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 20 GIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE-GGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc-CCeEEEEeChHHHHHHHHHHHHH
Confidence 345799999999986 5667788999999999999874 444445443 45999999999999999988764
No 72
>PRK01172 ski2-like helicase; Provisional
Probab=97.88 E-value=6.1e-05 Score=95.25 Aligned_cols=66 Identities=20% Similarity=0.263 Sum_probs=54.9
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+|++.|.+|+..++.+..++|.+|.|||||.+....+...+..+ .++++++|+..-|++..+++.+
T Consensus 22 ~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~~-~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 22 ELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAG-LKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHhC-CcEEEEechHHHHHHHHHHHHH
Confidence 58999999999988888899999999999998765554444444 4899999999999998887754
No 73
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=97.82 E-value=3.6e-05 Score=79.52 Aligned_cols=64 Identities=25% Similarity=0.464 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHhhc-------CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+|.+.|.+||..++. .+..+|.+|.|||||.+++.++..+.. ++++++|+...++++.+.+...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHHh
Confidence 578999999999884 478999999999999999998888876 9999999999999999998543
No 74
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.78 E-value=7.1e-05 Score=90.12 Aligned_cols=65 Identities=29% Similarity=0.385 Sum_probs=57.4
Q ss_pred CCCCHHHHHHHHHhhc----CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 389 PELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
..|.+.|.+|++.... ..-.+|.-|+|+|||.+.+.++..+.. ++||++|+...+++.++++...
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 4689999999999988 778899999999999999999887632 5999999999999999887654
No 75
>PTZ00110 helicase; Provisional
Probab=97.75 E-value=0.00019 Score=88.75 Aligned_cols=71 Identities=25% Similarity=0.257 Sum_probs=55.3
Q ss_pred CCCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHH-HHHHHHHHHcC------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQG------QGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 387 ~l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~------~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.+.++++-|.+|+..++...-+++.+|.|||||.+. .-++.++..+. ...+||++||...|.++.+.+.+.
T Consensus 149 g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 149 GFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 345789999999999998777899999999999863 23344444321 236999999999999998887764
No 76
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.74 E-value=6.3e-05 Score=86.21 Aligned_cols=56 Identities=25% Similarity=0.363 Sum_probs=40.0
Q ss_pred CCCCCHHHHHHHHHhhcC--CcEEEEcCCCChHhHHHHH-HHHHHHH-cCCCcEEEEcCc
Q 001054 388 LPELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAA-IVYHMAK-QGQGQVLVCAPS 443 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~--~lsLIqGPPGTGKTtTla~-iI~~Llk-~~~~rILV~ApS 443 (1171)
+...|.+|+-|+...+.. +++-+.|.+|||||-.+.+ -+.+.+. ....||+|+-|+
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 5677899999999987543 3333333 344577776654
No 77
>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=97.71 E-value=0.0002 Score=91.43 Aligned_cols=71 Identities=11% Similarity=0.118 Sum_probs=58.4
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHH-HHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
...|++-|.+|+..++...-++|..|.|||||....- ++..+.+.+..++|+++||...+.++.+++.+.+
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 4578999999999999888899999999999986543 3444555455689999999999999999887653
No 78
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.68 E-value=0.00027 Score=85.83 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=55.7
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHH-HHHHHHHHcC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla-~iI~~Llk~~--------~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+..+++-|.+|+..++...-++|.+|.|||||.+.. -++..+++.. ..++|+++||...|.++.+.+...
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 357899999999999988778999999999997643 3445555432 347999999999999998877653
No 79
>PRK13766 Hef nuclease; Provisional
Probab=97.68 E-value=0.00022 Score=91.56 Aligned_cols=67 Identities=27% Similarity=0.351 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
++-+-|++++..++.. -.||..|.|+|||.+...++..++.....+||+++||...+++..+.+.+.
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 4567899999988876 579999999999998887777776655679999999999998888887653
No 80
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.61 E-value=0.00019 Score=94.74 Aligned_cols=69 Identities=25% Similarity=0.264 Sum_probs=57.8
Q ss_pred CCCHHHHHHHHHhhc-----CCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
.|-+-|.+||..+.. .+-.||+.+.|||||.|++.++..|++.+ ..+||++++++.-++++.+.+...+
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~ 487 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTK 487 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcc
Confidence 577899999987652 34578999999999999999998888763 4599999999999999999887653
No 81
>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=97.60 E-value=0.0002 Score=95.04 Aligned_cols=67 Identities=33% Similarity=0.350 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.+.+-|+.++..++...-+++++|.|||||+++.-++..+... ..++||++||...|.++.+++...
T Consensus 78 ~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~l~~~~~l~~~-g~~vLIL~PTreLa~Qi~~~l~~l 144 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAKK-GKRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEeCHHHHHHHHHHHHHHH
Confidence 5789999999999988888999999999998665555555444 458999999999999999988764
No 82
>PRK09401 reverse gyrase; Reviewed
Probab=97.57 E-value=0.00032 Score=93.13 Aligned_cols=68 Identities=25% Similarity=0.282 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
++++-|+.++..++...-++|++|.|||||.++..++..+... ..++||++||...|.++.+++...+
T Consensus 80 ~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~f~l~~~~~l~~~-g~~alIL~PTreLa~Qi~~~l~~l~ 147 (1176)
T PRK09401 80 KPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVMSLYLAKK-GKKSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHHHHHHHHhc-CCeEEEEeccHHHHHHHHHHHHHHh
Confidence 5789999999999988888999999999998665544444443 4599999999999999999987753
No 83
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.55 E-value=0.00024 Score=90.44 Aligned_cols=77 Identities=27% Similarity=0.343 Sum_probs=62.6
Q ss_pred CCCCCHHHHHHHHHhhcC-CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH---hcCCeEEE
Q 001054 388 LPELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS---ATGLKVVR 463 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~-~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~---~~glkVVR 463 (1171)
..+|.+.|+.||...+-. ..+||..|-|+|||-++...|..-+..+..+++.++|++.-|.+..+++. ..|+++.-
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 347889999999887654 78999999999999988666655555555699999999999999999887 56777654
Q ss_pred e
Q 001054 464 L 464 (1171)
Q Consensus 464 l 464 (1171)
.
T Consensus 109 ~ 109 (766)
T COG1204 109 S 109 (766)
T ss_pred e
Confidence 4
No 84
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.53 E-value=0.00049 Score=84.57 Aligned_cols=68 Identities=18% Similarity=0.209 Sum_probs=52.9
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHH-HHHHHHHHHc--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~--------~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
..+++-|.+|+..++...-+++.+|.|||||.+- .-++.++... ...++|+++||...|.++.+.+..
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 4689999999999999888999999999999753 3344444321 234799999999999887776544
No 85
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.51 E-value=0.00046 Score=79.05 Aligned_cols=55 Identities=22% Similarity=0.309 Sum_probs=46.7
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcC
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~Ap 442 (1171)
..-.++.|+.-++.+....+.+=.||+|||||.+.+......++.+ -.+||++=|
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 3457899999999999999999999999999999988877776654 458888888
No 86
>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=97.50 E-value=0.00094 Score=81.10 Aligned_cols=74 Identities=20% Similarity=0.299 Sum_probs=58.3
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEec
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg 465 (1171)
+..+.+-|.+||..++...-++|..|.|||||.+- .+-.+.. ....||++|+..-+.+..+++...++.+.-+.
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 45789999999999998778899999999999643 2222222 34799999999999988899988877665543
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=97.50 E-value=0.00036 Score=87.92 Aligned_cols=64 Identities=19% Similarity=0.272 Sum_probs=54.2
Q ss_pred CCCHHHHHHHHHhhcCC---cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~---lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.|=+.|++||...+.++ -.+|.-|.|+|||.+.+.++..+ ..++||++||...+++..+.+.+.
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l----~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV----KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh----CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 57789999999988543 56899999999999998877655 348999999999999999988764
No 88
>PRK08181 transposase; Validated
Probab=97.49 E-value=0.00061 Score=76.95 Aligned_cols=53 Identities=32% Similarity=0.468 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHhh----cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 388 LPELNASQVFAVKSVL----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL----~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
.+.++..|..++..+- .....+|.||||||||+++..+...+++.+. +|+.+.
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 4578999999886552 2455899999999999999999988887754 776665
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=97.45 E-value=0.00099 Score=83.10 Aligned_cols=58 Identities=16% Similarity=0.340 Sum_probs=41.4
Q ss_pred HHHHhhc-CCcEEEEcCCCChHhHHHHH-HHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001054 398 AVKSVLQ-RPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1171)
Q Consensus 398 AV~~aL~-~~lsLIqGPPGTGKTtTla~-iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1171)
+|..++. ....+|.+|.|||||..-.. .+..+.+....+|||+++|..-++++.+.+.
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 56789999999999965433 3333333345699999999999999987554
No 90
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.44 E-value=0.00051 Score=92.30 Aligned_cols=63 Identities=22% Similarity=0.287 Sum_probs=50.5
Q ss_pred CCCHHHHHHHHHhhcC--CcEEEEcCCC-ChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001054 390 ELNASQVFAVKSVLQR--PISLIQGPPG-TGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~--~lsLIqGPPG-TGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1171)
.++..|..||..++.. .+.+|.|..| ||||+++..++..+-..+ .+|.++||+++|+..|.+.
T Consensus 281 ~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G-~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 281 PRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQG-REVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred ccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHhCC-cEEEEEeCCHHHHHHHHhc
Confidence 4788999999999974 3666666666 999999997776555544 5999999999999998764
No 91
>PRK14701 reverse gyrase; Provisional
Probab=97.40 E-value=0.001 Score=90.65 Aligned_cols=67 Identities=27% Similarity=0.302 Sum_probs=54.8
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
++++-|+.++..++...-+++++|.|||||.+..-++..+... ..++||++||..-+.++.+++...
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~-g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALK-GKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhc-CCeEEEEECHHHHHHHHHHHHHHH
Confidence 4789999999999998888999999999999544443333333 348999999999999999998764
No 92
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.39 E-value=0.00076 Score=84.93 Aligned_cols=69 Identities=16% Similarity=0.213 Sum_probs=51.8
Q ss_pred CCCCC-HHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHH---------HHH----c-CCCcEEEEcCcHHHHHHHHH
Q 001054 388 LPELN-ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYH---------MAK----Q-GQGQVLVCAPSNVAVDQLAE 452 (1171)
Q Consensus 388 l~~LN-esQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~---------Llk----~-~~~rILV~ApSN~AVD~L~e 452 (1171)
+..|- .-|.+++..++.+..++++|+.|||||+.+-.++.+ .+. . ...+|+|++||..+|.++.+
T Consensus 161 l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~ 240 (675)
T PHA02653 161 LASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSI 240 (675)
T ss_pred CCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHH
Confidence 33443 468888888888899999999999999986544432 111 1 23489999999999999988
Q ss_pred HHHh
Q 001054 453 KISA 456 (1171)
Q Consensus 453 RL~~ 456 (1171)
++.+
T Consensus 241 ~i~~ 244 (675)
T PHA02653 241 TLLK 244 (675)
T ss_pred HHHH
Confidence 8865
No 93
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.37 E-value=0.00085 Score=87.29 Aligned_cols=68 Identities=18% Similarity=0.310 Sum_probs=54.2
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHH-HHHHHHHc-------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-------GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~-------~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
..|++-|.+|+..++...-+||.+|.|||||.+... ++..|+.. ...++|+++|+...+.++.+++..
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 368999999999999888899999999999987543 44445432 123699999999999988887653
No 94
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.37 E-value=0.0013 Score=73.37 Aligned_cols=50 Identities=30% Similarity=0.392 Sum_probs=39.1
Q ss_pred CCHHHHHHHHHhhc------C--CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 391 LNASQVFAVKSVLQ------R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 391 LNesQ~~AV~~aL~------~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
.++.|+.|+..+.. . ..+++.|+||||||+++.+++.+|.+.+. +|++++
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 36799999999999999999999988764 777774
No 95
>PRK06526 transposase; Provisional
Probab=97.35 E-value=0.00075 Score=75.65 Aligned_cols=51 Identities=24% Similarity=0.418 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHh---hcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 389 PELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 389 ~~LNesQ~~AV~~a---L~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
+.++..|...+... -.....+|.||||||||+++..+...+++.+. +|++.
T Consensus 79 ~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~-~v~f~ 132 (254)
T PRK06526 79 RSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGH-RVLFA 132 (254)
T ss_pred CCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCC-chhhh
Confidence 46777776554322 12456899999999999999999988887664 66553
No 96
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.35 E-value=0.00079 Score=82.49 Aligned_cols=48 Identities=25% Similarity=0.360 Sum_probs=42.2
Q ss_pred EEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
||+|+.|+|||.+...++..++..+. ++|+++|+..-+.++.+++.+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~-~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGK-SVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 68999999999998888887777654 8999999999999999999764
No 97
>PRK04296 thymidine kinase; Provisional
Probab=97.35 E-value=0.00028 Score=75.55 Aligned_cols=36 Identities=28% Similarity=0.504 Sum_probs=30.1
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
.+.+|.||||+||||.+..++..+...+. +|+++.+
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 36799999999999999999988877654 8888743
No 98
>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=97.34 E-value=2.5e-05 Score=82.73 Aligned_cols=47 Identities=26% Similarity=0.358 Sum_probs=31.6
Q ss_pred EEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001054 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1171)
+|+|+.|.|||+++-..+..++..+..+|+||||+..++..+.+.+.
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~ 47 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAE 47 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC-
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHH
Confidence 58999999999999988888877766799999999999999888543
No 99
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.33 E-value=3.5e-05 Score=95.74 Aligned_cols=53 Identities=19% Similarity=0.231 Sum_probs=40.0
Q ss_pred eEEecccCcccCccCeEEEeccccCCcCCc------C------CC-CCcCceeeechhhccceEEE
Q 001054 743 IEVASVDSFQGREKDYIILSCVRSNEHQGI------G------FL-NDPRRLNVALTRARYGIVIL 795 (1171)
Q Consensus 743 V~V~TVdsfQG~E~DvVILS~VRSn~~~~i------G------FL-~D~RRLNVALTRAK~~LIIV 795 (1171)
+.++|+|.++|.|||+|-+.+.+-...... + +. .+++.+|||+||||++||.-
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 678999999999999999987665432211 1 11 24688999999999988765
No 100
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.32 E-value=0.0022 Score=73.19 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=45.6
Q ss_pred CHHHHHHHHH---hhc-CCcEEEEcCCCChHhHHHHHHH-HHHHHcCCC----cEEEEcCcHHHHHHHHHHHHh
Q 001054 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 392 NesQ~~AV~~---aL~-~~lsLIqGPPGTGKTtTla~iI-~~Llk~~~~----rILV~ApSN~AVD~L~eRL~~ 456 (1171)
-+.|.+.++. .+. .+..+|.+|.|||||..+...+ .++...+.. +|++++.|+.-.+.+.+.+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 5788884443 333 6788999999999997765544 444444432 899999999887776655543
No 101
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.32 E-value=0.0022 Score=73.19 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=45.6
Q ss_pred CHHHHHHHHH---hhc-CCcEEEEcCCCChHhHHHHHHH-HHHHHcCCC----cEEEEcCcHHHHHHHHHHHHh
Q 001054 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 392 NesQ~~AV~~---aL~-~~lsLIqGPPGTGKTtTla~iI-~~Llk~~~~----rILV~ApSN~AVD~L~eRL~~ 456 (1171)
-+.|.+.++. .+. .+..+|.+|.|||||..+...+ .++...+.. +|++++.|+.-.+.+.+.+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 5788884443 333 6788999999999997765544 444444432 899999999887776655543
No 102
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.32 E-value=0.00082 Score=76.46 Aligned_cols=76 Identities=20% Similarity=0.216 Sum_probs=63.1
Q ss_pred CCCHHHHHHHHHhhc----CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc--CCeEEE
Q 001054 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT--GLKVVR 463 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~--glkVVR 463 (1171)
.|++-|+.|-..++. ..-+|||+..|+|||-.+-..|.+.++++. +|.+.+|--.-+-+|..||... +.+|.-
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 567899999999999999999998888876 9999999988899999999864 345555
Q ss_pred ecc
Q 001054 464 LCA 466 (1171)
Q Consensus 464 lg~ 466 (1171)
+..
T Consensus 176 Lyg 178 (441)
T COG4098 176 LYG 178 (441)
T ss_pred Eec
Confidence 544
No 103
>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=97.32 E-value=0.0021 Score=80.30 Aligned_cols=73 Identities=21% Similarity=0.296 Sum_probs=58.4
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRl 464 (1171)
..+|++-|.+||..++...-++|..|.|+|||.+.. +-.|+. ...++|++|+...+.+..+++...++.+..+
T Consensus 11 ~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~--lpal~~--~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~ 83 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQ--VPALLL--KGLTVVISPLISLMKDQVDQLRAAGVAAAYL 83 (591)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHH--HHHHHc--CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEE
Confidence 347899999999999987788999999999998753 222332 3478999999999888888898887766555
No 104
>PRK14974 cell division protein FtsY; Provisional
Probab=97.31 E-value=0.0014 Score=76.39 Aligned_cols=56 Identities=36% Similarity=0.542 Sum_probs=41.3
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc-Cc--HHHHHHHHHHHHhcCCeEE
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A-pS--N~AVD~L~eRL~~~glkVV 462 (1171)
.+.++.|+||+|||||++.++..|...+. +|++++ .+ ..|++++.......++.++
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 36789999999999999999988776554 776554 33 5677777766666666554
No 105
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.31 E-value=0.00085 Score=86.33 Aligned_cols=61 Identities=18% Similarity=0.385 Sum_probs=45.2
Q ss_pred HHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 395 QVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 395 Q~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.+..|..++. ++.++|+|++|||||+.+...+..-.. ...+|+|+.||..||.++++++.+
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 678999999999999988654432211 234899999999999999999864
No 106
>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=97.30 E-value=0.00098 Score=85.71 Aligned_cols=61 Identities=20% Similarity=0.456 Sum_probs=47.0
Q ss_pred HHHHHHHhh-cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 395 Q~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.+..|..++ .++.++|+|++||||||.+...+..... ...+|+|+.|+..||.++++|+.+
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 344444444 3688999999999999988766654332 335999999999999999999864
No 107
>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=97.28 E-value=0.00089 Score=84.67 Aligned_cols=67 Identities=21% Similarity=0.150 Sum_probs=55.8
Q ss_pred CHHHHHHHHHhhc----------CCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 392 NASQVFAVKSVLQ----------RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 392 NesQ~~AV~~aL~----------~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
-..|..||+.++. .+-.||+-+.|||||.|++.++..|++. ...+||+++++...++++.+.+...+
T Consensus 240 r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 240 RYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 4689999988753 2468999999999999999999888754 44589999999999999999887654
No 108
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.24 E-value=0.0025 Score=79.96 Aligned_cols=72 Identities=21% Similarity=0.307 Sum_probs=57.1
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRl 464 (1171)
..+.+.|++||..++...-++|.+|.|+|||.+- .+-.|+. ...+||++|+..-+.+..+++...++...-+
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 3479999999999999999888877665433
No 109
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.24 E-value=0.00084 Score=83.72 Aligned_cols=68 Identities=31% Similarity=0.358 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHhhc-----CCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.+-.-|..||+++.. ++-.||.=.+|||||+|+.++|..|++.+ .+|||.+|-.|..+++..+.....
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 355789999988763 33478888899999999999999999884 458999999999999998876554
No 110
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.23 E-value=0.0013 Score=83.42 Aligned_cols=69 Identities=23% Similarity=0.319 Sum_probs=58.5
Q ss_pred CCCCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
...||.-|..+...|.. +...||.+|-|+|||.++.-.|.+++++ +.-||..+||+...|.++.++..+
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 35799999999998886 6679999999999999887777777774 445999999999999999987654
No 111
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.19 E-value=0.0011 Score=83.95 Aligned_cols=67 Identities=24% Similarity=0.309 Sum_probs=60.1
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
++-..|+.=.+.++.+.-+-|.+|.|+||||..+.+...+.+.+ ++++++-||...|.+..+||.+.
T Consensus 82 ~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kg-kr~yii~PT~~Lv~Q~~~kl~~~ 148 (1187)
T COG1110 82 RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKG-KRVYIIVPTTTLVRQVYERLKKF 148 (1187)
T ss_pred CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcC-CeEEEEecCHHHHHHHHHHHHHH
Confidence 34568999999999888889999999999999999988888887 49999999999999999999875
No 112
>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=97.18 E-value=0.002 Score=69.55 Aligned_cols=56 Identities=30% Similarity=0.440 Sum_probs=40.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcE-EEEcCcH--HHHHHHHHHHHhcCCeEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKVVR 463 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rI-LV~ApSN--~AVD~L~eRL~~~glkVVR 463 (1171)
+.++.||.|+|||||++.+++++..++. +| |+++-|. .|+++|..-....++.+..
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 5689999999999999999999988844 55 4555444 6777776655555555544
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=97.16 E-value=0.0016 Score=75.91 Aligned_cols=50 Identities=22% Similarity=0.413 Sum_probs=41.9
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHH-cCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
++|.+|.|+|||.+....+...+. ....+|++++|+...++++.+++...
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
>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=97.15 E-value=0.0019 Score=82.38 Aligned_cols=65 Identities=15% Similarity=0.279 Sum_probs=47.3
Q ss_pred CHHHHHHHHHhhc----CCcEEEEcCCCChHhHHH-HHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHh
Q 001054 392 NASQVFAVKSVLQ----RPISLIQGPPGTGKTVTS-AAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 392 NesQ~~AV~~aL~----~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
=+.|++.+..+.. ....+|.+|.|||||..+ ...+.++.+.+ ..+|..|+.|+.-..++.+-|.+
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 4688877665543 678999999999999654 44444444333 25999999999888877777665
No 115
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.09 E-value=0.013 Score=72.16 Aligned_cols=69 Identities=26% Similarity=0.275 Sum_probs=53.2
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHH-HHHHHHHHHH--cCCCc-EEEEcCcHHHHHHHHHHHHhc
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAK--QGQGQ-VLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk--~~~~r-ILV~ApSN~AVD~L~eRL~~~ 457 (1171)
...++-|..||-.++...-.++++..|||||.. +.-++..+.. ..... .||++||...|.++.+-+...
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 467899999999999988889999999999754 3344555442 22212 899999999999999877653
No 116
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.08 E-value=0.0016 Score=81.98 Aligned_cols=68 Identities=32% Similarity=0.395 Sum_probs=60.0
Q ss_pred CCCCCHHHHHHHHHhhcC----CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 388 LPELNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~----~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
...||..|..|+..+... ..+|+.|.+|+|||-+-..+|...+++++ .+|++.|--.-..++.+|+..
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 67899999999999999999999999885 999999988888888888765
No 117
>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=97.06 E-value=0.00059 Score=76.47 Aligned_cols=62 Identities=27% Similarity=0.333 Sum_probs=40.2
Q ss_pred HHHHHHHhhc-------------CCcEEEEcCCCChHhHHHHHHHHHHHHcCCC----cEEEEcCcHHHHHHHHHHHHhc
Q 001054 395 QVFAVKSVLQ-------------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG----QVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 395 Q~~AV~~aL~-------------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~----rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
|++||...+. ..-.||.=.+|+|||.+++.++..|...... ++||++|+ ..+.+-.+.+.+.
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 7777776543 1335777789999999999999888776432 59999999 5555665555543
No 118
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.01 E-value=0.0033 Score=85.79 Aligned_cols=62 Identities=23% Similarity=0.298 Sum_probs=46.3
Q ss_pred CCHHHHHHHHHhhcC--CcEEEEcCCCC-hHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001054 391 LNASQVFAVKSVLQR--PISLIQGPPGT-GKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1171)
Q Consensus 391 LNesQ~~AV~~aL~~--~lsLIqGPPGT-GKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1171)
.+..|.+|+..++.. .+.+|+|+.|. |+++++..++. +++....+|.++|||++|+..|.+.
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 456888999988874 57889988884 66655555544 4444445999999999999998764
No 119
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.00 E-value=0.0026 Score=79.40 Aligned_cols=72 Identities=29% Similarity=0.288 Sum_probs=59.9
Q ss_pred CCCCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 386 p~l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
|..-.|=..|.+.+..|| ...+||..|-|+|||.+++.+++..++- ++.||+++|||.--|.+-..++...+
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 333467889999999999 8889999999999999999988766654 66799999999998887777666554
No 120
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.97 E-value=0.0032 Score=70.65 Aligned_cols=52 Identities=27% Similarity=0.310 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHhhc-------CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
-.+..+++|+..+.. ..-.++.||||||||+++++|...|++.+. +|++++.
T Consensus 83 ~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~-sv~f~~~ 141 (254)
T COG1484 83 FQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGI-SVLFITA 141 (254)
T ss_pred CCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEEEH
Confidence 344556666665542 346789999999999999999999995544 7777663
No 121
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.93 E-value=0.0049 Score=79.76 Aligned_cols=62 Identities=27% Similarity=0.372 Sum_probs=45.3
Q ss_pred CCCHHHHH---HHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001054 390 ELNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1171)
Q Consensus 390 ~LNesQ~~---AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1171)
+.-+.|.+ +|..++. ....+|++++|||||..-. +-.+......+|+|.|+|..-++++..+
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayl--lp~l~~~~~~~vvI~t~T~~Lq~Ql~~~ 310 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYL--LPLLAQSDQRQIIVSVPTKILQDQIMAE 310 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHH--HHHHHhcCCCcEEEEeCcHHHHHHHHHH
Confidence 34578887 7777776 5678899999999997432 2223332346999999999999999543
No 122
>PF13173 AAA_14: AAA domain
Probab=96.89 E-value=0.0023 Score=63.89 Aligned_cols=41 Identities=22% Similarity=0.320 Sum_probs=31.3
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AV 447 (1171)
+++.+|.||.|+||||++..++..+. ...+|+.+.......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRD 42 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHH
Confidence 56789999999999999999988776 334677766544433
No 123
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.87 E-value=0.0044 Score=73.03 Aligned_cols=48 Identities=25% Similarity=0.364 Sum_probs=34.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcH---HHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSN---VAVDQLAE 452 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN---~AVD~L~e 452 (1171)
..++++.||+|+|||||++.++..++.. +..+|.+++.-. .|+++|..
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~ 188 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRI 188 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHH
Confidence 4578999999999999999999887654 445776665322 25555543
No 124
>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=96.87 E-value=0.0017 Score=81.64 Aligned_cols=55 Identities=29% Similarity=0.409 Sum_probs=49.5
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1171)
+++.+|.+|=|||||+.+...+...++.+..+||+++.-..-+.+|.+|+...++
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 7889999999999999998888877767778999999999999999999987765
No 125
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.83 E-value=0.011 Score=75.68 Aligned_cols=66 Identities=17% Similarity=0.202 Sum_probs=49.8
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+|.+.|.+++-.++...=.+.+.+.|||||.+.+.-+..-+..+. .++|++||...|.+..+-+..
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 478999999888776555789999999999887654443222333 689999999988888776654
No 126
>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=96.81 E-value=0.0035 Score=80.17 Aligned_cols=67 Identities=18% Similarity=0.136 Sum_probs=49.3
Q ss_pred CCHHHHHHHHHhhcCC-cEEEEcCCCChHhHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 391 LNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 391 LNesQ~~AV~~aL~~~-lsLIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.++-|.++|..++... ..+++.|.|||||.+++.-+..+... ...++++++||..-|+++.+.+.+.
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 67889999999998664222222111 2335666889999999999887664
No 127
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.78 E-value=0.0062 Score=69.35 Aligned_cols=36 Identities=28% Similarity=0.472 Sum_probs=29.4
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcC
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~Ap 442 (1171)
+.+|.||.|+|||||++.++.++... +..+|.+++.
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 67899999999999999999988776 4457766653
No 128
>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=96.75 E-value=0.006 Score=64.88 Aligned_cols=44 Identities=32% Similarity=0.540 Sum_probs=32.5
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1171)
.-.+|.|+||||||+++++++..+++.+. +|+.+.. .+|.++|.
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~-~v~f~~~-----~~L~~~l~ 91 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIANEAIRKGY-SVLFITA-----SDLLDELK 91 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEH-----HHHHHHHH
T ss_pred eEEEEEhhHhHHHHHHHHHHHHHhccCCc-ceeEeec-----Cceecccc
Confidence 45789999999999999999999998654 7777653 34555553
No 129
>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=96.74 E-value=0.005 Score=81.89 Aligned_cols=62 Identities=19% Similarity=0.396 Sum_probs=46.5
Q ss_pred HHHHHHHhh-cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 395 Q~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.+..|..++ .+.+++|.|++||||||.+-.++...-.....+|+++-|-..||-.+++|+.+
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 47899999999999999876665443222234788889999999999999876
No 130
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=96.73 E-value=0.0057 Score=73.04 Aligned_cols=122 Identities=23% Similarity=0.255 Sum_probs=83.7
Q ss_pred CCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-CC---eEEEecc
Q 001054 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GL---KVVRLCA 466 (1171)
Q Consensus 391 LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~-gl---kVVRlg~ 466 (1171)
--.-|...+..++.. .+||.=|-|=|||++++.++...+...+++||++|||.-.|.+=++.+.+. ++ +++.+
T Consensus 16 ~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~l-- 92 (542)
T COG1111 16 PRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAAL-- 92 (542)
T ss_pred HHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeee--
Confidence 345788888888755 689999999999999998887555554449999999999998887776542 22 11111
Q ss_pred ccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccccCCCC
Q 001054 467 KSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1171)
Q Consensus 467 ~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a~~~~ 546 (1171)
.|+..... ..+....++|+++|.....+..
T Consensus 93 ---------------------------------------tGev~p~~-----------R~~~w~~~kVfvaTPQvveNDl 122 (542)
T COG1111 93 ---------------------------------------TGEVRPEE-----------REELWAKKKVFVATPQVVENDL 122 (542)
T ss_pred ---------------------------------------cCCCChHH-----------HHHHHhhCCEEEeccHHHHhHH
Confidence 11221111 1234567889999987654433
Q ss_pred ----cccCCCCEEEEEcCCCCCc
Q 001054 547 ----LANFRFRQVLIDESTQATE 565 (1171)
Q Consensus 547 ----L~~~kFD~VIIDEASQasE 565 (1171)
+.-..+.+||+|||-.++-
T Consensus 123 ~~Grid~~dv~~lifDEAHRAvG 145 (542)
T COG1111 123 KAGRIDLDDVSLLIFDEAHRAVG 145 (542)
T ss_pred hcCccChHHceEEEechhhhccC
Confidence 3344799999999988775
No 131
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.71 E-value=0.0072 Score=71.73 Aligned_cols=55 Identities=20% Similarity=0.225 Sum_probs=36.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEE-EEcCc--HHHHHHHHHHHHhcCCe
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVL-VCAPS--NVAVDQLAEKISATGLK 460 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rIL-V~ApS--N~AVD~L~eRL~~~glk 460 (1171)
.+.++.||.|+|||||++.++.++... ...+|+ +.+-| ..|+++|.......++.
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvp 235 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIP 235 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcc
Confidence 468899999999999999999877643 233565 44444 45555654433334443
No 132
>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=96.71 E-value=0.0048 Score=60.28 Aligned_cols=55 Identities=29% Similarity=0.445 Sum_probs=38.6
Q ss_pred HHHHHHHHHhhc---CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001054 393 ASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1171)
Q Consensus 393 esQ~~AV~~aL~---~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1171)
+.+..++...+. ....+|.||||||||+++..++..+.... .+|+.+..+.....
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 345555555553 46789999999999998888887776433 47777766555443
No 133
>COG4889 Predicted helicase [General function prediction only]
Probab=96.71 E-value=0.0098 Score=74.21 Aligned_cols=75 Identities=27% Similarity=0.321 Sum_probs=52.1
Q ss_pred CCCCHHHHHHHHHhhc-----CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHH-HHHHHHhc--CCe
Q 001054 389 PELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ-LAEKISAT--GLK 460 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~-L~eRL~~~--glk 460 (1171)
.++-+.|+.|+..++. .+=-||-+ +|||||.|...|...|.+ .+||.++||-...-+ |++-..+. .+.
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 4678999999999875 12246665 799999999999888876 599999999766543 33333322 234
Q ss_pred EEEeccc
Q 001054 461 VVRLCAK 467 (1171)
Q Consensus 461 VVRlg~~ 467 (1171)
.+.+|+.
T Consensus 236 a~aVcSD 242 (1518)
T COG4889 236 ASAVCSD 242 (1518)
T ss_pred eEEEecC
Confidence 4555553
No 134
>PRK12377 putative replication protein; Provisional
Probab=96.70 E-value=0.0068 Score=67.81 Aligned_cols=49 Identities=31% Similarity=0.439 Sum_probs=36.3
Q ss_pred CHHHHHHHHHhhc--------CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 392 NASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 392 NesQ~~AV~~aL~--------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
++.|+.|+..+.. ....+|+|+||||||+++.+++..+.+.+. +|++++
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 4677666654431 245789999999999999999999987654 665554
No 135
>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=96.70 E-value=0.0061 Score=79.35 Aligned_cols=62 Identities=31% Similarity=0.318 Sum_probs=44.2
Q ss_pred CCHHHHH---HHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001054 391 LNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1171)
Q Consensus 391 LNesQ~~---AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1171)
..+.|.+ +|..++. ....+|.+|.|||||..-..-+..+++ ...+|+|.|+|..-.+++.++
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 4445554 567889999999999754333333333 445999999999988888664
No 136
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=96.69 E-value=0.0057 Score=75.94 Aligned_cols=45 Identities=24% Similarity=0.484 Sum_probs=39.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
...+|.|-+||||||.|..+...+ +.+|+++|..||.||-.+|..
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 457999999999999998887665 788999999999999988763
No 137
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.68 E-value=0.0093 Score=78.30 Aligned_cols=62 Identities=26% Similarity=0.253 Sum_probs=44.7
Q ss_pred CHHHHH---HHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001054 392 NASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1171)
Q Consensus 392 NesQ~~---AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1171)
-+.|.+ +|..++. ....+|.+|.|||||..-.--+..++....++|+|.|+|..--++|.+|
T Consensus 259 R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 259 REGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 467777 6666665 5677899999999997432222223344456999999999999998775
No 138
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.63 E-value=0.0095 Score=73.70 Aligned_cols=66 Identities=29% Similarity=0.439 Sum_probs=55.8
Q ss_pred CCCHHHHHHHHHhhc---CC---cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 390 ELNASQVFAVKSVLQ---RP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~---~~---lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+|+..|+++|+.++. ++ .-||||-=|||||.+++..+...+..+. ++.++|||-..|.+-.+.+.+
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 2589999999999998887777777765 999999999999887777654
No 139
>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=0.0032 Score=66.07 Aligned_cols=52 Identities=27% Similarity=0.422 Sum_probs=40.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
.+||.|+||||||+++..++...++.+. ++++++.. ...+++.+++...+++
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 88888764 4466777777665543
No 140
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.61 E-value=0.008 Score=72.37 Aligned_cols=52 Identities=31% Similarity=0.415 Sum_probs=34.9
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE-cCcH--HHHHHHHHHHHhcCC
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC-APSN--VAVDQLAEKISATGL 459 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~-ApSN--~AVD~L~eRL~~~gl 459 (1171)
+.++.|++|+|||||++.++.+|.+.+. +|+++ +.+. .|.+++..-....++
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~g~-kV~lV~~D~~R~aa~eQL~~la~~~gv 151 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKKGL-KVGLVAADTYRPAAYDQLKQLAEKIGV 151 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEecCCCCCHHHHHHHHHHHHHcCC
Confidence 5788999999999999999988877655 65554 4433 334444443333333
No 141
>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=96.60 E-value=0.014 Score=68.59 Aligned_cols=59 Identities=22% Similarity=0.385 Sum_probs=46.0
Q ss_pred HHHHHHHhhcCC--cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 395 QVFAVKSVLQRP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 395 Q~~AV~~aL~~~--lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
|.+|++.+.... +++|.+|+|+|||.+....+. . ...+.++++|++..+++..+++.+.
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 888999888743 689999999999986543322 2 2347899999999999988887664
No 142
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.51 E-value=0.02 Score=71.90 Aligned_cols=72 Identities=24% Similarity=0.184 Sum_probs=54.7
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh----cCCeEEEe
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA----TGLKVVRL 464 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~----~glkVVRl 464 (1171)
...+-|..++-.++... +.+...|+|||.+.+..++..+..+ ..++|+|||...|.+..+.+.. .++++.-+
T Consensus 103 ~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G-~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i 178 (656)
T PRK12898 103 RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAG-LPVHVITVNDYLAERDAELMRPLYEALGLTVGCV 178 (656)
T ss_pred CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcC-CeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEE
Confidence 34588999988888766 8899999999998876665544444 4999999999999888877654 35555443
No 143
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.49 E-value=0.012 Score=70.73 Aligned_cols=47 Identities=32% Similarity=0.414 Sum_probs=32.8
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHH-HcCCCcEEEE-cCcHH--HHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVC-APSNV--AVDQLAE 452 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Ll-k~~~~rILV~-ApSN~--AVD~L~e 452 (1171)
.+.+|.||+|+|||||++.++..+. ..+..+|+++ +.+.. |+++|..
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 4444466555 44433 4444444
No 144
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.49 E-value=0.014 Score=68.98 Aligned_cols=55 Identities=25% Similarity=0.412 Sum_probs=39.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEE-EcCcHH--HHHHHHHHHHhcCCeE
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV-CAPSNV--AVDQLAEKISATGLKV 461 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV-~ApSN~--AVD~L~eRL~~~glkV 461 (1171)
...+|.||.|+|||||++.++..+...+. +|++ .+-+.. |++++.......++.+
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~Gk-kVglI~aDt~RiaAvEQLk~yae~lgipv 299 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFEV 299 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCC-cEEEEecCCcchHHHHHHHHHhhhcCCcE
Confidence 46789999999999999999998877665 6654 444543 7777766544444443
No 145
>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=96.44 E-value=0.018 Score=64.17 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=28.1
Q ss_pred CHHHHHHHHHhh---c--CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 392 NASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 392 NesQ~~AV~~aL---~--~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
++.+++|+..+. . .++.+|.|++|+||||++..++..+
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 4478999999999999988876554
No 146
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=96.42 E-value=0.004 Score=67.96 Aligned_cols=27 Identities=37% Similarity=0.645 Sum_probs=23.2
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
-|..+|.|||||||||.+..++..|+-
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 366899999999999999988887763
No 147
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.40 E-value=0.0042 Score=78.20 Aligned_cols=25 Identities=28% Similarity=0.327 Sum_probs=21.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.+|+.||+||||||++..+.+.|.-
T Consensus 40 AyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 40 AYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4689999999999998888877653
No 148
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.39 E-value=0.0041 Score=76.37 Aligned_cols=25 Identities=28% Similarity=0.353 Sum_probs=21.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.+|++||||||||+++..++..|.-
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 4699999999999998888777653
No 149
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=96.37 E-value=0.032 Score=71.19 Aligned_cols=59 Identities=24% Similarity=0.346 Sum_probs=43.6
Q ss_pred HHHHH---HHHHhhcC------CcEEEEcCCCChHhHHHHHHHH--HHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001054 393 ASQVF---AVKSVLQR------PISLIQGPPGTGKTVTSAAIVY--HMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1171)
Q Consensus 393 esQ~~---AV~~aL~~------~lsLIqGPPGTGKTtTla~iI~--~Llk~~~~rILV~ApSN~AVD~L~eR 453 (1171)
+.|.+ +|..++.. ...+|.+|.|||||. ++++- .++....++|+|-|.|..--++|.+|
T Consensus 28 ~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTl--aYLlPai~~A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 28 AGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTL--SYLLAGIPIARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred HHHHHHHHHHHHHHhcccccccceEEEECCCCcchhH--HHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhh
Confidence 57776 67777765 678999999999996 33332 12333445999999999999998766
No 150
>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=96.32 E-value=0.023 Score=68.23 Aligned_cols=54 Identities=28% Similarity=0.466 Sum_probs=36.6
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEE-EEcCcH--HHHHHHHHHHHhcCCeE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL-VCAPSN--VAVDQLAEKISATGLKV 461 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rIL-V~ApSN--~AVD~L~eRL~~~glkV 461 (1171)
+.++.|++|+|||||++.++.++.+.+. +|+ |++-+. .|+++|..--...++.+
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~~G~-kV~lV~~D~~R~aA~eQLk~~a~~~~vp~ 158 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQRKGF-KPCLVCADTFRAGAFDQLKQNATKARIPF 158 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEcCcccchhHHHHHHHHhhccCCeE
Confidence 5789999999999999999988877665 655 555454 45555543333333433
No 151
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.30 E-value=0.0033 Score=83.38 Aligned_cols=61 Identities=18% Similarity=0.363 Sum_probs=44.2
Q ss_pred HHHHHHhh-cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 396 VFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 396 ~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
++.|..++ .+.+++|.|+.||||||.+-.++..+-.....+|.++-|-..|+-++++|+.+
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 34444444 47899999999999999766555433221234678888999999999999875
No 152
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.29 E-value=0.0044 Score=77.06 Aligned_cols=25 Identities=28% Similarity=0.359 Sum_probs=21.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.+|++||+||||||++..++..|.-
T Consensus 40 A~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 40 AYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4699999999999998888877754
No 153
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.28 E-value=0.017 Score=74.28 Aligned_cols=63 Identities=17% Similarity=0.299 Sum_probs=49.9
Q ss_pred HHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 395 QVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 395 Q~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.+..|..++. +.+++|.|++|+||||-+-..+...--....+|.++=|-..||-.+++|+.+.
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 3444555544 78999999999999999887776554445568999999999999999999763
No 154
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.28 E-value=0.014 Score=74.58 Aligned_cols=69 Identities=19% Similarity=0.326 Sum_probs=56.9
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHH-HHHHHHHHcC-C-----CcEEEEcCcHHHHHHHHHHHHhc
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG-Q-----GQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla-~iI~~Llk~~-~-----~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.+|++-|+.|+..+.....+||.+|-|||||-++. -++..|++.+ . -.+|.++|=......|..||...
T Consensus 21 ~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~ 96 (814)
T COG1201 21 TSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEP 96 (814)
T ss_pred CCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHH
Confidence 47899999999999988899999999999998764 4556666662 1 25899999999999999888653
No 155
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.20 E-value=0.0058 Score=73.96 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=21.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
..|++||||||||+++..++..|..
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCc
Confidence 3699999999999998888877644
No 156
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=96.14 E-value=0.032 Score=70.63 Aligned_cols=68 Identities=24% Similarity=0.257 Sum_probs=49.9
Q ss_pred CCCHHHHHHHH---HhhcC-CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVK---SVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~---~aL~~-~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+.-+.|++.+. .++.+ ...+|.+|-|||||.-....+.......+.+|++++.|+..-+++.++....
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 34567876554 44554 4599999999999987655554444444569999999999999999886543
No 157
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=96.10 E-value=0.024 Score=72.13 Aligned_cols=71 Identities=20% Similarity=0.310 Sum_probs=47.4
Q ss_pred CCCHHHHHHHHHhh-cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh----cCCeEE
Q 001054 390 ELNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA----TGLKVV 462 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~----~glkVV 462 (1171)
.+-+.|.+++.... ..+ .+++-+.|||||.|.+.-++..+..+ ..|+|+|||...|.+..+.+.. .|+++.
T Consensus 68 glrpydVQlig~l~l~~G-~Iaem~TGeGKTLta~Lpa~l~aL~g-~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~ 143 (762)
T TIGR03714 68 GMFPYDVQVLGAIVLHQG-NIAEMKTGEGKTLTATMPLYLNALTG-KGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVS 143 (762)
T ss_pred CCCccHHHHHHHHHhcCC-ceeEecCCcchHHHHHHHHHHHhhcC-CceEEeCCCHHHHHHHHHHHHHHHhhcCCcEE
Confidence 34455555554433 344 58999999999998765543333333 4899999999988888877643 455543
No 158
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.08 E-value=0.0047 Score=59.57 Aligned_cols=43 Identities=30% Similarity=0.570 Sum_probs=31.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1171)
....+|.||||||||+++..++..+.... ..+++++.+.....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~~~~~~~~~ 44 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG-GGVIYIDGEDILEE 44 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC-CCEEEECCEEcccc
Confidence 35689999999999999999887765443 25666666554443
No 159
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.06 E-value=0.025 Score=73.90 Aligned_cols=71 Identities=25% Similarity=0.403 Sum_probs=52.0
Q ss_pred CCCHHHHHHHHHhhcC--CcEEEEcCCCChHhHHHHHHHHHHHHcCC-CcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~-~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
.|-+.|..++..++.. +-+||-=--|.|||-.+..++..++..+. .+|||++|+.-.-.-..|-..+.++.
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW~~El~~kF~l~ 225 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQWLVEMLRRFNLR 225 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHHHHHHHHHhCCC
Confidence 5789999999888763 34788889999999999888888776653 59999999865443333322334444
No 160
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=96.06 E-value=0.027 Score=73.12 Aligned_cols=68 Identities=22% Similarity=0.329 Sum_probs=59.1
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHH-HHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.|=..|.+|++.+.....+||+-|.|||||-+ +.-|+.++++.+..+-|++-|||..|..=++||.+.
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 46679999999998888899999999999965 567778888888889999999999999888888764
No 161
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=96.02 E-value=0.0037 Score=77.28 Aligned_cols=58 Identities=22% Similarity=0.210 Sum_probs=44.8
Q ss_pred CCCCHHHHHHHHHh----hc--CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001054 389 PELNASQVFAVKSV----LQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1171)
Q Consensus 389 ~~LNesQ~~AV~~a----L~--~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1171)
..||++|+.....+ .. .+++. .|.+|||||++..+++..+... ...++.+|.|+.|+-
T Consensus 116 ~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l~~t~~~~~~~~-g~~~~~v~~s~ia~~ 179 (540)
T KOG0987|consen 116 KKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYLLKTLIAALRSR-GKIVLNVASSGIAAL 179 (540)
T ss_pred hhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHHhcC-CceEEEeeecchhhh
Confidence 36999999766622 22 34455 8999999999999999888777 447888898888874
No 162
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.01 E-value=0.0081 Score=75.31 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=21.0
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
+|++||+|+||||++..++..|..
T Consensus 41 yLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 41 YLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred EEEECCCCCCHHHHHHHHHHhhhh
Confidence 689999999999998888877754
No 163
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=95.93 E-value=0.057 Score=70.95 Aligned_cols=72 Identities=15% Similarity=0.203 Sum_probs=56.2
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRl 464 (1171)
..|.+-|++||..++...-+|+..|.|+|||.+-. +-.|+. ...+||++|+...+.+-..+|...++....+
T Consensus 459 ~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQ--LPAL~~--~GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L 530 (1195)
T PLN03137 459 HSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQ--LPALIC--PGITLVISPLVSLIQDQIMNLLQANIPAASL 530 (1195)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHH--HHHHHc--CCcEEEEeCHHHHHHHHHHHHHhCCCeEEEE
Confidence 47889999999999998889999999999996532 222222 2479999999999877777777777766544
No 164
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.92 E-value=0.0066 Score=77.69 Aligned_cols=25 Identities=24% Similarity=0.286 Sum_probs=21.2
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.+|++||||||||+++..++..|..
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhccC
Confidence 4689999999999998888877653
No 165
>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=64.85 Aligned_cols=56 Identities=36% Similarity=0.518 Sum_probs=40.0
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc-C--cHHHHHHHHHHHHhcCCeEE
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-P--SNVAVDQLAEKISATGLKVV 462 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A-p--SN~AVD~L~eRL~~~glkVV 462 (1171)
.+.++.||+|+|||||++.++..+.+.+. +|++++ - ...|.+++.......++.++
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 3 34456677666555565554
No 166
>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=95.84 E-value=0.015 Score=63.55 Aligned_cols=53 Identities=32% Similarity=0.590 Sum_probs=40.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1171)
..++||.|+||||||+.+..+++.-+++ +. ++++++..... +++.+++...+.
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 5679999999999999999999887777 65 88888865444 778887777654
No 167
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.81 E-value=0.035 Score=67.13 Aligned_cols=35 Identities=23% Similarity=0.180 Sum_probs=28.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1171)
..+|.||||||||+++.++...+.+.. ..+|+.++
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~ 167 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT 167 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 479999999999999999988887753 34677665
No 168
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.81 E-value=0.036 Score=67.85 Aligned_cols=37 Identities=30% Similarity=0.418 Sum_probs=29.0
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1171)
..+.+|.||.|+|||||+..++..+...+ ..+|.+++
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 35788999999999999999998877653 34676554
No 169
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=95.79 E-value=0.014 Score=67.17 Aligned_cols=39 Identities=18% Similarity=0.301 Sum_probs=26.3
Q ss_pred CCEEEEEcCCCCCccc--ccccccccCceEEEeCCccCCCce
Q 001054 552 FRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPV 591 (1171)
Q Consensus 552 FD~VIIDEASQasEpe--~LIpL~~~~kkLILVGD~~QLpPv 591 (1171)
=.+++|||.-..+..+ +++|.+- +.-++|+|-.-.-|..
T Consensus 223 kTilFiDEiHRFNksQQD~fLP~VE-~G~I~lIGATTENPSF 263 (554)
T KOG2028|consen 223 KTILFIDEIHRFNKSQQDTFLPHVE-NGDITLIGATTENPSF 263 (554)
T ss_pred eeEEEeHHhhhhhhhhhhcccceec-cCceEEEecccCCCcc
Confidence 3568899987776644 5677653 5678888887654443
No 170
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=95.78 E-value=0.0097 Score=67.54 Aligned_cols=27 Identities=44% Similarity=0.615 Sum_probs=23.3
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
-+.+|..||||||||+|+..+.++|.-
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 467899999999999999988887753
No 171
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=95.72 E-value=0.043 Score=66.57 Aligned_cols=37 Identities=22% Similarity=0.133 Sum_probs=27.7
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcC
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~Ap 442 (1171)
+..+|.|++|||||+++.++...+.+. +..+|+.++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 357899999999999998888777654 3446665553
No 172
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.71 E-value=0.01 Score=58.52 Aligned_cols=52 Identities=27% Similarity=0.464 Sum_probs=33.3
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-----~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+.+.+|.|+||+|||+++..++..+... ...-+.+.++.......+.+.|..
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 60 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILE 60 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence 4678999999999999999999887653 232344555554445566665543
No 173
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.71 E-value=0.016 Score=67.20 Aligned_cols=68 Identities=22% Similarity=0.202 Sum_probs=56.9
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHH-HHHHHHHHHHcCC-CcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~~~-~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
..+.-|++||=.+|...-++.-+--|+|||-+ +.=|+..|+.++. ...||+|||...|-+|++-....
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 56889999999999988899999999999965 4556777777643 47999999999999999887654
No 174
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.63 E-value=0.023 Score=69.80 Aligned_cols=26 Identities=35% Similarity=0.492 Sum_probs=21.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
..|+.|||||||||++..++..+...
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 35999999999999998888777643
No 175
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=95.61 E-value=0.033 Score=65.91 Aligned_cols=52 Identities=29% Similarity=0.502 Sum_probs=39.8
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
..+++|.|+||+|||+++..++..+.+.+ .+||+++... ..+++..|..+.+
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g-~~VlYvs~EE-s~~qi~~Ra~rlg 133 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRG-GKVLYVSGEE-SPEQIKLRADRLG 133 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEECCc-CHHHHHHHHHHcC
Confidence 46789999999999999999998887765 4888887643 3456666655443
No 176
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.61 E-value=0.013 Score=73.24 Aligned_cols=25 Identities=28% Similarity=0.376 Sum_probs=21.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.+|++||+|||||+++..++..|..
T Consensus 40 a~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 40 AYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4699999999999998888877754
No 177
>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=95.56 E-value=0.056 Score=56.67 Aligned_cols=59 Identities=15% Similarity=0.204 Sum_probs=42.3
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcH----HHHHHHHHHHHhcCCeEEEecc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN----VAVDQLAEKISATGLKVVRLCA 466 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN----~AVD~L~eRL~~~glkVVRlg~ 466 (1171)
.++..|..++|+|||+.+..+....+.++. +|+++=|-. ..-..+.+++ .++++.+.+.
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 367789999999999999999988888765 888854422 2233455555 2677777754
No 178
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=95.54 E-value=0.038 Score=58.62 Aligned_cols=57 Identities=21% Similarity=0.212 Sum_probs=40.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHH----HHHHHHHHHhcCCeEEEec
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVA----VDQLAEKISATGLKVVRLC 465 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~A----VD~L~eRL~~~glkVVRlg 465 (1171)
.++..|.+++|.|||+.+..++...+..+. +|+++=|-... =..+.+++ ++.+.+.+
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~-~v~ivQFlKg~~~~GE~~~l~~~---~~~~~~~g 65 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGK-KVGVIQFIKGAWPNGERAAFEPH---GVEFQVMG 65 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEEecCCcccChHHHHHhc---CcEEEECC
Confidence 578889999999999999999998888776 89888543322 12233443 56666654
No 179
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.52 E-value=0.061 Score=65.20 Aligned_cols=35 Identities=31% Similarity=0.475 Sum_probs=28.5
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
...+|.||+|+|||+++..+...+.+.+ .+|+.+.
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 3578999999999999999988887654 4777665
No 180
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=95.51 E-value=0.058 Score=66.79 Aligned_cols=20 Identities=5% Similarity=0.026 Sum_probs=13.0
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 001054 981 SNSQPSVGGPLTQPGFVNNM 1000 (1171)
Q Consensus 981 ~~~~~~~~~~~~~~~~~~~~ 1000 (1171)
|---+-+-.||+-.-|.--.
T Consensus 616 pKK~~k~e~~Mrr~nW~kI~ 635 (1102)
T KOG1924|consen 616 PKKVYKPEVPMRRFNWSKIV 635 (1102)
T ss_pred ccccCCCCCccccCCccccC
Confidence 44445677888888885533
No 181
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.49 E-value=0.097 Score=67.21 Aligned_cols=62 Identities=19% Similarity=0.215 Sum_probs=43.8
Q ss_pred CHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 392 NesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.+-|..+.-..+ .+- +....-|+|||.+.+..++..+..+ ..++|+|||...|.+..+.+..
T Consensus 80 ~~vQl~~~~~l~-~G~-Iaem~TGeGKTL~a~lp~~l~al~G-~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 80 YDVQLIGALVLH-EGN-IAEMQTGEGKTLTATMPLYLNALEG-KGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred chHHHHhHHHHc-CCc-eeeecCCCcchHHHHHHHHHHHHcC-CCeEEEeCCHHHHHHHHHHHHH
Confidence 456666555443 332 8999999999998765554333334 4999999999999888877654
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=95.45 E-value=0.02 Score=63.41 Aligned_cols=54 Identities=24% Similarity=0.400 Sum_probs=42.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
..++||.|+||||||+.+..+++..++.+. ++++++.. ...+++.+++...+.+
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 457899999999999999999888776654 88888854 4666788887766543
No 183
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.44 E-value=0.034 Score=64.49 Aligned_cols=55 Identities=31% Similarity=0.436 Sum_probs=39.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc-CcH--HHHHHHHHHHHhcCCeEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PSN--VAVDQLAEKISATGLKVV 462 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A-pSN--~AVD~L~eRL~~~glkVV 462 (1171)
+.+|.||+|+|||||++.++..+...+. +|++++ .+. .|++++.......++.++
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 776654 443 355666655445555544
No 184
>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=0.022 Score=64.27 Aligned_cols=50 Identities=22% Similarity=0.419 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHhhc--CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
.+.+.|.++++.++. .++++|.|++|+||||++..++..+.. ...+|+.+
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 367888888887765 578999999999999999988877643 23355544
No 185
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.41 E-value=0.032 Score=64.32 Aligned_cols=58 Identities=28% Similarity=0.347 Sum_probs=43.9
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcH--HHHHHHHHHHHhcCCeEEEe
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVVRL 464 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN--~AVD~L~eRL~~~glkVVRl 464 (1171)
+.|+.|..|+||||||+.++++|.+++.+-+|+.+-|= .|+++|..--.+.|.++++-
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 46889999999999999999999988774444444454 45667776666678887764
No 186
>PRK05973 replicative DNA helicase; Provisional
Probab=95.31 E-value=0.027 Score=62.66 Aligned_cols=53 Identities=19% Similarity=0.342 Sum_probs=43.2
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1171)
..++||.|+||+|||+.+..++...++++. ++++.+.--. .+++.+|+...++
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 187
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=95.31 E-value=0.15 Score=61.33 Aligned_cols=79 Identities=20% Similarity=0.245 Sum_probs=57.2
Q ss_pred CCCCCCHHHHHHHHHhhcCCcEEEEcCCCChHh-HHHHHHHHHHHHcC----------CCcEEEEcCcHHHHHHHHHHHH
Q 001054 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKT-VTSAAIVYHMAKQG----------QGQVLVCAPSNVAVDQLAEKIS 455 (1171)
Q Consensus 387 ~l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKT-tTla~iI~~Llk~~----------~~rILV~ApSN~AVD~L~eRL~ 455 (1171)
+..+-++-|+.||=-.++++-.|-.+-.||||| -.+.-++.++...+ ...-+++|||...+.+|.+-..
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 345667899999998888777788889999999 44444554444332 2367899999999999988755
Q ss_pred h----cCCeEEEec
Q 001054 456 A----TGLKVVRLC 465 (1171)
Q Consensus 456 ~----~glkVVRlg 465 (1171)
+ .++++|++.
T Consensus 344 kf~~~lg~r~vsvi 357 (673)
T KOG0333|consen 344 KFGKPLGIRTVSVI 357 (673)
T ss_pred HhcccccceEEEEe
Confidence 4 355666653
No 188
>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=95.31 E-value=0.038 Score=57.75 Aligned_cols=34 Identities=38% Similarity=0.630 Sum_probs=27.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
+.+|.|+||+|||+++..++..+.+.+. +|+++.
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 189
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.29 E-value=0.023 Score=71.38 Aligned_cols=26 Identities=35% Similarity=0.579 Sum_probs=22.0
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
+.+|+.||||||||+++..++..|.-
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 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=95.28 E-value=0.021 Score=61.53 Aligned_cols=37 Identities=32% Similarity=0.562 Sum_probs=28.8
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
+++.+|.||+|+||||++..++..+......+|+.+-
T Consensus 1 ~GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 3678999999999999999888877655444665544
No 191
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.27 E-value=0.026 Score=71.00 Aligned_cols=26 Identities=23% Similarity=0.385 Sum_probs=21.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
.+|+.||+|+|||+++..++..|...
T Consensus 40 a~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 40 AYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhccc
Confidence 46999999999999988888776543
No 192
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=95.26 E-value=0.028 Score=72.83 Aligned_cols=78 Identities=21% Similarity=0.324 Sum_probs=60.4
Q ss_pred CCCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHc----------CCCcEEEEcCcHHHHHHHHH----H
Q 001054 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ----------GQGQVLVCAPSNVAVDQLAE----K 453 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~----------~~~rILV~ApSN~AVD~L~e----R 453 (1171)
..||..|-+...+++. ....|+.||.|.|||-+++.-|.+-++. ...+|..+||....|+++.. |
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 5678999999999999876655554443 23489999999999998766 5
Q ss_pred HHhcCCeEEEecc
Q 001054 454 ISATGLKVVRLCA 466 (1171)
Q Consensus 454 L~~~glkVVRlg~ 466 (1171)
+...|++|..+..
T Consensus 388 la~~GI~V~ElTg 400 (1674)
T KOG0951|consen 388 LAPLGITVLELTG 400 (1674)
T ss_pred ccccCcEEEEecc
Confidence 6667888776643
No 193
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.25 E-value=0.031 Score=69.05 Aligned_cols=24 Identities=25% Similarity=0.397 Sum_probs=20.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
.+|+.||||+|||+++..++..|.
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 40 AYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 468999999999998888777664
No 194
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.25 E-value=0.027 Score=70.23 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=20.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
.+|+.||+|||||+++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 468999999999999888887765
No 195
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=95.24 E-value=0.098 Score=61.99 Aligned_cols=48 Identities=27% Similarity=0.378 Sum_probs=35.0
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHH-HcCCCcEEEEcCc---HHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCAPS---NVAVDQLAE 452 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Ll-k~~~~rILV~ApS---N~AVD~L~e 452 (1171)
.++..+.||-|.|||||++.+++.+. ..++.+|-+++-- =-|+.+|.-
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~ 254 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKT 254 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHH
Confidence 56889999999999999999998887 4455577666532 244544443
No 196
>PRK08116 hypothetical protein; Validated
Probab=95.20 E-value=0.061 Score=60.92 Aligned_cols=34 Identities=32% Similarity=0.419 Sum_probs=28.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
.++|+|+||||||+++.+++..|.+.+ .+|+++.
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 197
>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=95.20 E-value=0.014 Score=57.13 Aligned_cols=22 Identities=45% Similarity=0.800 Sum_probs=19.3
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
.||.||||||||+++..++..+
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 4899999999999988888765
No 198
>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=95.17 E-value=0.031 Score=56.32 Aligned_cols=41 Identities=27% Similarity=0.524 Sum_probs=32.3
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1171)
+++|.|+||||||+++..++..+...+ .+|++........+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~-~~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKG-GKVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcC-CEEEEEECCcchHH
Confidence 368999999999999999998887754 47888777554433
No 199
>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=95.15 E-value=0.23 Score=66.41 Aligned_cols=155 Identities=10% Similarity=0.034 Sum_probs=92.1
Q ss_pred CCCCEEEEEcCCCCCcccc--cccccccCceEEEeCCccCCCceeecHHHHhhcc-h---HHHHHHHHHcCCccEEeeee
Q 001054 550 FRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGL-A---QSLFERLVLLGLKPIRLQVQ 623 (1171)
Q Consensus 550 ~kFD~VIIDEASQasEpe~--LIpL~~~~kkLILVGD~~QLpPvv~s~~a~~~gl-~---~SLFERL~~~g~~~i~L~~q 623 (1171)
.+--.|+|||+++.+..|. +-.|...+++|.+++|.+|..+. .. .....+ . ..|..-....+.+...+..+
T Consensus 184 l~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~~-~~--~~~~~LF~~s~~~L~~la~~~~i~v~~~~~~ 260 (1076)
T TIGR02774 184 LKNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAYK-SS--FSEGNLYQASVKFLHDLAQKYQTKAEFISST 260 (1076)
T ss_pred hCCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCccccc-cC--CCcccchHHHHHHHHHHHHHcCCCcccCccc
Confidence 3567899999999998663 44444567899999999886531 00 000011 1 12222222335565666688
Q ss_pred ccCCCCCCcccccccccCcccccccccccccCCCCCCC--CCC-CCCeEEEEcCCceeecccCCcccCHHHHHHHHHHHH
Q 001054 624 YRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW--PVP-NRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVT 700 (1171)
Q Consensus 624 YRmhp~I~~f~S~lFY~g~L~~~~~~~~r~l~~~~~~~--p~~-~~Pvif~~~~G~ee~~~~g~S~~N~~EA~~V~~iV~ 700 (1171)
||.+++|..+.+.++-...... .++ ... ...+.++... .-..|++.|...|.
T Consensus 261 ~R~~~~L~~Le~~~~~~~~~~~-------------~~~~~~~~~~~~I~i~~a~------------n~~~Eve~va~~I~ 315 (1076)
T TIGR02774 261 HESKDSFDKLSRLLEASHDFSE-------------LALDLDDKDKDNLTIWSCL------------TQKEEVEHVARSIR 315 (1076)
T ss_pred cccCHHHHHHHHHHhhcccCCc-------------ccccCCCCCCCceEEEEcC------------CHHHHHHHHHHHHH
Confidence 9998888877663331100000 000 000 0112222111 12468999999999
Q ss_pred HHHHcCCCCCcEEEEecchhH-HHHHHHHHHhc
Q 001054 701 TFLRSGVVPSQIGVITPYEGQ-RAYIVNYMSRN 732 (1171)
Q Consensus 701 ~Llk~Gv~~~dIGIITPY~aQ-v~~I~~~L~~~ 732 (1171)
+|++.|+.++||+|+++-..+ ...|...+.+.
T Consensus 316 ~lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~~~ 348 (1076)
T TIGR02774 316 QKLYEGYRYKDILVLLGDVDSYQLQLGKIFDQY 348 (1076)
T ss_pred HHHHcCCChhheEEEcCCHHHHHHHHHHHHhhc
Confidence 999999999999999998776 66666666553
No 200
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=95.14 E-value=0.073 Score=65.98 Aligned_cols=11 Identities=9% Similarity=-0.009 Sum_probs=5.9
Q ss_pred chHHHHHHHHH
Q 001054 805 PLWNGLLTHYK 815 (1171)
Q Consensus 805 ~~W~~Ll~~~k 815 (1171)
.+|+.+-.+-+
T Consensus 482 k~~ke~ta~qe 492 (1102)
T KOG1924|consen 482 KFDKELTARQE 492 (1102)
T ss_pred HHHHHHhHHHH
Confidence 45666655543
No 201
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.10 E-value=0.11 Score=68.43 Aligned_cols=149 Identities=18% Similarity=0.275 Sum_probs=86.8
Q ss_pred CCCHHHHHHHHHhhc---CC-cEEEEcCCCChHhHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc--CCeE
Q 001054 390 ELNASQVFAVKSVLQ---RP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~---~~-lsLIqGPPGTGKTtTla~iI~~Llk~--~~~rILV~ApSN~AVD~L~eRL~~~--glkV 461 (1171)
.|=+.|.++|+.++. ++ -.||.=-.|.|||..++.++.+|... ...++||++|.... .+-.+-+.+. .+++
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL-~nW~~Ei~kw~p~l~v 247 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTL-GNWMNEIRRFCPVLRA 247 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHH-HHHHHHHHHHCCCCce
Confidence 577899999998763 33 35666679999999988888877653 23589999997664 4444445443 2233
Q ss_pred EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhccccccccccc
Q 001054 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVG 541 (1171)
Q Consensus 462 VRlg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~ 541 (1171)
+.+.....+. ..+ .. ........+||++|-..
T Consensus 248 ~~~~G~~~eR-------------------------~~~---------------------~~--~~~~~~~~dVvITSYe~ 279 (1033)
T PLN03142 248 VKFHGNPEER-------------------------AHQ---------------------RE--ELLVAGKFDVCVTSFEM 279 (1033)
T ss_pred EEEeCCHHHH-------------------------HHH---------------------HH--HHhcccCCCcceecHHH
Confidence 3332110000 000 00 00001234555555433
Q ss_pred cCC--CCcccCCCCEEEEEcCCCCCcccccc----cccccCceEEEeCCccC
Q 001054 542 AGD--PRLANFRFRQVLIDESTQATEPECLI----PLVLGAKQVVLVGDHCQ 587 (1171)
Q Consensus 542 a~~--~~L~~~kFD~VIIDEASQasEpe~LI----pL~~~~kkLILVGD~~Q 587 (1171)
+.. ..+....|++||||||..+--....+ ..+....+++|-|=|-|
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 221 23556689999999998876644221 11124468999999988
No 202
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=95.10 E-value=0.029 Score=69.83 Aligned_cols=26 Identities=31% Similarity=0.415 Sum_probs=21.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
..+|+.||+|||||+++..++..+..
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~c 64 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVNC 64 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35789999999999998888776653
No 203
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.10 E-value=0.032 Score=61.72 Aligned_cols=53 Identities=21% Similarity=0.389 Sum_probs=39.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1171)
..+++|.|+||||||+++..++..+++.+. +++.++.... .+++.+.+...+.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~-~~~yi~~e~~-~~~~~~~~~~~g~ 76 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNGY-SVSYVSTQLT-TTEFIKQMMSLGY 76 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEeCCCC-HHHHHHHHHHhCC
Confidence 568999999999999999999988887764 7777775443 3555555554443
No 204
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=95.08 E-value=0.029 Score=72.50 Aligned_cols=25 Identities=28% Similarity=0.468 Sum_probs=21.4
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.+|+.||+|||||+++..+++.|.-
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 4789999999999999888877753
No 205
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.03 E-value=0.043 Score=63.72 Aligned_cols=50 Identities=20% Similarity=0.401 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEE
Q 001054 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLV 439 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV 439 (1171)
.|+++|.+.+..++. +...||.|++||||||++.+++..+.+. +..+|++
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 3335544
No 206
>PRK08084 DNA replication initiation factor; Provisional
Probab=95.02 E-value=0.05 Score=60.29 Aligned_cols=53 Identities=17% Similarity=0.166 Sum_probs=38.9
Q ss_pred CCCHHHHHHHHHhhc---CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCc
Q 001054 390 ELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~---~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1171)
.-|.....+++.... .+..+|+||||||||+++..+...+.+.+ .+++.+...
T Consensus 27 ~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~-~~v~y~~~~ 82 (235)
T PRK08084 27 GDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRG-RAVGYVPLD 82 (235)
T ss_pred CccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEEHH
Confidence 356666666666543 35689999999999999998888777654 477776653
No 207
>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=95.02 E-value=0.038 Score=60.36 Aligned_cols=54 Identities=20% Similarity=0.319 Sum_probs=44.0
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
..+++|.|+||+|||+.+..+++..++++ .++++++... ..+++.+++...+..
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g-~~~~y~s~e~-~~~~l~~~~~~~~~~ 69 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNG-EKAMYISLEE-REERILGYAKSKGWD 69 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEECCC-CHHHHHHHHHHcCCC
Confidence 45789999999999999999988877775 4888887765 578888888776654
No 208
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=95.02 E-value=0.064 Score=69.08 Aligned_cols=47 Identities=17% Similarity=0.224 Sum_probs=35.6
Q ss_pred EEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+...+.|+|||.+.+.-++..+..+ ..|+|+|||...|.+..+.+..
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~al~G-~~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNAISG-RGVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred cccccCCCCchHHHHHHHHHHHhcC-CCEEEEcCCHHHHHHHHHHHHH
Confidence 5677999999998765554333334 4799999999998888877654
No 209
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=94.96 E-value=0.038 Score=64.94 Aligned_cols=26 Identities=27% Similarity=0.523 Sum_probs=22.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
..||.||+|+|||+++..++..|+..
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 210
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.94 E-value=0.033 Score=63.31 Aligned_cols=34 Identities=35% Similarity=0.620 Sum_probs=28.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEE
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL 438 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rIL 438 (1171)
+++.||.||-|||||||++++|-++-+.....||
T Consensus 125 ~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIl 158 (353)
T COG2805 125 RGLILVTGPTGSGKSTTLAAMIDYINKHKAKHIL 158 (353)
T ss_pred CceEEEeCCCCCcHHHHHHHHHHHHhccCCcceE
Confidence 7899999999999999999999988766553444
No 211
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=94.94 E-value=0.048 Score=63.33 Aligned_cols=53 Identities=26% Similarity=0.324 Sum_probs=39.8
Q ss_pred CCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcC
Q 001054 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~Ap 442 (1171)
.+++.|.+.+..++. +...+|.|++||||||++.+++..+... +..+|+++-.
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd 186 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIED 186 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcC
Confidence 367788888887665 6678999999999999999988776543 3346665443
No 212
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.93 E-value=0.048 Score=65.55 Aligned_cols=68 Identities=19% Similarity=0.270 Sum_probs=54.8
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHH-HHHHHHHHHHcCC-----------CcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQGQ-----------GQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~~~-----------~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
..++-|+.+|..+....=.++.|+-|+|||.. +.=++.++++.+. .++|++|||+..|+++.++..+.
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 56788999999888766678999999999974 4556666666522 47999999999999999987663
No 213
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=94.93 E-value=0.085 Score=65.95 Aligned_cols=64 Identities=16% Similarity=0.106 Sum_probs=52.0
Q ss_pred HHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 394 SQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 394 sQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.+.+++-..+.+..+++..|=|.|||+++..++..|+.....+|+++|+....+.++.+++...
T Consensus 176 ~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~ 239 (752)
T PHA03333 176 REIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETV 239 (752)
T ss_pred HHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHH
Confidence 4556666666789999999999999999987777776533469999999999999998887653
No 214
>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=94.92 E-value=0.035 Score=62.43 Aligned_cols=39 Identities=23% Similarity=0.319 Sum_probs=32.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1171)
..+++|.|+||||||+.+..++...++++. +++.++.-.
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 567999999999999999999988887754 888888653
No 215
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.88 E-value=0.054 Score=66.21 Aligned_cols=24 Identities=29% Similarity=0.436 Sum_probs=20.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
..|++||+||||||++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 37 SILLVGASGVGKTTCARIISLCLN 60 (491)
T ss_pred eEEEECCCCccHHHHHHHHHHHHc
Confidence 579999999999998877766654
No 216
>PRK06893 DNA replication initiation factor; Validated
Probab=94.88 E-value=0.074 Score=58.65 Aligned_cols=37 Identities=19% Similarity=0.235 Sum_probs=29.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
++..+|+||||||||+++..+...+.+.+. +++++..
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~-~~~y~~~ 75 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQR-TAIYIPL 75 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CeEEeeH
Confidence 456799999999999999999988887754 5655554
No 217
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.87 E-value=0.09 Score=64.95 Aligned_cols=58 Identities=19% Similarity=0.359 Sum_probs=43.8
Q ss_pred HHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 399 VKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 399 V~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+..+-.+.+.+|.|.-|+||||=+-..++..--...++|.++=|-..||-.++.|+.+
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 3444458899999999999999776555332112334699999999999999999875
No 218
>PRK10867 signal recognition particle protein; Provisional
Probab=94.84 E-value=0.052 Score=65.40 Aligned_cols=55 Identities=27% Similarity=0.395 Sum_probs=38.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEE-EEcCcHHH--HHHHHHHHHhcCCeEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVL-VCAPSNVA--VDQLAEKISATGLKVV 462 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rIL-V~ApSN~A--VD~L~eRL~~~glkVV 462 (1171)
+.++.|++|+|||||++.++.+|.+. +. +|+ |.+-+..+ ++++.......++.++
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 56789999999999999999998887 54 554 55555544 4456544444555544
No 219
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=94.83 E-value=0.05 Score=56.57 Aligned_cols=41 Identities=24% Similarity=0.436 Sum_probs=28.7
Q ss_pred HHHHHHHHHhhc------CCcEEEEcCCCChHhHHHHHHHHHHHHcC
Q 001054 393 ASQVFAVKSVLQ------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1171)
Q Consensus 393 esQ~~AV~~aL~------~~lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1171)
++|.+.+...+. .++.+|.|++|+|||+++.+++..+.+.+
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~ 52 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERG 52 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence 356666666661 46789999999999999999888887763
No 220
>PRK09183 transposase/IS protein; Provisional
Probab=94.81 E-value=0.063 Score=60.51 Aligned_cols=53 Identities=23% Similarity=0.344 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHh---hcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 388 LPELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 388 l~~LNesQ~~AV~~a---L~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
.+.+|..|...+... -....++|.||||||||+++..+...+...+. +|+++.
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 356788887777543 12456889999999999999998777666553 777664
No 221
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=94.81 E-value=0.0065 Score=77.38 Aligned_cols=64 Identities=33% Similarity=0.435 Sum_probs=53.1
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHH
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAE 452 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AVD~L~e 452 (1171)
+.-+++|..|...++...++++.|+||||||++++.++..+++. ...+|..++++++++....+
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 45578999999988889999999999999999999999888873 23478888888877766666
No 222
>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=94.80 E-value=0.052 Score=62.44 Aligned_cols=52 Identities=25% Similarity=0.365 Sum_probs=39.5
Q ss_pred CCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEc
Q 001054 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1171)
.+++.|.+.+..++. +...+|.|++|+||||++..++..+.+. +..+|+++-
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 366777788777765 5678999999999999999988777653 344666654
No 223
>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=94.80 E-value=0.068 Score=62.73 Aligned_cols=27 Identities=22% Similarity=0.420 Sum_probs=22.8
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
+.+.+|.|||||||||++..++..|-.
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 467899999999999998888776644
No 224
>PRK04328 hypothetical protein; Provisional
Probab=94.79 E-value=0.044 Score=61.29 Aligned_cols=54 Identities=24% Similarity=0.409 Sum_probs=41.3
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
..++||.|+||||||+.+..+++.-++.+. ++++++..... +.+.+++...+.+
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge-~~lyis~ee~~-~~i~~~~~~~g~d 76 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE-PGVYVALEEHP-VQVRRNMRQFGWD 76 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEEeeCCH-HHHHHHHHHcCCC
Confidence 567899999999999999999988777764 88888865544 4477777666543
No 225
>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=94.76 E-value=0.14 Score=65.11 Aligned_cols=62 Identities=21% Similarity=0.183 Sum_probs=42.2
Q ss_pred CHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 392 NesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.+-|..+.-..+ .+. +.+...|+|||.+++..++.....+ ..|+|+|||...|.+..+.+..
T Consensus 58 ~~vQlig~~~l~-~G~-Iaem~TGeGKTLva~lpa~l~aL~G-~~V~VvTpt~~LA~qdae~~~~ 119 (745)
T TIGR00963 58 FDVQLIGGIALH-KGK-IAEMKTGEGKTLTATLPAYLNALTG-KGVHVVTVNDYLAQRDAEWMGQ 119 (745)
T ss_pred cchHHhhhhhhc-CCc-eeeecCCCccHHHHHHHHHHHHHhC-CCEEEEcCCHHHHHHHHHHHHH
Confidence 345655554433 333 8899999999987654443222234 4899999999999888887654
No 226
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=94.73 E-value=0.32 Score=63.94 Aligned_cols=74 Identities=26% Similarity=0.354 Sum_probs=57.3
Q ss_pred CCCHHHHHHHHHhhc---C-Cc--EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHH----HHHHHHhcCC
Q 001054 390 ELNASQVFAVKSVLQ---R-PI--SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ----LAEKISATGL 459 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~---~-~l--sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~----L~eRL~~~gl 459 (1171)
+.+++|..||+.+.. + .+ -||+|--|=|||-++...+...+..+ ++|.|++||-..|.+ +.+|+....+
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 578999999998875 2 22 49999999999999988877666666 599999999999875 5566655555
Q ss_pred eEEEe
Q 001054 460 KVVRL 464 (1171)
Q Consensus 460 kVVRl 464 (1171)
+|-.+
T Consensus 673 ~I~~L 677 (1139)
T COG1197 673 RIEVL 677 (1139)
T ss_pred eEEEe
Confidence 55433
No 227
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.73 E-value=0.051 Score=59.80 Aligned_cols=55 Identities=31% Similarity=0.497 Sum_probs=43.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeE
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKV 461 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkV 461 (1171)
..+++|.|+||||||+.+..+++..++++ .++++++.... .+.+.+++...++.+
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g-~~~~y~~~e~~-~~~~~~~~~~~g~~~ 79 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQG-KKVYVITTENT-SKSYLKQMESVKIDI 79 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCC-CEEEEEEcCCC-HHHHHHHHHHCCCCh
Confidence 56789999999999999999988877765 48888888654 467777777766543
No 228
>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=0.11 Score=62.08 Aligned_cols=29 Identities=24% Similarity=0.267 Sum_probs=22.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHH-HHHcC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYH-MAKQG 433 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~-Llk~~ 433 (1171)
+-..++.||+|||||++..++..+ .+..+
T Consensus 209 ~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 209 NYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred CCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 456789999999999999887655 44443
No 229
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.71 E-value=0.1 Score=66.61 Aligned_cols=53 Identities=28% Similarity=0.356 Sum_probs=36.1
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHH-cCCCcEEEEcC-cHH--HHHHHHHHHHhcC
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAP-SNV--AVDQLAEKISATG 458 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~Ap-SN~--AVD~L~eRL~~~g 458 (1171)
.++++.||.|+|||||++.+...+.. .+..+|++++. +-. |++++..-....+
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 44457755543 444 5555554433333
No 230
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=94.65 E-value=0.13 Score=64.14 Aligned_cols=36 Identities=25% Similarity=0.133 Sum_probs=28.3
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1171)
+..+|.|++|||||+++.++...+.+. ...+|+.+.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit 351 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS 351 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence 347899999999999999999887764 334666665
No 231
>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=94.65 E-value=0.086 Score=66.04 Aligned_cols=48 Identities=25% Similarity=0.458 Sum_probs=41.3
Q ss_pred hcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 403 LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 403 L~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
|.-...||.|-+|+||||.|..+...| ..||+..|..|+.||..+|..
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 444568999999999999988877654 789999999999999999974
No 232
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.65 E-value=0.021 Score=65.14 Aligned_cols=26 Identities=38% Similarity=0.732 Sum_probs=23.0
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
+++.|++||||||||+...+++..|.
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLS 202 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLS 202 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhhe
Confidence 78999999999999999888877664
No 233
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.64 E-value=0.049 Score=57.60 Aligned_cols=52 Identities=31% Similarity=0.520 Sum_probs=38.8
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~---------~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
..+++|.|+||+|||+++..++..++.. ...+||++..-.. ..++.+|+...
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 5689999999999999999999988852 3458999988776 55677777653
No 234
>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=94.60 E-value=0.082 Score=63.70 Aligned_cols=57 Identities=32% Similarity=0.448 Sum_probs=37.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH-cCCCcEEEEcCcHH--HHHHHHHHHHhcCCeEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNV--AVDQLAEKISATGLKVVR 463 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk-~~~~rILV~ApSN~--AVD~L~eRL~~~glkVVR 463 (1171)
+.++.|++|+|||||++.++.++.. .+..-.||.+-+.+ |.++|.......++.+..
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 5789999999999999999998864 45433445555554 345555444445555443
No 235
>PF05729 NACHT: NACHT domain
Probab=94.52 E-value=0.033 Score=56.60 Aligned_cols=28 Identities=25% Similarity=0.501 Sum_probs=24.9
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcC
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1171)
++.+|.|+||+|||+++..++..+....
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 236
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.50 E-value=4.1 Score=49.50 Aligned_cols=77 Identities=22% Similarity=0.310 Sum_probs=51.5
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHH-HHHHHHHc-----CCCc-EEEEcCcHHHHHHHHHHHHh----cC
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-----GQGQ-VLVCAPSNVAVDQLAEKISA----TG 458 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~-----~~~r-ILV~ApSN~AVD~L~eRL~~----~g 458 (1171)
.-++.|-+||-.+|...-++=.+--|+|||-..+- .+.++..+ +... -|+|+||...+-++..-..+ ++
T Consensus 245 kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~K~yg 324 (731)
T KOG0339|consen 245 KPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFGKAYG 324 (731)
T ss_pred cCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhhhhcc
Confidence 34678888988888766666677889999976543 23343332 3334 47889999998888655443 46
Q ss_pred CeEEEecc
Q 001054 459 LKVVRLCA 466 (1171)
Q Consensus 459 lkVVRlg~ 466 (1171)
+.+|.+..
T Consensus 325 l~~v~~yg 332 (731)
T KOG0339|consen 325 LRVVAVYG 332 (731)
T ss_pred ceEEEeec
Confidence 66666543
No 237
>PRK09694 helicase Cas3; Provisional
Probab=94.45 E-value=0.11 Score=67.54 Aligned_cols=67 Identities=19% Similarity=0.371 Sum_probs=55.8
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
..++-|..+.......++++|.+|-|+|||..+...+..|+.. ...+|+++.||...++.|.+|+.+
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 5688998775544457889999999999999988877777665 346999999999999999999875
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=94.42 E-value=0.064 Score=60.14 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=40.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
..+++|.|+||+|||+++..++..++.....+|++++.-. ..+++..|+..
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
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.41 E-value=0.054 Score=60.68 Aligned_cols=43 Identities=35% Similarity=0.655 Sum_probs=36.6
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1171)
..++||.|+||||||+.+...+...++.+. +++.++..-...+
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge-~vlyvs~~e~~~~ 65 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREGE-PVLYVSTEESPEE 65 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcCC-cEEEEEecCCHHH
Confidence 578999999999999999999999998854 8888887665554
No 240
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=94.41 E-value=0.078 Score=72.01 Aligned_cols=47 Identities=17% Similarity=0.399 Sum_probs=36.2
Q ss_pred EEcCCCChHhHHHHH-HHHHHHHcC-----------CCcEEEEcCcHHHHHHHHHHHHh
Q 001054 410 IQGPPGTGKTVTSAA-IVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 410 IqGPPGTGKTtTla~-iI~~Llk~~-----------~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
|.+|.|||||.+..- ++..+++.. ..++|+++|++.-+.++.++|..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 568999999988654 566665431 34799999999999988887753
No 241
>PRK10436 hypothetical protein; Provisional
Probab=94.41 E-value=0.054 Score=65.83 Aligned_cols=41 Identities=29% Similarity=0.510 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHhhc--CCcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
.|.+.|.+.++.++. .++.||.||.|+|||||+..++..+.
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~ 243 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLN 243 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhC
Confidence 467888888887764 68999999999999999988877653
No 242
>PRK06851 hypothetical protein; Provisional
Probab=94.41 E-value=0.03 Score=65.95 Aligned_cols=48 Identities=27% Similarity=0.441 Sum_probs=40.2
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCC-CcEEEEcCcHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAE 452 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~-~rILV~ApSN~AVD~L~e 452 (1171)
..+++|.|+|||||||++..++..+.+.+. -.++.|+..|.++|-|.-
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvii 78 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVII 78 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEEe
Confidence 678999999999999999999998887643 247889999988886543
No 243
>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=94.39 E-value=0.054 Score=66.36 Aligned_cols=55 Identities=18% Similarity=0.237 Sum_probs=43.2
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
...+||.|+||||||+.+..+++.-+++...++|.+++- ...+++.+.....|+.
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 567899999999999999999887666633588888875 5667788777776653
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=94.39 E-value=0.052 Score=66.46 Aligned_cols=54 Identities=22% Similarity=0.311 Sum_probs=43.8
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
..++||.||||||||+++..+++..++++. ++|++++ -...++|.+|....|++
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 457899999999999999999999988764 8888885 45566788887776653
No 245
>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=94.37 E-value=0.048 Score=66.74 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHhhc--CCcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
.++++|.+.++.++. .++++|.||.|||||||+..++..+.
T Consensus 225 g~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~ 267 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLN 267 (486)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccC
Confidence 468899999988775 57899999999999999988776653
No 246
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.36 E-value=0.055 Score=67.73 Aligned_cols=25 Identities=24% Similarity=0.361 Sum_probs=21.0
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
..+|+.||||||||+++..++..|.
T Consensus 38 HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 38 HAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhC
Confidence 3569999999999999888877764
No 247
>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=94.33 E-value=0.035 Score=54.12 Aligned_cols=23 Identities=30% Similarity=0.761 Sum_probs=19.6
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
+.+|.|+|||||||++..+...+
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 36899999999999988887665
No 248
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.33 E-value=0.24 Score=59.02 Aligned_cols=56 Identities=29% Similarity=0.469 Sum_probs=39.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcH--HHHHHHHHHHHhcCCeEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVV 462 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN--~AVD~L~eRL~~~glkVV 462 (1171)
+.++.|-=|+|||||+..++++|.+.+.+..||+|-+- .|.++|..--.+.++.+.
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 35678999999999999999999997664455565554 556666554444455443
No 249
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=94.32 E-value=0.16 Score=64.20 Aligned_cols=47 Identities=30% Similarity=0.341 Sum_probs=35.3
Q ss_pred EEEEcCC-----CChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001054 408 SLIQGPP-----GTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1171)
Q Consensus 408 sLIqGPP-----GTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1171)
.|.+|-= |.|||.|++..++..+..+. .|.|+|+|.-.|.+=.+.+.
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 99999999888876666554
No 250
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=94.31 E-value=0.12 Score=56.59 Aligned_cols=51 Identities=18% Similarity=0.208 Sum_probs=36.4
Q ss_pred CCCHHHHHHHHHhhc----CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
.-|.....+++.... ...++|.|++|||||+++..+..++...+. ++.++.
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 446666666666543 357899999999999999988887766543 444443
No 251
>PRK06921 hypothetical protein; Provisional
Probab=94.22 E-value=0.13 Score=58.36 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=30.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
....+++|+||||||+++.+++..+++.....|+.++.
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 35689999999999999999999988762347777664
No 252
>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=94.11 E-value=0.051 Score=63.45 Aligned_cols=39 Identities=23% Similarity=0.364 Sum_probs=30.1
Q ss_pred HHHHHHHHHhhc-------CCcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 393 esQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
++|.+.+...+. .+..+|.||||||||+++..++.++..
T Consensus 21 e~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 21 DEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred HHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 566666666553 256899999999999999998887754
No 253
>PRK08727 hypothetical protein; Validated
Probab=94.11 E-value=0.23 Score=54.97 Aligned_cols=35 Identities=26% Similarity=0.358 Sum_probs=29.2
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
...+|.|++|||||+++.++...+.+.+. +++++.
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 45899999999999999999888877654 776665
No 254
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.10 E-value=0.1 Score=60.94 Aligned_cols=36 Identities=31% Similarity=0.412 Sum_probs=30.5
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
....+|.|++|||||+++.+++..++..+. +|+.++
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 356899999999999999999999988764 777665
No 255
>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=94.09 E-value=0.12 Score=56.05 Aligned_cols=50 Identities=18% Similarity=0.249 Sum_probs=34.0
Q ss_pred CHHHHHHHHHhhc---CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 392 NASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 392 NesQ~~AV~~aL~---~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
|..-.++++..+. ....+|.|+||||||+++..+...+...+. +++.+.-
T Consensus 22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~-~~~~i~~ 74 (226)
T TIGR03420 22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGK-SAIYLPL 74 (226)
T ss_pred cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCC-cEEEEeH
Confidence 4444455555432 457899999999999999988877765443 5555543
No 256
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=94.04 E-value=0.075 Score=57.20 Aligned_cols=39 Identities=33% Similarity=0.568 Sum_probs=31.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1171)
..+++|.|+||||||+.+..++....+.+. +++.++..+
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 457899999999999999999988877754 666666543
No 257
>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=0.085 Score=57.70 Aligned_cols=53 Identities=21% Similarity=0.409 Sum_probs=38.1
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1171)
..+++|.|+||||||+++..++...++.+. ++++++. ...++.+.++....++
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 457899999999999999998877776554 6666665 3334566666555443
No 258
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.95 E-value=0.077 Score=64.21 Aligned_cols=42 Identities=26% Similarity=0.430 Sum_probs=36.1
Q ss_pred CCHHHHHHHHHhhc--CCcEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 391 LNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 391 LNesQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
+++.|.+.+..++. .++.||.||-|||||||+-..+..+...
T Consensus 242 ~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~ 285 (500)
T COG2804 242 MSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTP 285 (500)
T ss_pred CCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence 48899999999887 5789999999999999999888776543
No 259
>PLN03025 replication factor C subunit; Provisional
Probab=93.93 E-value=0.071 Score=61.68 Aligned_cols=40 Identities=30% Similarity=0.532 Sum_probs=28.7
Q ss_pred CHHHHHHHHHhhcC---CcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 392 NesQ~~AV~~aL~~---~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
++...+.++.++.. +..|++||||||||+++..++..+..
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 260
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.93 E-value=0.19 Score=58.76 Aligned_cols=56 Identities=30% Similarity=0.480 Sum_probs=43.5
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHH--HHHHHHHHHhcCCeE
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVA--VDQLAEKISATGLKV 461 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~A--VD~L~eRL~~~glkV 461 (1171)
.+.++.|--|+|||||+..+++++-+++.+..||||.|=+| -|+|..--.+.++.+
T Consensus 102 sVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ 159 (483)
T KOG0780|consen 102 SVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPF 159 (483)
T ss_pred cEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCee
Confidence 36778999999999999999999999988788999988765 466655444444443
No 261
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=93.91 E-value=0.14 Score=61.26 Aligned_cols=70 Identities=20% Similarity=0.241 Sum_probs=53.4
Q ss_pred CCCCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHH-HHHHHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHH
Q 001054 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKIS 455 (1171)
Q Consensus 386 p~l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk~-----~~~rILV~ApSN~AVD~L~eRL~ 455 (1171)
..+..+++-|...+.-+|...=+|..+--|||||.. +.-.|..+++. +.-.+|||+||...|-++..-+.
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 445689999999999888877789999999999974 34445555554 23369999999998887766543
No 262
>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=93.88 E-value=0.091 Score=57.76 Aligned_cols=50 Identities=24% Similarity=0.284 Sum_probs=39.6
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~ 455 (1171)
..+++|.|+||+|||+++..++..++.....+||+++.-.... ++.+|+.
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 4589999999999999999999998887445999998766444 5555553
No 263
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=93.83 E-value=0.1 Score=64.53 Aligned_cols=25 Identities=24% Similarity=0.336 Sum_probs=21.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.+|+.||+|||||+++..++..|..
T Consensus 38 ayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 38 AYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred eEEEECCCCCcHHHHHHHHHHHhcC
Confidence 4699999999999999988887764
No 264
>PRK14873 primosome assembly protein PriA; Provisional
Probab=93.82 E-value=0.2 Score=63.61 Aligned_cols=48 Identities=27% Similarity=0.333 Sum_probs=42.0
Q ss_pred EEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
++.+.+|+|||.+...+|...+..++ .+||+.|.-..+.++.+|+.+.
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 265
>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=93.81 E-value=0.074 Score=57.70 Aligned_cols=36 Identities=33% Similarity=0.546 Sum_probs=30.2
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
..+++|.|+||||||+++..++..+.+.+. ++++++
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 777764
No 266
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.76 E-value=0.11 Score=61.52 Aligned_cols=56 Identities=23% Similarity=0.337 Sum_probs=40.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcE-EEEcCcH--HHHHHHHHHHHhcCCeE
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKV 461 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rI-LV~ApSN--~AVD~L~eRL~~~glkV 461 (1171)
..+.+|.||.|+|||||++.+...+.+.+. +| +|++-+- .|++++.......++.+
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~-~V~lItaDtyR~gAveQLk~yae~lgvpv 264 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNR-TVGFITTDTFRSGAVEQFQGYADKLDVEL 264 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCCccCccHHHHHHHHhhcCCCCE
Confidence 457889999999999999999988877665 55 4555555 45777777655555443
No 267
>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=93.74 E-value=0.083 Score=65.95 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHhhc--CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~--~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+.+.|.+.+..++. .++.||.||.|+|||||+..++..+
T Consensus 299 g~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 467888888888765 6899999999999999998888765
No 268
>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=93.69 E-value=0.055 Score=60.72 Aligned_cols=25 Identities=28% Similarity=0.454 Sum_probs=21.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
..++.||||||||+++..++..+.+
T Consensus 44 ~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 44 HMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 4689999999999998888776644
No 269
>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=93.69 E-value=0.079 Score=53.18 Aligned_cols=22 Identities=41% Similarity=0.732 Sum_probs=19.6
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
++|.||||||||+++..++..+
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 5899999999999988888766
No 270
>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=93.63 E-value=0.12 Score=54.62 Aligned_cols=57 Identities=30% Similarity=0.440 Sum_probs=35.8
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC--cHHHHHHHHHHHHhcCCeEEEecc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP--SNVAVDQLAEKISATGLKVVRLCA 466 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap--SN~AVD~L~eRL~~~glkVVRlg~ 466 (1171)
|+++|.|..|+||||++..++. ......++.|+.. -...+| .+.+.+.+..++.+.+
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 5789999999999999999887 3334457777653 222222 2334455667777654
No 271
>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=93.62 E-value=0.076 Score=59.79 Aligned_cols=25 Identities=28% Similarity=0.416 Sum_probs=20.8
Q ss_pred cCCcEEEEcCCCChHhHHHHHHHHH
Q 001054 404 QRPISLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~ 428 (1171)
.+...+|.||||||||+++..+...
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~~ 44 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVARK 44 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 3667899999999999998877653
No 272
>PHA00350 putative assembly protein
Probab=93.62 E-value=0.11 Score=62.00 Aligned_cols=46 Identities=20% Similarity=0.325 Sum_probs=28.7
Q ss_pred cEEEEcCCCChHhHHHHH-HHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~-iI~~Llk~~~~rILV~ApSN~AVD~L~eRL 454 (1171)
+.+|+|.||+|||..++. .|...++.+ |++++--...-.+.+.+++
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk~G--R~V~TNI~Gl~le~i~~~~ 49 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALKDG--RKVITNIPGLNLDVFEKVF 49 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHHCC--CEEEECCCCCCHHHHHhhc
Confidence 579999999999988876 455556655 5555422222334444433
No 273
>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=93.59 E-value=0.046 Score=54.74 Aligned_cols=22 Identities=27% Similarity=0.691 Sum_probs=18.3
Q ss_pred cEEEEcCCCChHhHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~ 428 (1171)
+++|.|+|||||||++..+...
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 4789999999999987776644
No 274
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=93.58 E-value=0.13 Score=60.68 Aligned_cols=41 Identities=32% Similarity=0.432 Sum_probs=29.8
Q ss_pred HHHHHHHHHhhc-------CCcEEEEcCCCChHhHHHHHHHHHHHHcC
Q 001054 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1171)
Q Consensus 393 esQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1171)
+.+.+.+...+. .+..+|.||||||||+++..++..+....
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 24579999999999999999988876543
No 275
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=93.57 E-value=0.085 Score=61.52 Aligned_cols=26 Identities=23% Similarity=0.451 Sum_probs=22.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
-.|+.||+|+|||+++..++..|+-.
T Consensus 24 a~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 24 AYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred eeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 47899999999999999998887754
No 276
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=93.57 E-value=0.19 Score=62.68 Aligned_cols=57 Identities=16% Similarity=0.103 Sum_probs=45.5
Q ss_pred HhhcCCcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 401 SVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 401 ~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
....++.+++.-|==.|||.+++.+|..++.. ...+|+++|+..+.++.+.++|...
T Consensus 250 ~~fkqk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~ 307 (738)
T PHA03368 250 RHFRQRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGAR 307 (738)
T ss_pred HHhhccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHH
Confidence 34457788899999999999988776655544 4569999999999999888887653
No 277
>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=93.57 E-value=0.094 Score=60.92 Aligned_cols=40 Identities=20% Similarity=0.259 Sum_probs=32.1
Q ss_pred CCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.++++-..+|...+. ++..+|.|+||||||+++..++..|
T Consensus 48 ~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 48 LFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 467777777777664 6678999999999999988877665
No 278
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.54 E-value=0.16 Score=60.80 Aligned_cols=37 Identities=22% Similarity=0.319 Sum_probs=27.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
.+.+|.||+|+|||||++.++..+......+|++++.
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~ 260 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTT 260 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecc
Confidence 4578999999999999999997664333346655543
No 279
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=93.54 E-value=0.41 Score=60.88 Aligned_cols=67 Identities=19% Similarity=0.237 Sum_probs=50.6
Q ss_pred CCCHHHHHHHHHhh---c--CCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHh
Q 001054 390 ELNASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL---~--~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.+++.|.+|+.... . ....+|++.=|=|||..+--.++.+.... ..+|+|+|||-.+++.|.+-+.+
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 46888988877643 2 34789999999999998764444444443 45999999999999999886543
No 280
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=93.52 E-value=0.21 Score=60.55 Aligned_cols=61 Identities=25% Similarity=0.287 Sum_probs=51.2
Q ss_pred HHHHHHHHHhhc-----CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 393 ASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 393 esQ~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
-+|-+||+.... ...-.+.|.-|||||.|++.+|..+ +.+.||+|++...|.+|..-+++.
T Consensus 15 GDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~----~rPtLV~AhNKTLAaQLy~Efk~f 80 (663)
T COG0556 15 GDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV----QRPTLVLAHNKTLAAQLYSEFKEF 80 (663)
T ss_pred CCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh----CCCeEEEecchhHHHHHHHHHHHh
Confidence 468888888764 3457899999999999999998765 348899999999999999988875
No 281
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=93.52 E-value=0.12 Score=47.34 Aligned_cols=33 Identities=33% Similarity=0.561 Sum_probs=28.3
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
.+|.|.+|+|||+++..++..|.+.+. +++++.
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 578899999999999999999887554 888777
No 282
>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=93.52 E-value=0.094 Score=55.87 Aligned_cols=40 Identities=25% Similarity=0.300 Sum_probs=33.4
Q ss_pred CCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+++.|.+.++.++. ...++|.||+|+||||++..++..+
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 578899999988876 5678999999999999998766543
No 283
>KOG4284 consensus DEAD box protein [Transcription]
Probab=93.47 E-value=0.052 Score=66.34 Aligned_cols=68 Identities=18% Similarity=0.284 Sum_probs=50.7
Q ss_pred CHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHH-HHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001054 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY-HMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (1171)
Q Consensus 392 NesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~-~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1171)
++-|.+||-.++..==.+||+-.|||||-+-+.++. .|.-+ ....++|++||..-+-+|.+-+...+.
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 567999998888765679999999999976544433 23222 345899999999988888887766544
No 284
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=93.45 E-value=0.098 Score=61.60 Aligned_cols=39 Identities=18% Similarity=0.356 Sum_probs=27.8
Q ss_pred CEEEEEcCCCCCccc--ccccccccCceEEEeCCccCCCcee
Q 001054 553 RQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVI 592 (1171)
Q Consensus 553 D~VIIDEASQasEpe--~LIpL~~~~kkLILVGD~~QLpPvv 592 (1171)
.+++|||.-..+..+ .++|.+ ....+||||-.-.=|...
T Consensus 106 tiLflDEIHRfnK~QQD~lLp~v-E~G~iilIGATTENPsF~ 146 (436)
T COG2256 106 TILFLDEIHRFNKAQQDALLPHV-ENGTIILIGATTENPSFE 146 (436)
T ss_pred eEEEEehhhhcChhhhhhhhhhh-cCCeEEEEeccCCCCCee
Confidence 367889988777744 567765 356888999887766653
No 285
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.44 E-value=0.14 Score=64.01 Aligned_cols=38 Identities=18% Similarity=0.249 Sum_probs=26.5
Q ss_pred HHHHHHHHhhc----CCcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 394 SQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 394 sQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.-.+.+..++. ...+|+.||+|||||+++..++..|..
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 33344444443 234689999999999999888877653
No 286
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.43 E-value=0.14 Score=62.94 Aligned_cols=52 Identities=23% Similarity=0.421 Sum_probs=39.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH-HHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM-AKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L-lk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+.+.+|.|-+|+||||-|=..+..- ...++.+|-++-|-..||-.++.|+.+
T Consensus 280 ~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~ 332 (902)
T KOG0923|consen 280 HQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAE 332 (902)
T ss_pred CcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHH
Confidence 7889999999999999765444321 112343688889999999999999875
No 287
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=93.37 E-value=0.2 Score=54.14 Aligned_cols=59 Identities=17% Similarity=0.206 Sum_probs=42.5
Q ss_pred cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHH----HHHHHHHHHhcCCeEEEec
Q 001054 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVA----VDQLAEKISATGLKVVRLC 465 (1171)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~A----VD~L~eRL~~~glkVVRlg 465 (1171)
..+..+|.+++|+|||+.+..++...+..+. +|+++=|-.-. =..+.+++ .++++.+.+
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~-~V~ivQFlKg~~~~GE~~~l~~l--~~v~~~~~g 83 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGK-KVGVVQFIKGAWSTGERNLLEFG--GGVEFHVMG 83 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEEecCCCccCHHHHHhcC--CCcEEEECC
Confidence 4788999999999999999999988888776 89988764422 22333333 246666654
No 288
>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=93.33 E-value=0.078 Score=62.14 Aligned_cols=37 Identities=30% Similarity=0.617 Sum_probs=29.0
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
.++.+|.||+|+|||||+..++..+.+....+|+.+-
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 289
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=93.31 E-value=0.1 Score=56.89 Aligned_cols=38 Identities=34% Similarity=0.569 Sum_probs=30.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1171)
..+++|.|+||||||+++..++...++.+. +++++..-
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 457899999999999999999988887654 66666544
No 290
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=93.25 E-value=0.18 Score=59.73 Aligned_cols=26 Identities=27% Similarity=0.414 Sum_probs=23.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
-.|+.||+|+|||+++..++..|+-.
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 291
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=93.24 E-value=0.16 Score=59.01 Aligned_cols=44 Identities=14% Similarity=0.205 Sum_probs=30.7
Q ss_pred CCCEEEEEcCCCCCccc--ccccccc---cCceEEEeCC-ccCCCceeec
Q 001054 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGD-HCQLGPVIMC 594 (1171)
Q Consensus 551 kFD~VIIDEASQasEpe--~LIpL~~---~~kkLILVGD-~~QLpPvv~s 594 (1171)
.+++||||||..+++.. .|+..+- ....+||+.+ +.+|.|+++|
T Consensus 113 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS 162 (319)
T PRK08769 113 IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRS 162 (319)
T ss_pred CcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHh
Confidence 58899999999998733 3444332 2346888887 5678888764
No 292
>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=93.21 E-value=0.058 Score=59.47 Aligned_cols=22 Identities=41% Similarity=0.599 Sum_probs=16.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVY 427 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~ 427 (1171)
+.+|++||||+||||++.-++.
T Consensus 51 ~h~lf~GPPG~GKTTLA~IIA~ 72 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARIIAN 72 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHHHH
T ss_pred ceEEEECCCccchhHHHHHHHh
Confidence 3579999999999886554443
No 293
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.20 E-value=0.45 Score=54.16 Aligned_cols=54 Identities=24% Similarity=0.392 Sum_probs=37.6
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC-cH--HHHHHHHHHHHhcCCe
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP-SN--VAVDQLAEKISATGLK 460 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap-SN--~AVD~L~eRL~~~glk 460 (1171)
...++.|++|+|||+++..+...+...+. ++.+++. +. .+++++.......++.
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 294
>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=93.19 E-value=0.17 Score=59.96 Aligned_cols=36 Identities=25% Similarity=0.423 Sum_probs=28.8
Q ss_pred cCCcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEE
Q 001054 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLV 439 (1171)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV 439 (1171)
..+++||.||.||||||++..++.++.+.. ..+|+.
T Consensus 148 ~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 148 AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 378899999999999999999998887643 335544
No 295
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=93.05 E-value=0.17 Score=59.06 Aligned_cols=27 Identities=26% Similarity=0.295 Sum_probs=22.7
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
...|+.||+|+|||+++..++..++-.
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 357999999999999999888877643
No 296
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.00 E-value=0.33 Score=59.42 Aligned_cols=70 Identities=21% Similarity=0.189 Sum_probs=51.7
Q ss_pred CCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHH-HHHHHHHHHH-c-----C-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAK-Q-----G-QGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtT-la~iI~~Llk-~-----~-~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
...+++-|....-.++...=.+..+--|||||.- +.=+|.+|.+ + + ...+||++||...|.++.+-..+.
T Consensus 111 ~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 111 FEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 3467888999988888877678888899999953 3334444444 1 1 237999999999999998876654
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=92.92 E-value=0.099 Score=58.75 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=32.7
Q ss_pred HHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 394 sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
...+.+..++. ....+|.|++||||||++..++..+-.. ..+|+++-
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 6789999999999999998888655443 34666654
No 298
>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=92.92 E-value=0.087 Score=51.33 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=19.5
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+|.|+|||||||++.++...+
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 3799999999999998888776
No 299
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=92.84 E-value=0.14 Score=59.01 Aligned_cols=41 Identities=29% Similarity=0.497 Sum_probs=29.6
Q ss_pred CHHHHHHHHHhhcC---CcEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 392 NesQ~~AV~~aL~~---~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
++...+.+..++.. +..+|.||||||||+++..++..+...
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
>PRK11823 DNA repair protein RadA; Provisional
Probab=92.80 E-value=0.17 Score=61.52 Aligned_cols=53 Identities=28% Similarity=0.486 Sum_probs=40.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~gl 459 (1171)
..+++|.|+||+|||+++..++..+.+.+ .++|.++.-. ..+++..|....+.
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 45789999999999999999998887654 4888888644 44567766655443
No 301
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.79 E-value=0.15 Score=62.84 Aligned_cols=54 Identities=26% Similarity=0.409 Sum_probs=43.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
..+++|.|+||||||+.+..++...++.+. +++++++... .+.+.+++...|++
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 467899999999999999999988887765 8888887664 66777777666553
No 302
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=92.72 E-value=0.16 Score=51.39 Aligned_cols=29 Identities=38% Similarity=0.596 Sum_probs=23.9
Q ss_pred CCcE-EEEcCCCChHhHHHHHHHHHHHHcC
Q 001054 405 RPIS-LIQGPPGTGKTVTSAAIVYHMAKQG 433 (1171)
Q Consensus 405 ~~ls-LIqGPPGTGKTtTla~iI~~Llk~~ 433 (1171)
++++ ...|++|||||.+...|+.+|.+.+
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 3444 3799999999999999999988764
No 303
>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=92.71 E-value=0.14 Score=58.46 Aligned_cols=23 Identities=43% Similarity=0.664 Sum_probs=19.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..+|.||||||||+++..+...+
T Consensus 32 ~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 32 HLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 47999999999999888776543
No 304
>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=92.70 E-value=0.13 Score=54.38 Aligned_cols=46 Identities=26% Similarity=0.359 Sum_probs=35.4
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+++|.||+|||||+.+..++.. . ..+++.++-....-+++.+|+.+
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~-~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---L-GGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---c-CCCeEEEEccCcCCHHHHHHHHH
Confidence 4789999999999998877654 2 34788877766666678888765
No 305
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=92.68 E-value=0.063 Score=63.97 Aligned_cols=23 Identities=43% Similarity=0.616 Sum_probs=20.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
=+|+.||||||||+.|++++.+|
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred cceeeCCCCCCHHHHHHHHHhhc
Confidence 37999999999999999998776
No 306
>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=92.68 E-value=0.19 Score=58.43 Aligned_cols=43 Identities=21% Similarity=0.221 Sum_probs=33.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD 448 (1171)
..+++|.||||||||+++..++....+.+. +++++..-+..-.
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 357999999999999999999988887754 7777665544333
No 307
>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=92.57 E-value=0.1 Score=59.56 Aligned_cols=26 Identities=27% Similarity=0.400 Sum_probs=21.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
..+|.||||||||+++..+...+.+.
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~ 85 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRL 85 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 47899999999999988877777654
No 308
>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=92.54 E-value=0.56 Score=51.56 Aligned_cols=50 Identities=28% Similarity=0.301 Sum_probs=34.5
Q ss_pred CHHHHHHHHHhhcC-----CcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEc
Q 001054 392 NASQVFAVKSVLQR-----PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1171)
Q Consensus 392 NesQ~~AV~~aL~~-----~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1171)
|..=..|++.+... ...+|+||+|+|||+++.++...+.+. +..+|+.+.
T Consensus 16 N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 16 NELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp THHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred HHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 44444455544431 357899999999999999999888775 445777665
No 309
>PRK05642 DNA replication initiation factor; Validated
Probab=92.44 E-value=0.16 Score=56.27 Aligned_cols=35 Identities=14% Similarity=0.293 Sum_probs=27.6
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
+..+|+|++|||||+.+..+..++.+.+ .+++++.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~-~~v~y~~ 80 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRG-EPAVYLP 80 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEee
Confidence 4678999999999999888877776554 3676655
No 310
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.37 E-value=1.1 Score=53.84 Aligned_cols=69 Identities=17% Similarity=0.319 Sum_probs=51.8
Q ss_pred CCCCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHH-HHHHHHHc----CCC--cEEEEcCcHHHHHHHHHHHH
Q 001054 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ----GQG--QVLVCAPSNVAVDQLAEKIS 455 (1171)
Q Consensus 387 ~l~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~-iI~~Llk~----~~~--rILV~ApSN~AVD~L~eRL~ 455 (1171)
.+...++-|..+|-..+.+.=+++.++-|||||..-+. ++..+.++ .+. --||++||...+-+|.+-+.
T Consensus 25 GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~ 100 (567)
T KOG0345|consen 25 GFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQ 100 (567)
T ss_pred CCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHH
Confidence 34578999999999999988889999999999975433 33333333 222 36999999999988877553
No 311
>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=92.37 E-value=0.28 Score=57.10 Aligned_cols=40 Identities=25% Similarity=0.293 Sum_probs=32.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~ 445 (1171)
..++.|.||||||||+++..++....+.+. +++++..-+.
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 7777765443
No 312
>PRK08939 primosomal protein DnaI; Reviewed
Probab=92.35 E-value=0.14 Score=59.23 Aligned_cols=35 Identities=29% Similarity=0.254 Sum_probs=29.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
-.+|.|++|||||+++.+++..+++.+. +++++..
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 4789999999999999999999987765 5655543
No 313
>PRK06851 hypothetical protein; Provisional
Probab=92.29 E-value=0.15 Score=60.14 Aligned_cols=44 Identities=25% Similarity=0.432 Sum_probs=32.3
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCC-cEEEEcCcHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG-QVLVCAPSNVAVD 448 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~-rILV~ApSN~AVD 448 (1171)
.+.++|.|+|||||||++..++..+.+++.. -+.-|+.-+...|
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 5779999999999999999999998887652 2333444443333
No 314
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.28 E-value=0.2 Score=60.60 Aligned_cols=39 Identities=26% Similarity=0.516 Sum_probs=28.0
Q ss_pred CHHHHHHHHHhh-cCCcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 392 NASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 392 NesQ~~AV~~aL-~~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
.+...+.+..++ ..+..++.||||||||+++..+...+.
T Consensus 180 ~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 180 PETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred CHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 444444544444 477889999999999998877766553
No 315
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.28 E-value=0.18 Score=62.06 Aligned_cols=55 Identities=16% Similarity=0.257 Sum_probs=43.1
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glk 460 (1171)
..++||.|+||||||+.+..+++..+++...++|.++... ..+++.+++...+++
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 5678999999999999999999887776345888887655 456777777766654
No 316
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=92.26 E-value=0.42 Score=58.01 Aligned_cols=37 Identities=24% Similarity=0.227 Sum_probs=29.0
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEcC
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~Ap 442 (1171)
+..+|.||||||||+++..+...+.+.. ..+|+.+..
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 346666543
No 317
>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=92.20 E-value=0.22 Score=44.60 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=19.4
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
..|.|+||+||||++..+...|
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999998888777
No 318
>PF12846 AAA_10: AAA-like domain
Probab=92.18 E-value=0.18 Score=56.34 Aligned_cols=57 Identities=25% Similarity=0.423 Sum_probs=42.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~ 466 (1171)
++.++|.|++|+|||+++..++.+++..+. .|+++=+...-.+ +++. .+..++.+..
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~g~-~~~i~D~~g~~~~-~~~~---~~~~~i~~~~ 57 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRRGP-RVVIFDPKGDYSP-LARA---LGGQYIDIDP 57 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHcCC-CEEEEcCCchHHH-HHHh---cCceEEEeec
Confidence 356899999999999999999999988875 8888877755554 3222 4555665543
No 319
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=92.15 E-value=0.32 Score=56.48 Aligned_cols=27 Identities=26% Similarity=0.576 Sum_probs=23.5
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
+..|+.||+|+||++++..++..|+-.
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 320
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=92.11 E-value=0.55 Score=52.55 Aligned_cols=71 Identities=20% Similarity=0.236 Sum_probs=44.6
Q ss_pred HHHHHHHHHhh-------cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcH-HHHHHHHHHHHhcCCeEEEe
Q 001054 393 ASQVFAVKSVL-------QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN-VAVDQLAEKISATGLKVVRL 464 (1171)
Q Consensus 393 esQ~~AV~~aL-------~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN-~AVD~L~eRL~~~glkVVRl 464 (1171)
+.|+++|..-. ....+|++|..|||||+++.+++..+...+- |++=+.... .....|.+.|.....+.+-+
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GL-RlIev~k~~L~~l~~l~~~l~~~~~kFIlf 111 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGL-RLIEVSKEDLGDLPELLDLLRDRPYKFILF 111 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCc-eEEEECHHHhccHHHHHHHHhcCCCCEEEE
Confidence 45666654422 1345899999999999999998888777663 555444333 23345555555444454444
No 321
>PRK04195 replication factor C large subunit; Provisional
Probab=92.06 E-value=0.17 Score=62.05 Aligned_cols=38 Identities=26% Similarity=0.454 Sum_probs=27.3
Q ss_pred CHHHHHHHHHhhc-------CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 392 NesQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
++.+.+.+...+. .+..||.||||||||+++..++..+
T Consensus 19 ~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 19 NEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 4555555554442 3568999999999999988776654
No 322
>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=92.04 E-value=0.25 Score=58.42 Aligned_cols=29 Identities=38% Similarity=0.578 Sum_probs=25.4
Q ss_pred cCCcEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
..++++|.||.|+|||||+..++..+...
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~ 161 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEA 161 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence 37899999999999999999988877654
No 323
>PRK13768 GTPase; Provisional
Probab=91.99 E-value=0.18 Score=56.58 Aligned_cols=34 Identities=29% Similarity=0.488 Sum_probs=28.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
+.+|.|++|+||||++..++..+...+. +|+++.
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 5689999999999999999988877654 777764
No 324
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=91.97 E-value=0.32 Score=55.82 Aligned_cols=39 Identities=31% Similarity=0.453 Sum_probs=27.3
Q ss_pred CCHHHHHHHHHhhcC----CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 391 LNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 391 LNesQ~~AV~~aL~~----~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+++.++.+...+.+ .+.++.||||||||+++..+...+
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV 67 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence 455656666655542 356679999999999988776654
No 325
>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=91.93 E-value=0.16 Score=53.74 Aligned_cols=25 Identities=36% Similarity=0.689 Sum_probs=21.0
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
.+|+|+||+||||++..++..|.+.
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 5899999999999999999887654
No 326
>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=91.82 E-value=0.26 Score=59.97 Aligned_cols=52 Identities=25% Similarity=0.415 Sum_probs=39.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
..+++|.|+||+|||+++..++..+.+.+. +||.++.-. ..+++..|..+.+
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 567899999999999999999988887654 888887644 3456666655443
No 327
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=91.82 E-value=0.22 Score=51.02 Aligned_cols=35 Identities=26% Similarity=0.528 Sum_probs=27.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
++..|.|+.||||||++..++..|.+++. ++.++-
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~-~v~~ik 35 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGY-RVAVIK 35 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEE
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCC-ceEEEE
Confidence 45789999999999999999999988765 665443
No 328
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=91.75 E-value=1.7 Score=52.76 Aligned_cols=62 Identities=21% Similarity=0.337 Sum_probs=42.4
Q ss_pred CCHHHHHH---HHHhhc-CCcEEEEcCCCChHhHHHHHHH-HHHHHc--CCCcEEEEcCcHHHHHHHHH
Q 001054 391 LNASQVFA---VKSVLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQ--GQGQVLVCAPSNVAVDQLAE 452 (1171)
Q Consensus 391 LNesQ~~A---V~~aL~-~~lsLIqGPPGTGKTtTla~iI-~~Llk~--~~~rILV~ApSN~AVD~L~e 452 (1171)
.=++|.+- ++.+|. ++..|+.=|.|||||..+..++ .+.+.. ...|++.|+-|-.-++...+
T Consensus 17 iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~ 85 (755)
T KOG1131|consen 17 IYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALE 85 (755)
T ss_pred cCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHH
Confidence 34677654 455565 7899999999999999887665 333333 34589999998655444433
No 329
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=91.74 E-value=0.22 Score=63.88 Aligned_cols=39 Identities=31% Similarity=0.492 Sum_probs=28.6
Q ss_pred HHHHHHHHHhhc--------CCcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 393 ASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 393 esQ~~AV~~aL~--------~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
++|.+.|..+|. ..+.+|.|+||||||.|+..++..|..
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 566666665553 123469999999999999998877643
No 330
>PRK13531 regulatory ATPase RavA; Provisional
Probab=91.74 E-value=0.22 Score=60.71 Aligned_cols=33 Identities=18% Similarity=0.460 Sum_probs=25.8
Q ss_pred HHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 398 AVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 398 AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
++..++.+..+||.||||||||+++..+...+.
T Consensus 32 ll~aalag~hVLL~GpPGTGKT~LAraLa~~~~ 64 (498)
T PRK13531 32 CLLAALSGESVFLLGPPGIAKSLIARRLKFAFQ 64 (498)
T ss_pred HHHHHccCCCEEEECCCChhHHHHHHHHHHHhc
Confidence 344455688899999999999998877776543
No 331
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=91.74 E-value=0.95 Score=47.91 Aligned_cols=24 Identities=29% Similarity=0.520 Sum_probs=20.2
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..++|.|-||+||||++......+
T Consensus 5 kvvvitGVpGvGKTTVl~~~~~~l 28 (189)
T COG2019 5 KVVVITGVPGVGKTTVLKIALKEL 28 (189)
T ss_pred eEEEEEcCCCCChHHHHHHHHHHH
Confidence 467899999999999987776666
No 332
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.69 E-value=0.2 Score=61.18 Aligned_cols=36 Identities=28% Similarity=0.468 Sum_probs=28.5
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1171)
.++++.||.|+|||||++.+...+... +..+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 478899999999999999999887544 444676554
No 333
>CHL00181 cbbX CbbX; Provisional
Probab=91.68 E-value=0.15 Score=58.27 Aligned_cols=26 Identities=31% Similarity=0.394 Sum_probs=21.4
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
..|+.||||||||+++..+...+...
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 36899999999999988887766554
No 334
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=91.67 E-value=0.36 Score=57.25 Aligned_cols=64 Identities=23% Similarity=0.272 Sum_probs=41.7
Q ss_pred HHHHHHHHHhhc-------CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCc--EEEEcCcHHHHHHHHHHHHh
Q 001054 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQ--VLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 393 esQ~~AV~~aL~-------~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~r--ILV~ApSN~AVD~L~eRL~~ 456 (1171)
++|.+.+..++. ....+|.|+||||||.|+..++.++....... +-|=|........+..+|..
T Consensus 23 e~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 23 EEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred HHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence 567776666553 12378999999999999999998887653322 44444444444455555443
No 335
>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=91.64 E-value=0.15 Score=53.60 Aligned_cols=25 Identities=36% Similarity=0.509 Sum_probs=21.1
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.++.+|.|||||||||++..++..+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4678999999999999988887654
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=91.63 E-value=0.14 Score=53.84 Aligned_cols=23 Identities=35% Similarity=0.647 Sum_probs=19.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
+.+|.|+|||||||++..++..+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 36899999999999888776544
No 337
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=91.60 E-value=0.22 Score=57.82 Aligned_cols=24 Identities=42% Similarity=0.649 Sum_probs=20.1
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
+..+|.||||||||+++..++..+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 468999999999999988776554
No 338
>PHA00729 NTP-binding motif containing protein
Probab=91.53 E-value=0.15 Score=56.39 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=20.9
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
..+|.|+||||||+++..++..+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 478999999999999998887664
No 339
>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=91.52 E-value=0.22 Score=54.37 Aligned_cols=36 Identities=28% Similarity=0.339 Sum_probs=23.5
Q ss_pred HHHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHH
Q 001054 393 ASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 393 esQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~ 428 (1171)
+.-+.|+.-+.. ..-.||.||||||||+++..+...
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~l 45 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPSL 45 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHHC
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHHh
Confidence 445666665544 567899999999999987666543
No 340
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=91.51 E-value=0.49 Score=59.56 Aligned_cols=149 Identities=23% Similarity=0.257 Sum_probs=90.0
Q ss_pred CCCHHHHHHHHHhh---cCCcEEE-EcCCCChHhHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCe--EE
Q 001054 390 ELNASQVFAVKSVL---QRPISLI-QGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK--VV 462 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL---~~~lsLI-qGPPGTGKTtTla~iI~~Llk~-~~~rILV~ApSN~AVD~L~eRL~~~glk--VV 462 (1171)
.|-+-|.--|+..+ ..++.-| ---=|=|||--+++.++.|... .+++-||++|+-.--+.++| +.+.... |.
T Consensus 399 ~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleNWlrE-f~kwCPsl~Ve 477 (941)
T KOG0389|consen 399 QLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLENWLRE-FAKWCPSLKVE 477 (941)
T ss_pred cccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhHHHHHHH-HHHhCCceEEE
Confidence 47788988887653 2455434 4467999998888888777766 35578999998765444444 4443222 11
Q ss_pred EeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHhcccccccccccc
Q 001054 463 RLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGA 542 (1171)
Q Consensus 463 Rlg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~~a~VI~~T~~~a 542 (1171)
..... .+ .+.-.+.....--...+|+++|-..+
T Consensus 478 ~YyGS--------------------------------------------q~---ER~~lR~~i~~~~~~ydVllTTY~la 510 (941)
T KOG0389|consen 478 PYYGS--------------------------------------------QD---ERRELRERIKKNKDDYDVLLTTYNLA 510 (941)
T ss_pred eccCc--------------------------------------------HH---HHHHHHHHHhccCCCccEEEEEeecc
Confidence 11000 00 00000111111112678999987665
Q ss_pred CCC-----CcccCCCCEEEEEcCCCCCcc-----cccccccccCceEEEeCCccC
Q 001054 543 GDP-----RLANFRFRQVLIDESTQATEP-----ECLIPLVLGAKQVVLVGDHCQ 587 (1171)
Q Consensus 543 ~~~-----~L~~~kFD~VIIDEASQasEp-----e~LIpL~~~~kkLILVGD~~Q 587 (1171)
... .++..+|++||.||+-+.--. .-|+.+. ...||+|.|=|-|
T Consensus 511 ~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~-An~RlLLTGTPLQ 564 (941)
T KOG0389|consen 511 ASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSIN-ANFRLLLTGTPLQ 564 (941)
T ss_pred cCChHHHHHHHhccccEEEecchhhhhccchHHHHHhcccc-ccceEEeeCCccc
Confidence 532 367789999999999876542 1244442 4579999999999
No 341
>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=91.47 E-value=0.23 Score=57.16 Aligned_cols=36 Identities=31% Similarity=0.425 Sum_probs=29.5
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
..+..|.|+||+||||++..++..+.+.+. +|.+++
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 777765
No 342
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.44 E-value=0.55 Score=56.42 Aligned_cols=43 Identities=33% Similarity=0.405 Sum_probs=34.0
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc---CcHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA---PSNVAVDQLA 451 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A---pSN~AVD~L~ 451 (1171)
+.+.|.-|.||+|.++.|.++|+.++- +|||.| |---|+++|+
T Consensus 381 i~fvGVNGVGKSTNLAKIayWLlqNkf-rVLIAACDTFRsGAvEQLr 426 (587)
T KOG0781|consen 381 ISFVGVNGVGKSTNLAKIAYWLLQNKF-RVLIAACDTFRSGAVEQLR 426 (587)
T ss_pred EEEEeecCccccchHHHHHHHHHhCCc-eEEEEeccchhhhHHHHHH
Confidence 457899999999999999999988754 998875 3445666664
No 343
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=91.39 E-value=0.74 Score=59.46 Aligned_cols=47 Identities=23% Similarity=0.269 Sum_probs=34.0
Q ss_pred EEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+.+-.-|+|||.+++..++.....+. .|-|+|||...|.+-.+.+..
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 55668999999987655542233344 799999999888887776654
No 344
>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=91.38 E-value=0.2 Score=56.30 Aligned_cols=33 Identities=36% Similarity=0.633 Sum_probs=25.2
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
.=|+||||.||+|++-+++..+.+.++ +|-|+|
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 448999999999999999999988755 665554
No 345
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=91.30 E-value=0.34 Score=52.71 Aligned_cols=40 Identities=25% Similarity=0.331 Sum_probs=30.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcC-----CCcEEEEcCcH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN 444 (1171)
..++.|.|+||+|||+++..++...+..+ ..+++.++.-+
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 56899999999999999999988766554 14666655533
No 346
>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=91.25 E-value=0.18 Score=48.98 Aligned_cols=24 Identities=33% Similarity=0.657 Sum_probs=21.1
Q ss_pred EEEcCCCChHhHHHHHHHHHHHHc
Q 001054 409 LIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
.|.|+||+|||+++..++..|++.
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 347
>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=91.22 E-value=0.29 Score=50.54 Aligned_cols=33 Identities=33% Similarity=0.509 Sum_probs=27.4
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
..+.|++|+|||+++..+...+.+.+. +++++.
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 568899999999999999988877654 777765
No 348
>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=91.22 E-value=0.38 Score=57.52 Aligned_cols=35 Identities=26% Similarity=0.266 Sum_probs=28.2
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcC-CCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~-~~rILV~A 441 (1171)
..+|.||+|||||+++.++...+.+.. ..+|+.+.
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 568999999999999999988887663 34677664
No 349
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=91.18 E-value=0.29 Score=51.01 Aligned_cols=35 Identities=26% Similarity=0.324 Sum_probs=28.9
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCc
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1171)
..|.|+.||||||++..++..|..++ .+|.++-+.
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 57889999999999999999887664 388777654
No 350
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=91.14 E-value=0.22 Score=61.51 Aligned_cols=24 Identities=38% Similarity=0.639 Sum_probs=20.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+.|+.||||||||||+..+...|
T Consensus 46 ~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 46 RILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999987776655
No 351
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=91.05 E-value=0.24 Score=58.46 Aligned_cols=22 Identities=45% Similarity=0.783 Sum_probs=18.7
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
.||.||||||||+++..++..+
T Consensus 159 vLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 159 VLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred EEEECCCCCCHHHHHHHHHHhC
Confidence 7899999999999888776543
No 352
>PRK13342 recombination factor protein RarA; Reviewed
Probab=90.93 E-value=0.32 Score=58.45 Aligned_cols=23 Identities=39% Similarity=0.595 Sum_probs=18.8
Q ss_pred CcEEEEcCCCChHhHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~ 428 (1171)
+..+|+||||||||+++..+...
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~ 59 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGA 59 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 35788999999999988777654
No 353
>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=90.93 E-value=0.29 Score=54.17 Aligned_cols=50 Identities=22% Similarity=0.385 Sum_probs=36.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH-----------cCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK-----------QGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk-----------~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+.+|.||||||||+++..++..+.. ....+||+++-=.. .+++.+|+...
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~-~~~i~~Rl~~i 63 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDP-REEIHRRLEAI 63 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCC-HHHHHHHHHHH
Confidence 6799999999999999999877653 13457888885443 34677777654
No 354
>PRK09354 recA recombinase A; Provisional
Probab=90.89 E-value=0.48 Score=55.69 Aligned_cols=42 Identities=21% Similarity=0.238 Sum_probs=32.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AV 447 (1171)
..+++|.||||||||+++..++....+.+. +++.+..-+..-
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 448999999999999999999988877664 666666544333
No 355
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.86 E-value=0.57 Score=56.77 Aligned_cols=69 Identities=22% Similarity=0.257 Sum_probs=52.7
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHH-HHHHHHHHHcCC-------CcEEEEcCcHHHHHHHHHHHHhc
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQ-------GQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~~-------~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
..++.-|+++|=.+|...=+||...-|||||-.= .=+|..|.+... .=-||++||...+-++.+-+.+.
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 3567899999999999888899999999999653 345556655422 12699999999998887765543
No 356
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=90.86 E-value=0.97 Score=58.66 Aligned_cols=43 Identities=26% Similarity=0.274 Sum_probs=30.7
Q ss_pred CCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 413 PPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.-|.|||.+++..++..+..+ ..|.|+|+|...|..=.+.+..
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 689999997655554434444 4999999998887766665543
No 357
>PRK08233 hypothetical protein; Provisional
Probab=90.82 E-value=0.16 Score=52.91 Aligned_cols=24 Identities=25% Similarity=0.343 Sum_probs=20.0
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+..|.|+|||||||++..++..|
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 456789999999999988777654
No 358
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=90.78 E-value=0.29 Score=58.35 Aligned_cols=22 Identities=45% Similarity=0.783 Sum_probs=18.6
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
.||.||||||||+++.++...+
T Consensus 168 vLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 168 VLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred eEEECCCCCChHHHHHHHHHHh
Confidence 7899999999999887776543
No 359
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=90.71 E-value=0.52 Score=55.03 Aligned_cols=43 Identities=16% Similarity=0.100 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHhhcC---CcEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 390 ELNASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~---~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
-|++......+..-.+ .-.|+.||.|+||++++..++..|+-.
T Consensus 6 W~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~ 51 (325)
T PRK06871 6 WLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQ 51 (325)
T ss_pred chHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 3444444433333332 346899999999999999999887754
No 360
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=90.70 E-value=0.18 Score=52.85 Aligned_cols=22 Identities=36% Similarity=0.650 Sum_probs=18.7
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
..|.|+|||||||++..+..++
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999988887665
No 361
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=90.60 E-value=1 Score=58.02 Aligned_cols=45 Identities=27% Similarity=0.308 Sum_probs=32.8
Q ss_pred EEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001054 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL 454 (1171)
+..=.-|.|||.+++..++..+..+. .|-|+|+|...|.+=.+.+
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 34446899999997766665555554 9999999988776555544
No 362
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=90.60 E-value=0.23 Score=52.53 Aligned_cols=47 Identities=26% Similarity=0.340 Sum_probs=33.6
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
+.+|.|+||||||+.+..++..+ + .+++.++.....-+++.+|+..+
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~-~~~~~iat~~~~~~e~~~ri~~h 49 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---G-LQVLYIATAQPFDDEMAARIAHH 49 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---C-CCcEeCcCCCCChHHHHHHHHHH
Confidence 47999999999999987776543 2 35666665455566788887543
No 363
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=90.59 E-value=0.31 Score=56.97 Aligned_cols=35 Identities=37% Similarity=0.470 Sum_probs=28.3
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
+.-|.|+||+||||++..++..+...+. +|.|++-
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~-~v~vi~~ 92 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQGH-KVAVLAV 92 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEEe
Confidence 4669999999999999999988876654 7766653
No 364
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=90.51 E-value=0.35 Score=55.15 Aligned_cols=38 Identities=37% Similarity=0.556 Sum_probs=27.9
Q ss_pred HHHHHHHHHhhcC---CcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 393 ASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 393 esQ~~AV~~aL~~---~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
++..+.+...+.. +..+|+||||||||+++..++..+.
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~ 63 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY 63 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence 3455555555542 3579999999999999988877764
No 365
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=90.47 E-value=1 Score=58.35 Aligned_cols=47 Identities=26% Similarity=0.242 Sum_probs=34.4
Q ss_pred EEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+.+-.-|+|||.+++..++..+..+ ..|.|+|+|.-.|.+..+.+..
T Consensus 99 IaEm~TGEGKTL~a~lp~~l~al~g-~~VhIvT~ndyLA~RD~e~m~~ 145 (908)
T PRK13107 99 IAEMRTGEGKTLTATLPAYLNALTG-KGVHVITVNDYLARRDAENNRP 145 (908)
T ss_pred cccccCCCCchHHHHHHHHHHHhcC-CCEEEEeCCHHHHHHHHHHHHH
Confidence 4556899999998766554434344 4799999999888877776544
No 366
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=90.44 E-value=0.21 Score=51.68 Aligned_cols=21 Identities=38% Similarity=0.515 Sum_probs=16.0
Q ss_pred EEEEcCCCChHhHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1171)
.+|.|+|||||||++..+..+
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 367
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=90.42 E-value=0.28 Score=43.64 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=22.3
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
++++|.|+.|+||||++-++...|.-
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 47999999999999999888876653
No 368
>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=90.40 E-value=0.31 Score=59.98 Aligned_cols=24 Identities=42% Similarity=0.707 Sum_probs=20.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
-.||.||||||||+++..++..|.
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhhc
Confidence 379999999999998888776663
No 369
>smart00350 MCM minichromosome maintenance proteins.
Probab=90.39 E-value=2.3 Score=52.63 Aligned_cols=21 Identities=29% Similarity=0.319 Sum_probs=17.4
Q ss_pred cEEEEcCCCChHhHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVY 427 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~ 427 (1171)
..||.|+||||||+++..+..
T Consensus 238 ~vLL~G~pGtGKs~lar~l~~ 258 (509)
T smart00350 238 NILLLGDPGTAKSQLLKYVEK 258 (509)
T ss_pred eEEEeCCCChhHHHHHHHHHH
Confidence 589999999999997765554
No 370
>PRK05541 adenylylsulfate kinase; Provisional
Probab=90.28 E-value=0.36 Score=50.68 Aligned_cols=29 Identities=24% Similarity=0.307 Sum_probs=23.7
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCC
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~ 434 (1171)
.+.+|.|++|+||||++..+...|.....
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l~~~~~ 36 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLKLKYS 36 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 36789999999999999888887765443
No 371
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.27 E-value=0.43 Score=55.87 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=28.5
Q ss_pred HHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEE
Q 001054 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1171)
Q Consensus 397 ~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV 439 (1171)
..+..++. ....+|.|++||||||++.+++..+-. ..+|++
T Consensus 151 ~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~ip~--~~ri~t 192 (332)
T PRK13900 151 EFLEHAVISKKNIIISGGTSTGKTTFTNAALREIPA--IERLIT 192 (332)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhCCC--CCeEEE
Confidence 34444433 677899999999999999888765522 335554
No 372
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=90.22 E-value=0.3 Score=54.54 Aligned_cols=40 Identities=25% Similarity=0.560 Sum_probs=31.3
Q ss_pred hhcCCc-EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 402 VLQRPI-SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 402 aL~~~l-sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
++..++ .+|.|++|||||+++..+++.+.+.- ..|.++++
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 47888777
No 373
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.20 E-value=0.28 Score=60.01 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=20.2
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.|++|||||||||++..++..+..
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcc
Confidence 689999999999998888776643
No 374
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=90.19 E-value=1.6 Score=55.89 Aligned_cols=65 Identities=23% Similarity=0.387 Sum_probs=47.1
Q ss_pred CCCHHHHHHHHHhhcC--------C--cEEEEcCCCChHhHHHHHHHHHHHHc-CC-----CcEEEEcCcHHHHHHHHHH
Q 001054 390 ELNASQVFAVKSVLQR--------P--ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQ-----GQVLVCAPSNVAVDQLAEK 453 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~--------~--lsLIqGPPGTGKTtTla~iI~~Llk~-~~-----~rILV~ApSN~AVD~L~eR 453 (1171)
.|=+.|++.++....+ . =.++.=-||+|||...+.+++.++++ +. .+.||+||+-. +.+-...
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sL-v~nWkkE 316 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSL-VNNWKKE 316 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHH-HHHHHHH
Confidence 4678999999876531 1 14566679999999999999999988 44 58999999753 3344443
Q ss_pred HH
Q 001054 454 IS 455 (1171)
Q Consensus 454 L~ 455 (1171)
+.
T Consensus 317 F~ 318 (776)
T KOG0390|consen 317 FG 318 (776)
T ss_pred HH
Confidence 33
No 375
>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=90.19 E-value=0.39 Score=52.11 Aligned_cols=32 Identities=34% Similarity=0.469 Sum_probs=27.8
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
..|.|..|+||||+.+.++..|.+.++ |||++
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~-rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGK-KVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCC-cEEEE
Confidence 345699999999999999999998776 88887
No 376
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.18 E-value=0.29 Score=57.79 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=20.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
..|+.||||||||+++..++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 368999999999999888887664
No 377
>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=90.17 E-value=0.22 Score=50.67 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=18.4
Q ss_pred cEEEEcCCCChHhHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~ 428 (1171)
+.+|.|+||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4689999999999988877654
No 378
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=90.16 E-value=0.26 Score=53.65 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=23.7
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcC
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1171)
++.+++|+||+||||.+.+++..|-+..
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i 29 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEI 29 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence 4678999999999999999988776554
No 379
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=90.15 E-value=0.39 Score=51.03 Aligned_cols=33 Identities=27% Similarity=0.439 Sum_probs=24.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
+..|.|++||||||++..++..+...+. ++.++
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 44444
No 380
>PRK12608 transcription termination factor Rho; Provisional
Probab=90.13 E-value=0.36 Score=57.12 Aligned_cols=50 Identities=26% Similarity=0.326 Sum_probs=37.2
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCC---cEEEEcCcHHHHHHHHHHHHh
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQG---QVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~---rILV~ApSN~AVD~L~eRL~~ 456 (1171)
-.+|.||||||||+++..++..+..+.+. -++++.....-+.++.+.+..
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 36999999999999999999888775321 355566666667777776644
No 381
>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=90.12 E-value=0.4 Score=52.47 Aligned_cols=40 Identities=20% Similarity=0.239 Sum_probs=29.0
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcC-----CCcEEEEcCcH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN 444 (1171)
..++.|.|+||||||+.+..++....... ..+++.++.-+
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 56789999999999999999887644332 24666665433
No 382
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=90.09 E-value=0.37 Score=53.66 Aligned_cols=33 Identities=21% Similarity=0.518 Sum_probs=25.4
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
+.+|.|+|||||||.+..+..++-..+. ++.++
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 4689999999999999999887755433 44444
No 383
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=90.05 E-value=0.37 Score=58.39 Aligned_cols=23 Identities=39% Similarity=0.678 Sum_probs=19.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
-+||.||||||||+++..+...+
T Consensus 219 gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 219 GVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 47899999999999988776643
No 384
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=90.05 E-value=0.33 Score=56.57 Aligned_cols=20 Identities=50% Similarity=0.878 Sum_probs=16.4
Q ss_pred EEEEcCCCChHhHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVY 427 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~ 427 (1171)
+|+.||||||||.++.+++.
T Consensus 188 VLLYGPPGTGKTLLAkAVA~ 207 (406)
T COG1222 188 VLLYGPPGTGKTLLAKAVAN 207 (406)
T ss_pred eEeeCCCCCcHHHHHHHHHh
Confidence 69999999999987665553
No 385
>PRK08118 topology modulation protein; Reviewed
Probab=89.91 E-value=0.26 Score=51.90 Aligned_cols=22 Identities=18% Similarity=0.394 Sum_probs=17.6
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+|.||||+||||++..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5899999999999776666543
No 386
>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=89.89 E-value=0.48 Score=47.07 Aligned_cols=45 Identities=33% Similarity=0.505 Sum_probs=32.2
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.+|.|.+|+|||++...+...+.+.+. +|+++---- +.+.+++..
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~-~V~~id~D~---~~~~~~~~~ 46 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGK-PVLAIDADP---DDLPERLSV 46 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEECCc---hhhHHHHhh
Confidence 579999999999999999888877654 666544222 555555543
No 387
>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=89.81 E-value=0.23 Score=55.35 Aligned_cols=30 Identities=27% Similarity=0.573 Sum_probs=20.8
Q ss_pred EEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 410 IQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 410 IqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
|.||||+||||.+..+..++...+. ++.++
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~-~~~~v 30 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGR-DVYIV 30 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S--EEEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccC-CceEE
Confidence 6899999999998888877755433 44443
No 388
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=89.75 E-value=0.41 Score=55.67 Aligned_cols=47 Identities=28% Similarity=0.473 Sum_probs=32.5
Q ss_pred HhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHH
Q 001054 401 SVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ 449 (1171)
Q Consensus 401 ~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~ 449 (1171)
..+..+.+|+.|+||||||+++..++..+- .+...+-|++.-.+.|-
T Consensus 39 a~~~~~~vll~G~PG~gKT~la~~lA~~l~--~~~~~i~~t~~l~p~d~ 85 (329)
T COG0714 39 ALLAGGHVLLEGPPGVGKTLLARALARALG--LPFVRIQCTPDLLPSDL 85 (329)
T ss_pred HHHcCCCEEEECCCCccHHHHHHHHHHHhC--CCeEEEecCCCCCHHHh
Confidence 344578899999999999998888776653 23345555555555543
No 389
>PTZ00301 uridine kinase; Provisional
Probab=89.71 E-value=0.43 Score=52.25 Aligned_cols=27 Identities=30% Similarity=0.457 Sum_probs=22.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
-+..|.||+|+||||++..++..|.+.
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~~ 30 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMAH 30 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence 456799999999999998888777554
No 390
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=89.65 E-value=0.41 Score=52.93 Aligned_cols=37 Identities=27% Similarity=0.334 Sum_probs=28.1
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHc----CCCcEEEEcCcH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQ----GQGQVLVCAPSN 444 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~----~~~rILV~ApSN 444 (1171)
+||.||||+||||.+..+++.+... .+.||.++--++
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 7999999999999999888766543 344666665444
No 391
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=89.64 E-value=0.15 Score=57.25 Aligned_cols=68 Identities=28% Similarity=0.287 Sum_probs=54.7
Q ss_pred CCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHhcC
Q 001054 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISATG 458 (1171)
Q Consensus 391 LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~--~~rILV~ApSN~AVD~L~eRL~~~g 458 (1171)
-+.-|+.||..++...-++.|+-.|||||.+...-+.+.++.. ..++|+++||...+-++.+-+...|
T Consensus 50 PS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg 119 (400)
T KOG0328|consen 50 PSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALG 119 (400)
T ss_pred chHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhc
Confidence 3568999999999988889999999999988765555544432 2479999999999999988877653
No 392
>PRK06762 hypothetical protein; Provisional
Probab=89.64 E-value=0.29 Score=50.75 Aligned_cols=40 Identities=23% Similarity=0.485 Sum_probs=27.8
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL 454 (1171)
.+.+|.|+|||||||++..+...+ +. .+.++. .|.+...+
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 467899999999999988777665 32 454443 36666543
No 393
>PRK00889 adenylylsulfate kinase; Provisional
Probab=89.64 E-value=0.46 Score=49.79 Aligned_cols=34 Identities=26% Similarity=0.318 Sum_probs=26.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
.+.+|.|+||+||||++..+...+...+ .+++++
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 4678999999999999998888775544 356555
No 394
>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=89.62 E-value=0.2 Score=50.81 Aligned_cols=22 Identities=36% Similarity=0.671 Sum_probs=15.4
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
+||.|+||+|||+++..++..+
T Consensus 2 vLleg~PG~GKT~la~~lA~~~ 23 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARSL 23 (131)
T ss_dssp EEEES---HHHHHHHHHHHHHT
T ss_pred EeeECCCccHHHHHHHHHHHHc
Confidence 6899999999999888776543
No 395
>PRK14530 adenylate kinase; Provisional
Probab=89.61 E-value=0.29 Score=53.22 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=20.4
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+..+|.||||+||||++..+...+
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHh
Confidence 3457899999999999888776554
No 396
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=89.57 E-value=0.93 Score=57.10 Aligned_cols=147 Identities=22% Similarity=0.311 Sum_probs=87.8
Q ss_pred CCCHHHHHHHHHhhc---CCcE-EEEcCCCChHhHHHHHHHHHHHH-c-CCCcEEEEcCcHHHHHHHHHHHHhc--CCeE
Q 001054 390 ELNASQVFAVKSVLQ---RPIS-LIQGPPGTGKTVTSAAIVYHMAK-Q-GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~---~~ls-LIqGPPGTGKTtTla~iI~~Llk-~-~~~rILV~ApSN~AVD~L~eRL~~~--glkV 461 (1171)
.|-+-|.+-++-..+ +++- ++---=|=|||.-.+.++.+|.. . -+++.|||+|--. .++....+.+. .+.+
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~St-L~NW~~Ef~rf~P~l~~ 245 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKST-LDNWMNEFKRFTPSLNV 245 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhh-HHHHHHHHHHhCCCcce
Confidence 577788887776554 5553 44456799999765666655554 2 3568999999544 44555555543 3444
Q ss_pred EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHhhhhhhccCCchHHHHHHHHHHHHHHHHHh--ccccccccc
Q 001054 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQ--SADVICCTC 539 (1171)
Q Consensus 462 VRlg~~sre~i~~~v~~l~L~~~i~~l~~~~~~~L~kL~~lk~e~~els~~dek~y~~l~r~~e~~iL~--~a~VI~~T~ 539 (1171)
+.+.....+ + ....+.++. ..+|+++|-
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 444321100 0 000111111 345555554
Q ss_pred cccCC--CCcccCCCCEEEEEcCCCCCccccccccc----ccCceEEEeCCccC
Q 001054 540 VGAGD--PRLANFRFRQVLIDESTQATEPECLIPLV----LGAKQVVLVGDHCQ 587 (1171)
Q Consensus 540 ~~a~~--~~L~~~kFD~VIIDEASQasEpe~LIpL~----~~~kkLILVGD~~Q 587 (1171)
..+.. ..|..+.+.+||||||..+--..+++.-. ....+++|.|-|-|
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 34677789999999999987765543322 24579999999999
No 397
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=89.57 E-value=0.7 Score=58.29 Aligned_cols=67 Identities=24% Similarity=0.449 Sum_probs=49.1
Q ss_pred CCCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHH---c--CCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAK---Q--GQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk---~--~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+-+-++|+ .+..+-.+++++|.|--|+||||-+=..++..=- + .++=|-|+-|-..||-.|++|+..
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 34556664 4455555899999999999999988777654311 1 133588899999999999999753
No 398
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=89.54 E-value=0.82 Score=60.10 Aligned_cols=66 Identities=24% Similarity=0.300 Sum_probs=57.3
Q ss_pred CCCHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
+|++.|++|+..+....-++|.+|-|+|||.+.-..|+.-++.+. ++..++|...-.++....+..
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 799999999999888888999999999999999888887777766 799999998888877766654
No 399
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=89.53 E-value=0.88 Score=52.27 Aligned_cols=72 Identities=19% Similarity=0.247 Sum_probs=43.6
Q ss_pred CHHHHHHHHHhhc-CC--cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001054 392 NASQVFAVKSVLQ-RP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1171)
Q Consensus 392 NesQ~~AV~~aL~-~~--lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~glkVVRlg~ 466 (1171)
|+...+..+..+. .+ ++-|.|+||+||||++..++..|... .++.|+.---... +=.+||...+..++.+..
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 3444444444443 22 35589999999999999998877543 3565554221111 125567777777777643
No 400
>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=89.53 E-value=0.42 Score=51.10 Aligned_cols=32 Identities=31% Similarity=0.547 Sum_probs=23.3
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
+..|.||+|+||||++..+...+ ...++.++.
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l---~~~~~~v~~ 32 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL---GNPKVVIIS 32 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh---CCCCeEEEE
Confidence 35799999999999998877655 223555544
No 401
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=89.50 E-value=0.63 Score=56.85 Aligned_cols=78 Identities=28% Similarity=0.367 Sum_probs=55.5
Q ss_pred CCCCCHHHHHHHHHhhc-CCcEEEEcCCCChHhHHHH-HHHHHHHHcCCCcEEEEcCcHHHH----HHHHHHHHhcCCeE
Q 001054 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNVAV----DQLAEKISATGLKV 461 (1171)
Q Consensus 388 l~~LNesQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla-~iI~~Llk~~~~rILV~ApSN~AV----D~L~eRL~~~glkV 461 (1171)
..+|-+-|..||+.-|- ..-.+|.-+-+||||-+.- +=|..++..+ ++.|.+.|--..| +++.+|..+.++++
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 3445677779999997642 2244555544 4888887754444 56788888888886
Q ss_pred -EEecc
Q 001054 462 -VRLCA 466 (1171)
Q Consensus 462 -VRlg~ 466 (1171)
+|+|.
T Consensus 293 airVG~ 298 (830)
T COG1202 293 AIRVGM 298 (830)
T ss_pred EEEech
Confidence 77765
No 402
>PRK00131 aroK shikimate kinase; Reviewed
Probab=89.47 E-value=0.32 Score=50.19 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.8
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
....+|.|+|||||||++..+...|
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 3467899999999999988887665
No 403
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=89.40 E-value=0.95 Score=57.64 Aligned_cols=62 Identities=23% Similarity=0.292 Sum_probs=50.5
Q ss_pred CHHHHHHHHHhhc---C--CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 392 NASQVFAVKSVLQ---R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 392 NesQ~~AV~~aL~---~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.-.|..|++.... . ...+|.|..|||||.|++.++..+ +.++||+|++...|.+|.+-|...
T Consensus 11 ~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~----~~p~Lvi~~n~~~A~ql~~el~~f 77 (655)
T TIGR00631 11 AGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV----NRPTLVIAHNKTLAAQLYNEFKEF 77 (655)
T ss_pred ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh----CCCEEEEECCHHHHHHHHHHHHHh
Confidence 5688888887653 2 255799999999999999877653 348999999999999999998765
No 404
>PRK03839 putative kinase; Provisional
Probab=89.37 E-value=0.3 Score=51.41 Aligned_cols=22 Identities=36% Similarity=0.582 Sum_probs=18.1
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+|.|+||+||||+...+...+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6889999999999877766554
No 405
>PRK07667 uridine kinase; Provisional
Probab=89.35 E-value=0.48 Score=50.86 Aligned_cols=35 Identities=26% Similarity=0.260 Sum_probs=26.3
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
+..|.|+||+||||++..+...|-+.+. ++.++..
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~-~~~~i~~ 53 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGI-PFHIFHI 53 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEEc
Confidence 5679999999999999888877755444 5555543
No 406
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.34 E-value=0.43 Score=57.50 Aligned_cols=63 Identities=21% Similarity=0.164 Sum_probs=39.5
Q ss_pred CHHHHHHHHHhhcCCcEEEEcCCCChHhHHH-HHHHHHHHHcC----CCcEEEEcCcHHHHHHHHHHH
Q 001054 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQG----QGQVLVCAPSNVAVDQLAEKI 454 (1171)
Q Consensus 392 NesQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~----~~rILV~ApSN~AVD~L~eRL 454 (1171)
++-|..-|=-+|-..=.+-.+.-|||||-.- .-++..|+-.+ -.||||++||...+-++..-.
T Consensus 205 TpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~ 272 (691)
T KOG0338|consen 205 TPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVT 272 (691)
T ss_pred CchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHH
Confidence 4566666554444333345667899999643 34455555443 348999999998877665543
No 407
>PHA02244 ATPase-like protein
Probab=89.33 E-value=0.5 Score=55.91 Aligned_cols=31 Identities=16% Similarity=0.336 Sum_probs=23.1
Q ss_pred HHHHhhc-CCcEEEEcCCCChHhHHHHHHHHH
Q 001054 398 AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 398 AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~ 428 (1171)
.+..++. ...++|.||||||||+++..+...
T Consensus 111 ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 111 DIAKIVNANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 3444444 456789999999999998877765
No 408
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.17 E-value=0.38 Score=50.57 Aligned_cols=26 Identities=35% Similarity=0.590 Sum_probs=22.4
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcC
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1171)
..|+|+||+||||++..++..|...+
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g 33 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKG 33 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcC
Confidence 57999999999999998888776654
No 409
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=89.14 E-value=0.28 Score=59.78 Aligned_cols=28 Identities=32% Similarity=0.536 Sum_probs=22.7
Q ss_pred hhcCCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 402 VLQRPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 402 aL~~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
-+...+.||+||+|+|||||+..+...|
T Consensus 107 ~l~~~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 107 KLGSRILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred CCCceEEEEeCCCCCCchhHHHHHHHhh
Confidence 3446789999999999999987776554
No 410
>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=89.11 E-value=0.3 Score=51.58 Aligned_cols=21 Identities=33% Similarity=0.697 Sum_probs=17.6
Q ss_pred EEEEcCCCChHhHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1171)
.+|.|||||||||++..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988777654
No 411
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=89.08 E-value=0.57 Score=47.83 Aligned_cols=25 Identities=24% Similarity=0.466 Sum_probs=21.8
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..+.+|.|+.|+||||.+..++..|
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 4588999999999999998888765
No 412
>PRK14531 adenylate kinase; Provisional
Probab=89.04 E-value=0.33 Score=51.54 Aligned_cols=23 Identities=35% Similarity=0.551 Sum_probs=18.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
-.+|.|||||||||....++..+
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36899999999999977776543
No 413
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=89.03 E-value=0.44 Score=57.64 Aligned_cols=25 Identities=40% Similarity=0.695 Sum_probs=21.5
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
+.|.|||||||||++..++..+.+.
T Consensus 72 vavvGPpGtGKsTLirSlVrr~tk~ 96 (1077)
T COG5192 72 VAVVGPPGTGKSTLIRSLVRRFTKQ 96 (1077)
T ss_pred EEeecCCCCChhHHHHHHHHHHHHh
Confidence 3489999999999999999887664
No 414
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=89.02 E-value=1.5 Score=56.04 Aligned_cols=64 Identities=23% Similarity=0.296 Sum_probs=52.2
Q ss_pred CCCHHHHHHHHHhhc---C--CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001054 390 ELNASQVFAVKSVLQ---R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1171)
Q Consensus 390 ~LNesQ~~AV~~aL~---~--~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~~ 457 (1171)
.|+..|..+++..+. . ...+|.|.+|+|||.+++.++..+ ..++||++++...|+++.+.|...
T Consensus 12 ~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~~----~r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 12 KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIARL----QRPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHHh----CCCEEEEECCHHHHHHHHHHHHHh
Confidence 688999999887653 1 246799999999999988766442 358999999999999999998765
No 415
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=88.95 E-value=0.62 Score=50.39 Aligned_cols=52 Identities=21% Similarity=0.372 Sum_probs=36.7
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC---cHHHHHHHHHHHHhcCCeEEEe
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP---SNVAVDQLAEKISATGLKVVRL 464 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap---SN~AVD~L~eRL~~~glkVVRl 464 (1171)
.-|-||||+|||+++..++..|.++ .++.|++. |+.=++.+.+. .+..++.+
T Consensus 16 i~v~Gp~GSGKTaLie~~~~~L~~~--~~~aVI~~Di~t~~Da~~l~~~---~g~~i~~v 70 (202)
T COG0378 16 IGVGGPPGSGKTALIEKTLRALKDE--YKIAVITGDIYTKEDADRLRKL---PGEPIIGV 70 (202)
T ss_pred EEecCCCCcCHHHHHHHHHHHHHhh--CCeEEEeceeechhhHHHHHhC---CCCeeEEe
Confidence 4478999999999999999988765 47777764 54444444332 66666655
No 416
>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=88.94 E-value=0.59 Score=56.41 Aligned_cols=51 Identities=20% Similarity=0.226 Sum_probs=39.8
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
..+++|.|+||+|||+.+..++.+++.....+||+++.-.. .+++.+|+..
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 45899999999999999999999887654458988887554 4456666654
No 417
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=88.91 E-value=0.41 Score=54.71 Aligned_cols=34 Identities=32% Similarity=0.490 Sum_probs=28.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
+.=|+|+||.||+|++-.++..|.+.+. +|-|+|
T Consensus 53 viGITG~PGaGKSTli~~L~~~l~~~G~-rVaVlA 86 (323)
T COG1703 53 VIGITGVPGAGKSTLIEALGRELRERGH-RVAVLA 86 (323)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHHCCc-EEEEEE
Confidence 4459999999999999999999988776 766665
No 418
>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=88.89 E-value=0.33 Score=50.92 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=19.9
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+.+|.||+|+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 367899999999999988776554
No 419
>PRK06696 uridine kinase; Validated
Probab=88.80 E-value=0.54 Score=51.57 Aligned_cols=33 Identities=24% Similarity=0.378 Sum_probs=24.6
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
+..|.|++||||||++..++..|-+.+. .++++
T Consensus 24 iI~I~G~sgsGKSTlA~~L~~~l~~~g~-~v~~~ 56 (223)
T PRK06696 24 RVAIDGITASGKTTFADELAEEIKKRGR-PVIRA 56 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEe
Confidence 5779999999999999888877754432 44443
No 420
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=88.76 E-value=2.8 Score=54.76 Aligned_cols=56 Identities=27% Similarity=0.504 Sum_probs=44.9
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH---HHHHHHHhcC---CeEEEe
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATG---LKVVRL 464 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD---~L~eRL~~~g---lkVVRl 464 (1171)
-+|-|-.|||||+.+..-+...++.+ .+|..++|+-..-. ++++++...| +.|.|+
T Consensus 4 ~~lyg~~gtgkT~~l~~e~~~~~~~g-kpviyIvP~q~sFe~E~~~L~~~~~~g~~~i~V~~F 65 (1108)
T COG3857 4 QLLYGRAGTGKTEILTEEIQEELEKG-KPVIYIVPSQMSFEKEKEILERLRQGGSFRIQVTRF 65 (1108)
T ss_pred eeehhhccccHHHHHHHHHHHHHHcC-CcEEEEcccchhHHHHHHHHhCcccCCeeeEEEEEH
Confidence 47889999999999999999988888 59999999877654 6677776665 455554
No 421
>COG3911 Predicted ATPase [General function prediction only]
Probab=88.74 E-value=0.33 Score=50.27 Aligned_cols=21 Identities=38% Similarity=0.575 Sum_probs=18.2
Q ss_pred CcEEEEcCCCChHhHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIV 426 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI 426 (1171)
.+++|+|+||.||||+++++.
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa 30 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALA 30 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHH
Confidence 478999999999999887665
No 422
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=88.73 E-value=0.42 Score=56.20 Aligned_cols=45 Identities=22% Similarity=0.363 Sum_probs=30.5
Q ss_pred HHHHHHHHhhc-CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 394 sQ~~AV~~aL~-~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
...+.+..+.. +...||.||.||||||++..++..+- ...+|+.+
T Consensus 150 ~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~--~~~rivti 195 (344)
T PRK13851 150 DLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIP--PQERLITI 195 (344)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccC--CCCCEEEE
Confidence 34444444443 67789999999999999988876542 23355553
No 423
>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=88.72 E-value=0.5 Score=53.04 Aligned_cols=34 Identities=38% Similarity=0.561 Sum_probs=29.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
+.++.|.+|+||||+.+.+...+.+.+. +||++.
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 5789999999999999999999888775 788775
No 424
>PRK14532 adenylate kinase; Provisional
Probab=88.68 E-value=0.32 Score=51.50 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=17.6
Q ss_pred EEEEcCCCChHhHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1171)
.+|.|||||||||+...++..
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999987777643
No 425
>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=88.67 E-value=0.54 Score=54.38 Aligned_cols=46 Identities=30% Similarity=0.554 Sum_probs=35.0
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc--CcHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA--PSNVAVDQLAE 452 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A--pSN~AVD~L~e 452 (1171)
++.++.|.-|+||||++++++.++.+.+. ++|+++ |.+...|-+-.
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~-rtLlvS~Dpa~~L~d~l~~ 49 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGK-RTLLVSTDPAHSLSDVLGQ 49 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS--EEEEESSTTTHHHHHHTS
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCC-CeeEeecCCCccHHHHhCC
Confidence 46789999999999999999999998775 888884 44454554443
No 426
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=88.64 E-value=0.43 Score=58.83 Aligned_cols=26 Identities=27% Similarity=0.280 Sum_probs=21.9
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
+..|++|||||||||++..++..|..
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35899999999999998888877653
No 427
>PRK04040 adenylate kinase; Provisional
Probab=88.64 E-value=0.35 Score=51.97 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=19.9
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
+.+|.|+|||||||++..+...|
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHh
Confidence 57899999999999988877665
No 428
>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=88.62 E-value=0.56 Score=51.65 Aligned_cols=34 Identities=18% Similarity=0.209 Sum_probs=23.7
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEc
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1171)
.-|.||+|+||||++..++..|.+. ...+|.++.
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~ 36 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELIT 36 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEe
Confidence 5689999999999988777665431 223555544
No 429
>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=88.62 E-value=0.39 Score=50.49 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.5
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..+.+|.|+||+||||++..+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 3578999999999999888776553
No 430
>PRK13764 ATPase; Provisional
Probab=88.58 E-value=0.8 Score=57.50 Aligned_cols=27 Identities=33% Similarity=0.461 Sum_probs=23.5
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
....||.|||||||||++.+++..+..
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~ 283 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYAD 283 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 566899999999999999998877754
No 431
>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=88.56 E-value=0.61 Score=48.05 Aligned_cols=27 Identities=22% Similarity=0.479 Sum_probs=22.2
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcC
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1171)
+.+|.|.|||||||++..+...+...+
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g 27 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRG 27 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 368999999999999888888776444
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=88.49 E-value=0.3 Score=50.47 Aligned_cols=21 Identities=24% Similarity=0.575 Sum_probs=17.4
Q ss_pred EEEcCCCChHhHHHHHHHHHH
Q 001054 409 LIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L 429 (1171)
+|.||+||||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 688999999998877777654
No 433
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=88.47 E-value=0.6 Score=49.72 Aligned_cols=39 Identities=21% Similarity=0.257 Sum_probs=29.6
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1171)
.+++.|.|+.||||||++..++..|...+. +|-++-++.
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 666655433
No 434
>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=88.42 E-value=0.4 Score=48.02 Aligned_cols=23 Identities=30% Similarity=0.631 Sum_probs=19.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
+.+|.|+|||||||++..+...+
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35799999999999988777654
No 435
>PRK05480 uridine/cytidine kinase; Provisional
Probab=88.40 E-value=0.55 Score=50.73 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=20.0
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+..|.|++||||||++..+...+
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999887777665
No 436
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=88.39 E-value=0.57 Score=53.45 Aligned_cols=35 Identities=26% Similarity=0.280 Sum_probs=28.9
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1171)
+..|.|+.||||||++..++..|.+++ +|.++=..
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 467999999999999999999998776 56666543
No 437
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=88.32 E-value=0.57 Score=54.20 Aligned_cols=41 Identities=20% Similarity=0.310 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHhhc-----------CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 389 PELNASQVFAVKSVLQ-----------RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~-----------~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..|+++|++++..++. ....+|.|+|||||||+...+...|
T Consensus 106 ~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 106 EQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred hcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 4789999988877663 3467899999999999887776554
No 438
>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=88.26 E-value=0.69 Score=48.57 Aligned_cols=35 Identities=31% Similarity=0.546 Sum_probs=28.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
++++.+-.|+||||+.+.++..|.+.+. +||++=.
T Consensus 1 I~v~~~kGG~GKTt~a~~la~~la~~g~-~VlliD~ 35 (195)
T PF01656_consen 1 IAVTSGKGGVGKTTIAANLAQALARKGK-KVLLIDL 35 (195)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS--EEEEEE
T ss_pred CEEEcCCCCccHHHHHHHHHhccccccc-ccccccc
Confidence 4678899999999999999999998665 7666543
No 439
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=88.24 E-value=0.82 Score=58.76 Aligned_cols=24 Identities=38% Similarity=0.634 Sum_probs=19.3
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
+..+|+||||||||+++..+...+
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~~ 76 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANHT 76 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999887776543
No 440
>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=88.23 E-value=0.65 Score=52.86 Aligned_cols=24 Identities=29% Similarity=0.367 Sum_probs=20.1
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
...+|.||+|+||||++..++..+
T Consensus 112 ~~~~i~g~~g~GKttl~~~l~~~~ 135 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLRDLARIL 135 (270)
T ss_pred eEEEEEcCCCCCHHHHHHHHhCcc
Confidence 357999999999999988877654
No 441
>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=0.82 Score=48.52 Aligned_cols=34 Identities=26% Similarity=0.404 Sum_probs=26.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
.+.+|.|++|+||||.+..+..+|-..+. +++++
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~-~v~~~ 37 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGY-DVLFT 37 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 46789999999999999988887766553 55444
No 442
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=88.20 E-value=0.71 Score=54.27 Aligned_cols=44 Identities=18% Similarity=0.209 Sum_probs=29.7
Q ss_pred CCCEEEEEcCCCCCccc--ccccccc---cCceEEEeCCc-cCCCceeec
Q 001054 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGDH-CQLGPVIMC 594 (1171)
Q Consensus 551 kFD~VIIDEASQasEpe--~LIpL~~---~~kkLILVGD~-~QLpPvv~s 594 (1171)
.++++|||||..+++.. .|+..+- ....+||+... .+|.|++.|
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 68899999999988733 3433331 23456666654 778888765
No 443
>PRK02496 adk adenylate kinase; Provisional
Probab=88.18 E-value=0.4 Score=50.64 Aligned_cols=22 Identities=32% Similarity=0.729 Sum_probs=18.4
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5889999999999888776554
No 444
>PRK06620 hypothetical protein; Validated
Probab=88.14 E-value=0.38 Score=52.73 Aligned_cols=19 Identities=37% Similarity=0.522 Sum_probs=16.3
Q ss_pred CcEEEEcCCCChHhHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAA 424 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~ 424 (1171)
+..+|+||||||||+++..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3479999999999998775
No 445
>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=88.14 E-value=0.6 Score=48.69 Aligned_cols=33 Identities=27% Similarity=0.480 Sum_probs=28.1
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
+.+..+-+|+||||+.+.++..+.+.+. +||++
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 4678899999999999999999888765 77775
No 446
>PLN02200 adenylate kinase family protein
Probab=88.07 E-value=0.39 Score=53.37 Aligned_cols=24 Identities=33% Similarity=0.560 Sum_probs=19.6
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+.+|.|+|||||||.+..++..+
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999888776543
No 447
>PRK14527 adenylate kinase; Provisional
Probab=88.05 E-value=0.41 Score=51.04 Aligned_cols=25 Identities=24% Similarity=0.622 Sum_probs=20.2
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..+.+|.||||+||||.+..+...+
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999999999887776543
No 448
>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=0.77 Score=55.23 Aligned_cols=51 Identities=25% Similarity=0.344 Sum_probs=40.0
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
..+++|-|+||+|||+++..++..+......+|++++.= -..++|..|+..
T Consensus 194 g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlE-m~~~~l~~Rl~~ 244 (421)
T TIGR03600 194 GDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLE-MSAEQLGERLLA 244 (421)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC-CCHHHHHHHHHH
Confidence 568999999999999999999988874434589888754 356677777654
No 449
>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=87.97 E-value=0.95 Score=47.50 Aligned_cols=59 Identities=19% Similarity=0.246 Sum_probs=37.4
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH-----HHHHHHHhcCCeEEEecc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCA 466 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD-----~L~eRL~~~glkVVRlg~ 466 (1171)
+..|.|++||||||++..++..|...+. +|-++-+.+.-.+ .-..|+.+.|...+.+..
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 6666544332221 123344455655554433
No 450
>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=87.95 E-value=0.62 Score=53.03 Aligned_cols=35 Identities=23% Similarity=0.513 Sum_probs=22.7
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
++.+|.|-||+|||+.+..+...+...+ .+|.++.
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~~~~~~-~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKYLEEKG-KEVVIIS 36 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHHHHHTT---EEEE-
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHHHhcC-CEEEEEc
Confidence 5789999999999988888877766633 3555554
No 451
>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=87.93 E-value=0.58 Score=52.24 Aligned_cols=32 Identities=28% Similarity=0.579 Sum_probs=27.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
++++ |..|+||||+.+.++..|.+.+. |||++
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 452
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=87.84 E-value=0.84 Score=50.77 Aligned_cols=58 Identities=19% Similarity=0.238 Sum_probs=39.9
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH---HHHHHHHhcCCeEEEec
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATGLKVVRLC 465 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD---~L~eRL~~~glkVVRlg 465 (1171)
+.-|.|++|+||||++..++..|.+.+. +|.++-+++.-.| .=..|+.+.|..++-+.
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 4578999999999999999999876654 8888865544322 22334555555555543
No 453
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=87.80 E-value=0.35 Score=61.45 Aligned_cols=35 Identities=37% Similarity=0.556 Sum_probs=22.4
Q ss_pred CHHHHHHHHHhhcCCcEEEEcCCCChHhHHHHHHHH
Q 001054 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY 427 (1171)
Q Consensus 392 NesQ~~AV~~aL~~~lsLIqGPPGTGKTtTla~iI~ 427 (1171)
|++|.+.+-.-+-++ +||.||||||||.++.+++.
T Consensus 332 NP~~Y~~lGAKiPkG-vLL~GPPGTGKTLLAKAiAG 366 (774)
T KOG0731|consen 332 NPEQYQELGAKIPKG-VLLVGPPGTGKTLLAKAIAG 366 (774)
T ss_pred CHHHHHHcCCcCcCc-eEEECCCCCcHHHHHHHHhc
Confidence 444444433322233 68999999999997776653
No 454
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=87.80 E-value=0.36 Score=57.81 Aligned_cols=22 Identities=50% Similarity=0.806 Sum_probs=18.2
Q ss_pred cEEEEcCCCChHhHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~ 428 (1171)
-+||.||||||||+++..++..
T Consensus 181 gvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 181 GVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred eEEEECCCCCCHHHHHHHHHHh
Confidence 4789999999999988776653
No 455
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=87.73 E-value=1.2 Score=52.73 Aligned_cols=61 Identities=21% Similarity=0.325 Sum_probs=45.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHH-----HHHHHHHhcCCeEEEeccc
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCAK 467 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD-----~L~eRL~~~glkVVRlg~~ 467 (1171)
++.-|.|++||||||++..++..|.+++. +|.++-++....| .=..|+.+.|...+-+...
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 46789999999999999999999877655 8888887766542 1245666677766665443
No 456
>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=87.70 E-value=0.45 Score=50.97 Aligned_cols=27 Identities=37% Similarity=0.596 Sum_probs=22.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcC
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~ 433 (1171)
+.-|.||+|+||||++..+...|-+.+
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~L~~~~ 27 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQILNKRG 27 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTTCT
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCccC
Confidence 356999999999999988887775543
No 457
>PRK07261 topology modulation protein; Provisional
Probab=87.70 E-value=0.44 Score=50.27 Aligned_cols=20 Identities=25% Similarity=0.356 Sum_probs=17.1
Q ss_pred EEEEcCCCChHhHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVY 427 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~ 427 (1171)
.+|.|+||+||||++..+..
T Consensus 3 i~i~G~~GsGKSTla~~l~~ 22 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQ 22 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 58999999999999877653
No 458
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=87.67 E-value=1.3 Score=55.12 Aligned_cols=53 Identities=25% Similarity=0.417 Sum_probs=37.0
Q ss_pred cCCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
.+.+++|.|--|+||||-++..++.-=-...+-|-++-|-..||-.++.|+.+
T Consensus 370 ~n~vvvivgETGSGKTTQl~QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~ 422 (1042)
T KOG0924|consen 370 ENQVVVIVGETGSGKTTQLAQYLYEDGYADNGMIGCTQPRRVAAISVAKRVAE 422 (1042)
T ss_pred hCcEEEEEecCCCCchhhhHHHHHhcccccCCeeeecCchHHHHHHHHHHHHH
Confidence 38899999999999999877655321111232355555677888888888865
No 459
>PRK14528 adenylate kinase; Provisional
Probab=87.49 E-value=0.47 Score=50.68 Aligned_cols=22 Identities=27% Similarity=0.638 Sum_probs=18.1
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 4 IIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999887765443
No 460
>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=87.48 E-value=0.42 Score=48.90 Aligned_cols=20 Identities=35% Similarity=0.705 Sum_probs=17.0
Q ss_pred EEcCCCChHhHHHHHHHHHH
Q 001054 410 IQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 410 IqGPPGTGKTtTla~iI~~L 429 (1171)
|.||||+||||.+..+...+
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 68999999999988877654
No 461
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=87.46 E-value=0.48 Score=52.40 Aligned_cols=32 Identities=28% Similarity=0.600 Sum_probs=23.1
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
-+|.||||+||||-....-..+...++ ++.++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr-~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGR-PVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCC-ceEEE
Confidence 379999999999988777665555544 44443
No 462
>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=87.45 E-value=0.57 Score=55.22 Aligned_cols=25 Identities=48% Similarity=0.711 Sum_probs=20.2
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
....||.||||||||.++..+...|
T Consensus 50 Gr~iLiaGppGtGKTAlA~~ia~eL 74 (398)
T PF06068_consen 50 GRAILIAGPPGTGKTALAMAIAKEL 74 (398)
T ss_dssp T-EEEEEE-TTSSHHHHHHHHHHHC
T ss_pred CcEEEEeCCCCCCchHHHHHHHHHh
Confidence 4678999999999999998888766
No 463
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.34 E-value=0.56 Score=58.29 Aligned_cols=25 Identities=24% Similarity=0.315 Sum_probs=21.2
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
.+|++||||||||+++..++..|..
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4789999999999998888877653
No 464
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=87.34 E-value=2.2 Score=50.93 Aligned_cols=63 Identities=16% Similarity=0.211 Sum_probs=45.4
Q ss_pred CHHHHHHHHHhhcCCcEEEEcCCCChHhHHH-HHHHHHHHHcC-------CCcEEEEcCcHHHHHHHHHHH
Q 001054 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQG-------QGQVLVCAPSNVAVDQLAEKI 454 (1171)
Q Consensus 392 NesQ~~AV~~aL~~~lsLIqGPPGTGKTtTl-a~iI~~Llk~~-------~~rILV~ApSN~AVD~L~eRL 454 (1171)
|--|..||-.+|...-.+..+--|+|||-+- .-++..|+... ...-+|++||...+.++..-+
T Consensus 43 TlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~vi 113 (569)
T KOG0346|consen 43 TLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVI 113 (569)
T ss_pred chhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHH
Confidence 4578899999998777889999999999653 33444444331 125788999999888765544
No 465
>PRK00279 adk adenylate kinase; Reviewed
Probab=87.33 E-value=0.47 Score=51.63 Aligned_cols=21 Identities=33% Similarity=0.635 Sum_probs=17.5
Q ss_pred EEEEcCCCChHhHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1171)
.+|.||||+||||++..+...
T Consensus 3 I~v~G~pGsGKsT~a~~la~~ 23 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEK 23 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999987766644
No 466
>PHA02624 large T antigen; Provisional
Probab=87.33 E-value=0.58 Score=58.30 Aligned_cols=37 Identities=27% Similarity=0.329 Sum_probs=28.3
Q ss_pred HHHHHHHHHhhc----CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 393 ASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 393 esQ~~AV~~aL~----~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..=..|++..+. +...||.||||||||+.+..++..|
T Consensus 415 ~~~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 415 DVIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 344455665554 4688999999999999999888765
No 467
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=87.32 E-value=0.75 Score=53.30 Aligned_cols=52 Identities=15% Similarity=0.268 Sum_probs=33.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcC-----CCcEEEEcCcH-HHHHHHHHHHHh
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN-VAVDQLAEKISA 456 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~-----~~rILV~ApSN-~AVD~L~eRL~~ 456 (1171)
..+++|.|+||||||+++..++....... ..+++.+..-+ --.+.|.+.+..
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~ 159 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEA 159 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHH
Confidence 56789999999999999999987654321 13565555433 134555554433
No 468
>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=87.29 E-value=1.1 Score=50.02 Aligned_cols=51 Identities=27% Similarity=0.361 Sum_probs=39.6
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN~AVD~L~eRL~~ 456 (1171)
..+++|-|.||.|||+.+..++.+++.....+||+++.=.. .+++..|+..
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~-~~~l~~R~la 69 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMS-EEELAARLLA 69 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC-HHHHHHHHHH
Confidence 45899999999999999999999999875569999987433 3356666543
No 469
>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=87.28 E-value=0.89 Score=47.66 Aligned_cols=33 Identities=24% Similarity=0.418 Sum_probs=24.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
+..|+|-||+||||++.++...|...+. ++.++
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 4679999999999888777777776654 44444
No 470
>PRK06547 hypothetical protein; Provisional
Probab=87.26 E-value=0.69 Score=49.10 Aligned_cols=23 Identities=35% Similarity=0.511 Sum_probs=18.6
Q ss_pred CcEEEEcCCCChHhHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~ 428 (1171)
.+.+|.|++||||||++..+...
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 35678899999999998777654
No 471
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=87.25 E-value=0.69 Score=53.93 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=41.2
Q ss_pred CCCCHHHHHHHHHhhcCC-cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCc
Q 001054 389 PELNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1171)
Q Consensus 389 ~~LNesQ~~AV~~aL~~~-lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS 443 (1171)
..++..|.+.+..+.... -.||.|+-||||||++-++....-. ..||+.+=-|
T Consensus 156 gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i~~--~eRvItiEDt 209 (355)
T COG4962 156 GTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFIDS--DERVITIEDT 209 (355)
T ss_pred CCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcCCC--cccEEEEeeh
Confidence 368899999999888755 6899999999999999887765432 3378777543
No 472
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=87.23 E-value=0.73 Score=53.57 Aligned_cols=40 Identities=25% Similarity=0.357 Sum_probs=28.2
Q ss_pred CHHHHHHHHHhhcC----CcEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 392 NASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 392 NesQ~~AV~~aL~~----~lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
++..++.+...+.. ...|+.||||+|||+++..++..|..
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34455555554432 35789999999999998888877653
No 473
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=87.18 E-value=0.9 Score=51.82 Aligned_cols=26 Identities=35% Similarity=0.586 Sum_probs=23.2
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~ 432 (1171)
..|+.||||||||+++..++..|...
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 38999999999999999999888755
No 474
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=87.14 E-value=0.71 Score=52.13 Aligned_cols=32 Identities=31% Similarity=0.577 Sum_probs=27.9
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
+++. |--|+|||||.+.+.+.|.+.+. |||++
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 4455 89999999999999999998876 89887
No 475
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=87.07 E-value=0.86 Score=56.93 Aligned_cols=23 Identities=35% Similarity=0.354 Sum_probs=19.0
Q ss_pred CCcEEEEcCCCChHhHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVY 427 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~ 427 (1171)
..-.+|.|++|+|||+++.++.-
T Consensus 419 G~~llI~G~SG~GKTsLlRaiaG 441 (604)
T COG4178 419 GERLLITGESGAGKTSLLRALAG 441 (604)
T ss_pred CCEEEEECCCCCCHHHHHHHHhc
Confidence 34579999999999998877663
No 476
>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=87.04 E-value=0.99 Score=47.42 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=25.8
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
+.+|.|++|+||||.+..+..+|-..+. ++.++
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 4689999999999999999888765444 55444
No 477
>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=0.8 Score=57.83 Aligned_cols=40 Identities=23% Similarity=0.415 Sum_probs=27.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApSN 444 (1171)
....++.|+||||||+++..++..+-...-..++++..+.
T Consensus 37 ~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~ 76 (608)
T TIGR00764 37 KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPE 76 (608)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCC
Confidence 5678999999999999988877655432213555555543
No 478
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=86.92 E-value=0.85 Score=51.92 Aligned_cols=24 Identities=38% Similarity=0.609 Sum_probs=18.4
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
+.+|+.||||.||||.+.-++..|
T Consensus 53 DHvLl~GPPGlGKTTLA~IIA~Em 76 (332)
T COG2255 53 DHVLLFGPPGLGKTTLAHIIANEL 76 (332)
T ss_pred CeEEeeCCCCCcHHHHHHHHHHHh
Confidence 468999999999998755554443
No 479
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=86.84 E-value=0.76 Score=53.88 Aligned_cols=24 Identities=29% Similarity=0.360 Sum_probs=19.5
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHH
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
+-+||.|+||||||+++..+...|
T Consensus 30 ~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHHC
Confidence 568999999999999877665543
No 480
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=86.79 E-value=0.47 Score=50.38 Aligned_cols=20 Identities=35% Similarity=0.605 Sum_probs=15.8
Q ss_pred cEEEEcCCCChHhHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIV 426 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI 426 (1171)
..+|+|.|||||||+...+-
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 46899999999999765443
No 481
>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=86.74 E-value=0.45 Score=58.50 Aligned_cols=21 Identities=48% Similarity=0.805 Sum_probs=18.3
Q ss_pred EEEEcCCCChHhHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1171)
.|+.||||||||+++..++..
T Consensus 91 iLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 91 VLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 789999999999998877654
No 482
>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=86.67 E-value=0.51 Score=51.20 Aligned_cols=21 Identities=33% Similarity=0.661 Sum_probs=17.3
Q ss_pred EEEEcCCCChHhHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYH 428 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~ 428 (1171)
.+|.||||+||||.+..+...
T Consensus 2 I~i~G~pGsGKsT~a~~La~~ 22 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEK 22 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 579999999999987776543
No 483
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=86.65 E-value=0.57 Score=48.66 Aligned_cols=22 Identities=41% Similarity=0.782 Sum_probs=18.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIV 426 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI 426 (1171)
.+-.||.|-|||||||+...++
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 5678999999999999877665
No 484
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=86.64 E-value=0.49 Score=55.90 Aligned_cols=23 Identities=30% Similarity=0.380 Sum_probs=19.0
Q ss_pred cEEEEcCCCChHhHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..+|+||||||||..+..++..+
T Consensus 150 gllL~GPPGcGKTllAraiA~el 172 (413)
T PLN00020 150 ILGIWGGKGQGKSFQCELVFKKM 172 (413)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHc
Confidence 47899999999999877776554
No 485
>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=86.62 E-value=0.79 Score=52.77 Aligned_cols=31 Identities=32% Similarity=0.545 Sum_probs=26.7
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
.++ |-.|+|||||++.+...|.+.++ |||++
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 344 99999999999999999998765 88776
No 486
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=86.58 E-value=21 Score=42.98 Aligned_cols=86 Identities=15% Similarity=0.224 Sum_probs=51.3
Q ss_pred HcCCCCCcEEEEecchhHHHHHHHHHHhccchhhhcCC----CeEEecccCcccCccCeEEEeccccCC--------cCC
Q 001054 704 RSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYK----EIEVASVDSFQGREKDYIILSCVRSNE--------HQG 771 (1171)
Q Consensus 704 k~Gv~~~dIGIITPY~aQv~~I~~~L~~~g~l~~~~~~----~V~V~TVdsfQG~E~DvVILS~VRSn~--------~~~ 771 (1171)
..-+.+++-+|-++....++++...+...+......+. .-+-..+-.|-|+-.-+.+++.+-... .-.
T Consensus 256 ~~~~~~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvin 335 (529)
T KOG0337|consen 256 GGRIKDKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVIN 335 (529)
T ss_pred hccccccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCcccccccc
Confidence 33345677888899999999999999876533222222 122235566777777777777664321 011
Q ss_pred cCCCCCcCceeeechhhc
Q 001054 772 IGFLNDPRRLNVALTRAR 789 (1171)
Q Consensus 772 iGFL~D~RRLNVALTRAK 789 (1171)
..|-.+.+++-+=+.|..
T Consensus 336 yd~p~~~klFvhRVgr~a 353 (529)
T KOG0337|consen 336 YDFPPDDKLFVHRVGRVA 353 (529)
T ss_pred ccCCCCCceEEEEecchh
Confidence 234455566655555544
No 487
>PRK05439 pantothenate kinase; Provisional
Probab=86.56 E-value=0.83 Score=53.00 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=24.3
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHc-CCCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~-~~~rILV~A 441 (1171)
+..|.|+||+||||++..+...|-+. ...+|.+++
T Consensus 88 iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 88 IIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 45699999999999988776655433 223565554
No 488
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=86.54 E-value=0.87 Score=51.32 Aligned_cols=32 Identities=31% Similarity=0.521 Sum_probs=28.0
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
..|.|-.|+||||+.+.++..|.+.+. +||++
T Consensus 3 ia~~gKGGVGKTT~a~nLA~~La~~G~-~Vlli 34 (275)
T TIGR01287 3 IAIYGKGGIGKSTTTQNIAAALAEMGK-KVMIV 34 (275)
T ss_pred eEEeCCCcCcHHHHHHHHHHHHHHCCC-eEEEE
Confidence 356799999999999999999998875 89886
No 489
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=86.50 E-value=0.9 Score=49.67 Aligned_cols=34 Identities=32% Similarity=0.588 Sum_probs=28.5
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEc
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~A 441 (1171)
+.++.|.+|+|||++.+.+...+.+.+. ++|++.
T Consensus 1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~-~~~l~~ 34 (217)
T cd02035 1 VIFFTGKGGVGKTTIAAATAVRLAEEGK-KVLLVS 34 (217)
T ss_pred CEEEeCCCCchHHHHHHHHHHHHHHCCC-cEEEEE
Confidence 3678999999999999999998888775 776664
No 490
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=86.42 E-value=0.75 Score=58.24 Aligned_cols=38 Identities=29% Similarity=0.486 Sum_probs=26.1
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcC
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~Ap 442 (1171)
....+|.||||||||+++..+...+-...-..++++..
T Consensus 50 ~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n 87 (637)
T PRK13765 50 RRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN 87 (637)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC
Confidence 66899999999999999888776543222124454443
No 491
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=86.38 E-value=0.88 Score=52.21 Aligned_cols=32 Identities=34% Similarity=0.522 Sum_probs=28.3
Q ss_pred EEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
..|.|-.|+|||||.+.+.+.|.+.+. |||++
T Consensus 3 ia~~gKGGVGKTTta~nLA~~La~~G~-rVLlI 34 (290)
T CHL00072 3 LAVYGKGGIGKSTTSCNISIALARRGK-KVLQI 34 (290)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCC-eEEEE
Confidence 357899999999999999999998876 88887
No 492
>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=86.37 E-value=0.83 Score=52.60 Aligned_cols=50 Identities=16% Similarity=0.244 Sum_probs=31.9
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHc-----CCCcEEEEcCcHH-HHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSNV-AVDQLAEKI 454 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~-----~~~rILV~ApSN~-AVD~L~eRL 454 (1171)
..+++|.|+||||||+++..++...... ...+++.+..-.. -.+.|.+.+
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~ 150 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMA 150 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHH
Confidence 4578999999999999999887665421 1226666654331 234444433
No 493
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=86.34 E-value=0.82 Score=51.29 Aligned_cols=30 Identities=37% Similarity=0.540 Sum_probs=26.3
Q ss_pred EEcCCCChHhHHHHHHHHHHHHcCCCcEEEE
Q 001054 410 IQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1171)
Q Consensus 410 IqGPPGTGKTtTla~iI~~Llk~~~~rILV~ 440 (1171)
|.|--|+|||||.+.++..|.+.+. |||++
T Consensus 5 ~~gKGGVGKTT~~~nLA~~La~~g~-rVLli 34 (268)
T TIGR01281 5 VYGKGGIGKSTTSSNLSVAFAKLGK-RVLQI 34 (268)
T ss_pred EEcCCcCcHHHHHHHHHHHHHhCCC-eEEEE
Confidence 4489999999999999999998765 89887
No 494
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=86.31 E-value=0.54 Score=52.75 Aligned_cols=36 Identities=22% Similarity=0.281 Sum_probs=26.4
Q ss_pred HHHHHHHhhc-----CCcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 395 QVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 395 Q~~AV~~aL~-----~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
..+.|...|. ..+..|+|++|+|||+++..++....
T Consensus 4 ~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~ 44 (287)
T PF00931_consen 4 EIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLR 44 (287)
T ss_dssp HHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHH
T ss_pred HHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccc
Confidence 4445544443 35788999999999999988886644
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=86.30 E-value=0.78 Score=49.35 Aligned_cols=39 Identities=26% Similarity=0.458 Sum_probs=27.5
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHHHHc---CCCcEEEEcCc
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPS 443 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~Llk~---~~~rILV~ApS 443 (1171)
.+..||.|.+|+|||+++..++..++.. ...+|.++-+.
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 4468999999999999999999998874 23356666554
No 496
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=86.30 E-value=0.44 Score=58.72 Aligned_cols=22 Identities=45% Similarity=0.779 Sum_probs=19.4
Q ss_pred EEEEcCCCChHhHHHHHHHHHH
Q 001054 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 408 sLIqGPPGTGKTtTla~iI~~L 429 (1171)
+|++||||||||.++-+++.+|
T Consensus 226 vLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 226 VLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred eeeeCCCCccHHHHHHHHhhhc
Confidence 6999999999999988887665
No 497
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=86.27 E-value=0.56 Score=49.20 Aligned_cols=27 Identities=33% Similarity=0.620 Sum_probs=22.0
Q ss_pred cCCcEEEEcCCCChHhHHHHHHHHHHH
Q 001054 404 QRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1171)
Q Consensus 404 ~~~lsLIqGPPGTGKTtTla~iI~~Ll 430 (1171)
..++.+|.|+-||||||++-++.+.|-
T Consensus 18 ~~g~~vi~G~Ng~GKStil~ai~~~L~ 44 (202)
T PF13476_consen 18 SPGLNVIYGPNGSGKSTILEAIRYALG 44 (202)
T ss_dssp -SEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred CCCcEEEECCCCCCHHHHHHHHHHHHc
Confidence 368999999999999999977765553
No 498
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=86.27 E-value=1.1 Score=46.75 Aligned_cols=54 Identities=20% Similarity=0.380 Sum_probs=32.7
Q ss_pred CcEEEEcCCCChHhHHHHHHHHHHHHcCCCcEEEEcCc--HHHHHHHHHHHHhcCCeEEEe
Q 001054 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS--NVAVDQLAEKISATGLKVVRL 464 (1171)
Q Consensus 406 ~lsLIqGPPGTGKTtTla~iI~~Llk~~~~rILV~ApS--N~AVD~L~eRL~~~glkVVRl 464 (1171)
++++|.|+.|+||||++..++... ...++.++... ...+| .+.+...+..++.+
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~~~---~~~~~~~i~~~~G~~~~d--~~~~~~~~~~v~~l 56 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILTEQ---HGRKIAVIENEFGEVGID--NQLVVDTDEEIIEM 56 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHhcc---cCCcEEEEecCCCccchh--HHHHhCCCceEEEe
Confidence 468999999999999998877542 22355555433 23333 23333344445554
No 499
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.09 E-value=0.76 Score=54.98 Aligned_cols=25 Identities=20% Similarity=0.239 Sum_probs=20.7
Q ss_pred cEEEEcCCCChHhHHHHHHHHHHHH
Q 001054 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1171)
Q Consensus 407 lsLIqGPPGTGKTtTla~iI~~Llk 431 (1171)
..|++||||+|||+++..++..|.-
T Consensus 40 a~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 40 GYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3789999999999998888776643
No 500
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=86.04 E-value=0.85 Score=53.28 Aligned_cols=25 Identities=44% Similarity=0.623 Sum_probs=21.7
Q ss_pred CCcEEEEcCCCChHhHHHHHHHHHH
Q 001054 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1171)
Q Consensus 405 ~~lsLIqGPPGTGKTtTla~iI~~L 429 (1171)
..-.||.||||||||-++..+...|
T Consensus 65 GrgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 65 GRGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred ccEEEEECCCCCcHHHHHHHHHHHh
Confidence 3468999999999999999888776
Done!