Query 001718
Match_columns 1021
No_of_seqs 624 out of 2635
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 07:39:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001718.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001718hhsearch_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 6E-179 1E-183 1504.8 63.5 787 118-916 38-930 (935)
2 TIGR00376 DNA helicase, putati 100.0 1.8E-79 3.8E-84 742.3 51.7 551 244-825 26-636 (637)
3 KOG1803 DNA helicase [Replicat 100.0 3.9E-79 8.5E-84 696.3 32.7 554 256-824 53-633 (649)
4 KOG1805 DNA replication helica 100.0 1.9E-62 4.1E-67 578.8 25.3 389 388-821 667-1077(1100)
5 KOG1807 Helicases [Replication 100.0 3.1E-51 6.6E-56 471.7 24.9 283 526-822 693-979 (1025)
6 COG1112 Superfamily I DNA and 100.0 6.9E-45 1.5E-49 454.3 36.6 487 326-824 207-754 (767)
7 PF09416 UPF1_Zn_bind: RNA hel 100.0 4.9E-47 1.1E-51 371.0 6.8 95 143-239 1-95 (152)
8 KOG1801 tRNA-splicing endonucl 100.0 3.3E-35 7.1E-40 364.5 25.7 294 530-825 513-815 (827)
9 KOG1804 RNA helicase [RNA proc 100.0 8.6E-36 1.9E-40 357.3 11.0 373 405-824 326-724 (775)
10 PF13087 AAA_12: AAA domain; P 100.0 4.7E-34 1E-38 299.5 8.2 195 602-799 1-200 (200)
11 PRK11773 uvrD DNA-dependent he 100.0 1.9E-31 4.2E-36 330.4 14.4 304 389-729 8-367 (721)
12 PF13086 AAA_11: AAA domain; P 100.0 1E-30 2.3E-35 278.0 17.7 204 390-594 1-235 (236)
13 TIGR01075 uvrD DNA helicase II 100.0 5.1E-31 1.1E-35 326.8 16.6 307 389-728 3-361 (715)
14 TIGR01073 pcrA ATP-dependent D 100.0 1.9E-30 4.2E-35 322.3 17.8 304 389-727 3-362 (726)
15 PRK10919 ATP-dependent DNA hel 100.0 3.5E-30 7.5E-35 316.1 16.2 238 390-641 2-294 (672)
16 PRK10875 recD exonuclease V su 100.0 2.3E-29 5.1E-34 302.6 19.3 153 391-594 153-310 (615)
17 PRK11054 helD DNA helicase IV; 100.0 4.2E-29 9.1E-34 304.7 19.6 365 389-798 195-663 (684)
18 TIGR01447 recD exodeoxyribonuc 100.0 1.6E-29 3.5E-34 303.5 15.2 346 393-801 148-574 (586)
19 KOG1806 DEAD box containing he 99.9 5.2E-28 1.1E-32 286.6 12.2 417 390-813 738-1262(1320)
20 TIGR01074 rep ATP-dependent DN 99.9 1.5E-27 3.2E-32 294.3 14.8 298 390-720 1-352 (664)
21 TIGR01448 recD_rel helicase, p 99.9 8.9E-27 1.9E-31 287.1 20.2 299 389-801 322-701 (720)
22 COG0210 UvrD Superfamily I DNA 99.9 3.8E-25 8.1E-30 272.6 19.5 310 390-731 2-371 (655)
23 TIGR02768 TraA_Ti Ti-type conj 99.9 2.9E-23 6.4E-28 256.8 23.3 299 389-810 351-722 (744)
24 TIGR02785 addA_Gpos recombinat 99.9 1.9E-23 4.2E-28 271.1 19.7 65 390-456 1-67 (1232)
25 TIGR00609 recB exodeoxyribonuc 99.9 2E-23 4.3E-28 268.2 18.7 170 550-733 295-493 (1087)
26 COG1074 RecB ATP-dependent exo 99.9 1.5E-23 3.3E-28 269.7 13.5 170 550-732 377-577 (1139)
27 PRK13826 Dtr system oriT relax 99.9 4.1E-22 9E-27 249.8 22.9 168 389-642 380-551 (1102)
28 PRK13889 conjugal transfer rel 99.9 3.5E-22 7.6E-27 249.6 21.7 169 389-643 345-517 (988)
29 PRK13909 putative recombinatio 99.9 5.1E-22 1.1E-26 251.7 20.9 153 550-732 327-494 (910)
30 PRK10876 recB exonuclease V su 99.9 7.4E-22 1.6E-26 254.4 15.5 170 550-733 376-575 (1181)
31 TIGR02784 addA_alphas double-s 99.9 1.1E-20 2.3E-25 245.5 20.7 168 550-730 390-606 (1141)
32 PF13604 AAA_30: AAA domain; P 99.8 1.6E-19 3.5E-24 190.1 9.8 174 390-644 1-179 (196)
33 PRK13709 conjugal transfer nic 99.8 3E-18 6.4E-23 223.3 20.8 173 389-643 966-1147(1747)
34 PRK14712 conjugal transfer nic 99.8 3.8E-18 8.2E-23 219.5 21.1 166 389-635 834-1008(1623)
35 TIGR02760 TraI_TIGR conjugativ 99.7 1.6E-16 3.4E-21 212.6 19.0 171 389-642 1018-1198(1960)
36 COG3973 Superfamily I DNA and 99.7 7.4E-17 1.6E-21 185.8 13.2 207 550-797 527-745 (747)
37 PF01443 Viral_helicase1: Vira 99.7 1.8E-16 3.8E-21 170.4 10.3 168 551-795 62-233 (234)
38 PF00580 UvrD-helicase: UvrD/R 99.6 9.5E-16 2.1E-20 170.9 7.0 64 391-456 1-67 (315)
39 TIGR02760 TraI_TIGR conjugativ 99.5 1.5E-13 3.2E-18 184.5 22.6 167 390-630 429-601 (1960)
40 COG0507 RecD ATP-dependent exo 99.5 1.3E-14 2.9E-19 180.4 10.6 133 389-595 318-453 (696)
41 PF09848 DUF2075: Uncharacteri 99.5 5.3E-14 1.2E-18 161.3 9.8 164 406-642 2-183 (352)
42 COG3972 Superfamily I DNA and 99.5 1.1E-13 2.4E-18 156.5 8.9 365 389-796 161-574 (660)
43 PF13361 UvrD_C: UvrD-like hel 99.3 9.4E-13 2E-17 148.4 4.7 96 618-733 1-101 (351)
44 PF05970 PIF1: PIF1-like helic 99.3 1.9E-12 4.2E-17 149.1 6.3 60 390-450 1-66 (364)
45 PF13245 AAA_19: Part of AAA d 99.2 1.5E-11 3.3E-16 109.9 7.6 58 397-454 1-62 (76)
46 PRK10536 hypothetical protein; 98.9 5.2E-09 1.1E-13 113.6 11.4 58 386-443 55-113 (262)
47 PF02562 PhoH: PhoH-like prote 98.9 1.5E-09 3.3E-14 114.8 6.7 56 389-444 3-59 (205)
48 TIGR02773 addB_Gpos ATP-depend 98.9 3.5E-08 7.6E-13 129.6 17.9 160 551-733 196-361 (1158)
49 smart00487 DEXDc DEAD-like hel 98.7 8.7E-08 1.9E-12 98.2 11.8 69 389-457 7-77 (201)
50 KOG1804 RNA helicase [RNA proc 98.7 6.5E-09 1.4E-13 126.9 1.4 391 388-827 118-550 (775)
51 PRK10590 ATP-dependent RNA hel 98.6 1.9E-05 4E-10 94.2 27.6 70 388-457 21-98 (456)
52 PF13538 UvrD_C_2: UvrD-like h 98.6 1.2E-08 2.5E-13 96.1 0.3 50 742-795 55-104 (104)
53 cd00046 DEXDc DEAD-like helica 98.5 5.3E-07 1.2E-11 86.8 10.2 51 407-457 2-53 (144)
54 KOG2108 3'-5' DNA helicase [Re 98.5 1E-07 2.2E-12 115.6 5.0 65 390-456 13-80 (853)
55 PF00270 DEAD: DEAD/DEAH box h 98.4 4.3E-06 9.3E-11 84.9 13.2 66 392-457 1-67 (169)
56 PRK11634 ATP-dependent RNA hel 98.3 2.1E-05 4.6E-10 97.1 20.2 69 388-456 26-96 (629)
57 PRK04537 ATP-dependent RNA hel 98.3 0.0011 2.3E-08 81.5 34.7 70 388-457 29-107 (572)
58 cd00268 DEADc DEAD-box helicas 98.3 8.8E-06 1.9E-10 85.7 13.8 69 389-457 20-92 (203)
59 PHA02558 uvsW UvsW helicase; P 98.2 6.7E-06 1.5E-10 99.1 12.7 69 389-457 113-181 (501)
60 TIGR00580 mfd transcription-re 98.2 2.7E-05 5.8E-10 99.4 18.3 66 390-456 451-522 (926)
61 PRK11192 ATP-dependent RNA hel 98.2 1.2E-05 2.6E-10 95.1 12.4 69 389-457 22-96 (434)
62 PRK10689 transcription-repair 98.1 4.3E-05 9.3E-10 99.6 18.0 66 390-456 600-671 (1147)
63 PRK05580 primosome assembly pr 98.1 3E-05 6.6E-10 96.6 15.3 73 389-462 143-219 (679)
64 PRK11776 ATP-dependent RNA hel 98.0 5.1E-05 1.1E-09 90.6 14.4 70 388-457 24-95 (460)
65 PTZ00424 helicase 45; Provisio 98.0 2.9E-05 6.3E-10 90.6 12.0 70 388-457 48-119 (401)
66 PF07652 Flavi_DEAD: Flaviviru 98.0 1.2E-05 2.7E-10 80.1 7.3 53 405-458 4-57 (148)
67 PRK10917 ATP-dependent DNA hel 98.0 5.8E-05 1.3E-09 94.3 13.9 67 390-457 261-333 (681)
68 TIGR00643 recG ATP-dependent D 98.0 5.9E-05 1.3E-09 93.5 13.7 67 390-457 235-307 (630)
69 PRK02362 ski2-like helicase; P 97.9 2.1E-05 4.5E-10 99.3 9.2 69 388-457 21-90 (737)
70 PRK00254 ski2-like helicase; P 97.9 4.3E-05 9.3E-10 96.2 11.2 68 388-456 21-90 (720)
71 PRK04837 ATP-dependent RNA hel 97.9 8.1E-05 1.8E-09 87.9 11.8 69 388-456 28-105 (423)
72 PRK01172 ski2-like helicase; P 97.9 8.1E-05 1.8E-09 93.1 12.4 66 390-456 22-87 (674)
73 COG1875 NYN ribonuclease and A 97.8 6.8E-05 1.5E-09 84.2 9.8 56 388-443 226-285 (436)
74 PF04851 ResIII: Type III rest 97.8 3.5E-05 7.6E-10 78.9 7.1 63 390-456 3-72 (184)
75 COG1061 SSL2 DNA or RNA helica 97.8 7.4E-05 1.6E-09 88.8 10.4 65 389-457 35-103 (442)
76 PTZ00110 helicase; Provisional 97.7 0.00031 6.7E-09 85.7 14.5 70 388-457 150-226 (545)
77 TIGR03817 DECH_helic helicase/ 97.7 0.00024 5.3E-09 89.4 13.3 71 388-458 34-105 (742)
78 COG1702 PhoH Phosphate starvat 97.7 0.00015 3.2E-09 81.4 9.8 55 388-442 126-181 (348)
79 PRK11448 hsdR type I restricti 97.7 0.00016 3.6E-09 94.0 11.7 69 390-458 413-487 (1123)
80 PRK13766 Hef nuclease; Provisi 97.7 0.00026 5.7E-09 89.9 13.1 67 390-457 15-81 (773)
81 PRK01297 ATP-dependent RNA hel 97.6 0.0003 6.6E-09 84.4 12.0 70 388-457 107-185 (475)
82 TIGR01054 rgy reverse gyrase. 97.6 0.00024 5.2E-09 93.1 11.3 67 390-457 78-144 (1171)
83 PRK08181 transposase; Validate 97.6 0.00062 1.4E-08 75.6 12.6 53 388-441 85-141 (269)
84 PRK14712 conjugal transfer nic 97.6 0.00041 8.8E-09 91.9 12.8 64 389-453 280-346 (1623)
85 PRK09401 reverse gyrase; Revie 97.6 0.00038 8.2E-09 91.2 12.5 68 390-458 80-147 (1176)
86 COG1204 Superfamily II helicas 97.5 0.00029 6.2E-09 88.5 10.5 77 388-464 29-109 (766)
87 TIGR00603 rad25 DNA repair hel 97.5 0.00067 1.5E-08 84.2 13.5 65 389-457 254-321 (732)
88 PHA02653 RNA helicase NPH-II; 97.5 0.00088 1.9E-08 83.1 14.1 75 382-456 155-244 (675)
89 TIGR00614 recQ_fam ATP-depende 97.5 0.0011 2.4E-08 79.4 14.7 74 388-465 9-82 (470)
90 PLN00206 DEAD-box ATP-dependen 97.5 0.00071 1.5E-08 82.1 12.8 68 389-456 142-218 (518)
91 PRK06526 transposase; Provisio 97.5 0.00067 1.5E-08 74.8 11.2 51 388-439 78-131 (254)
92 TIGR03117 cas_csf4 CRISPR-asso 97.5 0.0011 2.4E-08 81.4 14.0 58 398-455 8-67 (636)
93 smart00488 DEXDc2 DEAD-like he 97.4 0.0016 3.5E-08 73.1 13.9 65 392-456 10-83 (289)
94 smart00489 DEXDc3 DEAD-like he 97.4 0.0016 3.5E-08 73.1 13.9 65 392-456 10-83 (289)
95 PF13401 AAA_22: AAA domain; P 97.4 0.00014 2.9E-09 70.9 4.4 50 405-454 4-58 (131)
96 TIGR00348 hsdR type I site-spe 97.4 0.00081 1.8E-08 83.9 12.1 68 391-458 239-317 (667)
97 PRK14974 cell division protein 97.4 0.0015 3.3E-08 74.7 13.2 56 406-462 141-199 (336)
98 PRK04296 thymidine kinase; Pro 97.4 0.00037 8E-09 73.4 7.4 36 406-442 3-38 (190)
99 PRK14701 reverse gyrase; Provi 97.4 0.0012 2.7E-08 88.6 13.9 67 390-457 79-145 (1638)
100 PF05127 Helicase_RecD: Helica 97.4 2.4E-05 5.2E-10 81.2 -1.8 46 409-454 1-46 (177)
101 TIGR01389 recQ ATP-dependent D 97.4 0.0022 4.8E-08 79.1 14.8 73 388-464 11-83 (591)
102 COG4098 comFA Superfamily II D 97.3 0.00079 1.7E-08 75.0 9.5 76 390-466 97-178 (441)
103 TIGR00595 priA primosomal prot 97.3 0.001 2.2E-08 80.4 11.4 48 409-457 1-48 (505)
104 PRK13767 ATP-dependent helicas 97.3 0.0012 2.5E-08 84.9 12.5 67 389-455 31-105 (876)
105 PRK11664 ATP-dependent RNA hel 97.3 0.00099 2.1E-08 84.6 11.3 61 395-456 9-70 (812)
106 TIGR01970 DEAH_box_HrpB ATP-de 97.3 0.0011 2.3E-08 84.1 11.2 61 395-456 6-67 (819)
107 TIGR00604 rad3 DNA repair heli 97.2 0.0015 3.4E-08 82.1 12.0 65 392-456 12-82 (705)
108 PRK11057 ATP-dependent DNA hel 97.2 0.0028 6.2E-08 78.4 14.1 70 389-462 24-93 (607)
109 COG1110 Reverse gyrase [DNA re 97.2 0.0012 2.5E-08 82.3 10.2 68 390-458 82-149 (1187)
110 PF00448 SRP54: SRP54-type pro 97.2 0.0024 5.2E-08 67.7 11.1 57 407-463 3-61 (196)
111 COG1198 PriA Primosomal protei 97.2 0.0017 3.8E-08 80.5 11.1 68 388-456 196-267 (730)
112 COG4096 HsdR Type I site-speci 97.2 0.0011 2.4E-08 81.3 9.0 68 390-457 165-238 (875)
113 KOG0952 DNA/RNA helicase MER3/ 97.1 0.0021 4.5E-08 80.2 11.2 69 388-456 108-186 (1230)
114 PRK13709 conjugal transfer nic 97.1 0.0035 7.5E-08 84.4 14.1 62 391-453 414-478 (1747)
115 PRK08084 DNA replication initi 97.1 0.004 8.7E-08 67.9 12.1 52 390-442 27-81 (235)
116 TIGR01587 cas3_core CRISPR-ass 97.1 0.0021 4.5E-08 74.0 10.3 50 408-457 2-52 (358)
117 KOG0354 DEAD-box like helicase 97.1 0.0016 3.6E-08 79.8 9.6 72 386-458 58-130 (746)
118 KOG2108 3'-5' DNA helicase [Re 97.1 0.00011 2.3E-09 90.0 -0.8 53 743-795 675-740 (853)
119 PRK07246 bifunctional ATP-depe 97.0 0.0037 8E-08 79.7 12.5 62 390-453 245-310 (820)
120 PF00176 SNF2_N: SNF2 family N 97.0 0.001 2.2E-08 73.9 6.7 62 395-457 2-80 (299)
121 PF02399 Herpes_ori_bp: Origin 97.0 0.0015 3.3E-08 80.7 7.9 55 405-459 49-103 (824)
122 PF13173 AAA_14: AAA domain 96.9 0.0034 7.4E-08 61.6 8.6 41 405-447 2-42 (128)
123 PHA03311 helicase-primase subu 96.9 0.0054 1.2E-07 74.8 11.1 45 406-456 72-116 (828)
124 TIGR01407 dinG_rel DnaQ family 96.9 0.0039 8.4E-08 80.1 10.7 62 391-453 246-311 (850)
125 PRK08074 bifunctional ATP-depe 96.8 0.0078 1.7E-07 78.0 12.9 62 392-453 259-324 (928)
126 PRK12377 putative replication 96.8 0.0052 1.1E-07 67.5 9.7 49 392-441 80-136 (248)
127 PRK14722 flhF flagellar biosyn 96.8 0.0062 1.3E-07 70.6 10.3 55 405-459 137-195 (374)
128 TIGR03158 cas3_cyano CRISPR-as 96.7 0.012 2.5E-07 68.3 12.4 59 395-457 2-62 (357)
129 COG1200 RecG RecG-like helicas 96.7 0.01 2.2E-07 72.2 12.0 66 390-456 262-333 (677)
130 cd00009 AAA The AAA+ (ATPases 96.7 0.0046 1E-07 59.8 7.8 55 393-448 4-61 (151)
131 TIGR03499 FlhF flagellar biosy 96.7 0.0082 1.8E-07 67.3 10.3 36 407-442 196-232 (282)
132 PRK12723 flagellar biosynthesi 96.7 0.0081 1.8E-07 70.1 10.5 56 406-461 175-236 (388)
133 COG1111 MPH1 ERCC4-like helica 96.6 0.0087 1.9E-07 70.2 10.2 121 392-565 17-145 (542)
134 cd01124 KaiC KaiC is a circadi 96.6 0.003 6.5E-08 65.4 6.0 52 407-460 1-52 (187)
135 PRK00771 signal recognition pa 96.6 0.011 2.3E-07 70.1 11.3 53 407-460 97-152 (437)
136 TIGR01967 DEAH_box_HrpA ATP-de 96.6 0.0062 1.4E-07 79.8 10.1 62 395-456 71-133 (1283)
137 TIGR02621 cas3_GSU0051 CRISPR- 96.6 0.007 1.5E-07 76.3 10.1 67 391-457 16-85 (844)
138 PRK07952 DNA replication prote 96.6 0.0073 1.6E-07 66.2 9.1 50 391-441 77-134 (244)
139 COG0513 SrmB Superfamily II DN 96.6 0.03 6.5E-07 68.0 15.1 69 389-457 50-122 (513)
140 PRK11747 dinG ATP-dependent DN 96.6 0.025 5.3E-07 71.2 14.7 59 393-453 28-97 (697)
141 TIGR03015 pepcterm_ATPase puta 96.6 0.019 4.2E-07 63.1 12.3 38 392-429 25-67 (269)
142 PRK05703 flhF flagellar biosyn 96.5 0.018 4E-07 68.1 12.4 48 406-453 222-273 (424)
143 PRK11889 flhF flagellar biosyn 96.5 0.014 3.1E-07 67.7 10.9 55 406-461 242-299 (436)
144 COG4889 Predicted helicase [Ge 96.5 0.014 3E-07 71.7 10.9 57 389-449 160-221 (1518)
145 PRK07003 DNA polymerase III su 96.5 0.0055 1.2E-07 75.9 7.7 24 407-430 40-63 (830)
146 PRK11131 ATP-dependent RNA hel 96.5 0.0045 9.7E-08 80.9 7.1 62 395-456 78-140 (1294)
147 TIGR01425 SRP54_euk signal rec 96.5 0.027 5.9E-07 66.4 12.9 55 406-461 101-158 (429)
148 PRK12899 secA preprotein trans 96.4 0.022 4.8E-07 72.0 12.1 66 390-456 92-157 (970)
149 PRK04914 ATP-dependent helicas 96.3 0.037 8.1E-07 71.3 14.2 72 389-460 151-225 (956)
150 PRK12898 secA preprotein trans 96.3 0.031 6.6E-07 69.1 12.7 71 391-464 104-178 (656)
151 COG1199 DinG Rad3-related DNA 96.3 0.029 6.2E-07 70.2 12.7 68 390-457 15-86 (654)
152 PRK14956 DNA polymerase III su 96.3 0.0091 2E-07 71.0 7.6 25 407-431 42-66 (484)
153 COG1201 Lhr Lhr-like helicases 96.3 0.017 3.7E-07 72.5 10.3 68 389-456 21-95 (814)
154 PRK12323 DNA polymerase III su 96.2 0.0093 2E-07 73.0 7.7 25 407-431 40-64 (700)
155 PRK14958 DNA polymerase III su 96.2 0.01 2.2E-07 71.8 8.0 25 407-431 40-64 (509)
156 PRK07994 DNA polymerase III su 96.2 0.0094 2E-07 73.6 7.4 24 408-431 41-64 (647)
157 TIGR00064 ftsY signal recognit 96.1 0.016 3.4E-07 64.8 7.8 56 406-462 73-131 (272)
158 KOG1924 RhoA GTPase effector D 96.1 0.025 5.5E-07 68.5 9.8 11 776-786 447-457 (1102)
159 smart00382 AAA ATPases associa 96.0 0.0051 1.1E-07 58.8 3.4 42 405-447 2-43 (148)
160 PRK14087 dnaA chromosomal repl 96.0 0.066 1.4E-06 64.0 13.3 36 406-441 142-178 (450)
161 COG1643 HrpA HrpA-like helicas 96.0 0.029 6.2E-07 71.0 10.6 64 394-457 53-117 (845)
162 PHA03333 putative ATPase subun 96.0 0.12 2.5E-06 63.6 15.3 64 393-456 175-238 (752)
163 PRK14949 DNA polymerase III su 96.0 0.0093 2E-07 75.2 6.2 25 407-431 40-64 (944)
164 PLN03137 ATP-dependent DNA hel 96.0 0.061 1.3E-06 69.5 13.5 72 389-464 459-530 (1195)
165 PRK14088 dnaA chromosomal repl 96.0 0.039 8.5E-07 65.8 11.3 35 407-441 132-167 (440)
166 PF06745 KaiC: KaiC; InterPro 95.9 0.013 2.9E-07 63.0 6.4 54 405-460 19-73 (226)
167 COG1205 Distinct helicase fami 95.9 0.043 9.3E-07 70.2 11.8 68 390-457 70-138 (851)
168 KOG0989 Replication factor C, 95.9 0.0083 1.8E-07 66.6 4.7 27 405-431 57-83 (346)
169 PRK14952 DNA polymerase III su 95.9 0.013 2.8E-07 71.9 6.7 24 407-430 37-60 (584)
170 COG2256 MGS1 ATPase related to 95.9 0.023 4.9E-07 65.4 8.1 40 553-593 106-147 (436)
171 TIGR03714 secA2 accessory Sec 95.8 0.036 7.7E-07 69.4 10.2 64 390-455 68-132 (762)
172 PF01695 IstB_IS21: IstB-like 95.8 0.025 5.4E-07 59.1 7.5 45 405-455 47-91 (178)
173 PRK12422 chromosomal replicati 95.8 0.065 1.4E-06 63.9 11.9 35 406-441 142-176 (445)
174 PRK00149 dnaA chromosomal repl 95.7 0.072 1.6E-06 63.7 12.2 36 406-441 149-185 (450)
175 KOG2028 ATPase related to the 95.7 0.022 4.8E-07 64.4 7.1 39 552-591 223-263 (554)
176 COG1484 DnaC DNA replication p 95.7 0.017 3.7E-07 63.8 6.3 52 390-442 83-141 (254)
177 PRK14963 DNA polymerase III su 95.7 0.033 7.2E-07 67.4 9.2 26 407-432 38-63 (504)
178 TIGR00708 cobA cob(I)alamin ad 95.7 0.05 1.1E-06 56.6 9.1 39 405-444 5-43 (173)
179 PRK12727 flagellar biosynthesi 95.7 0.046 9.9E-07 65.8 9.9 37 405-441 350-387 (559)
180 PRK10416 signal recognition pa 95.7 0.027 5.8E-07 64.3 7.8 55 407-462 116-173 (318)
181 KOG0987 DNA helicase PIF1/RRM3 95.7 0.0078 1.7E-07 73.4 3.7 58 389-448 116-179 (540)
182 cd00561 CobA_CobO_BtuR ATP:cor 95.6 0.1 2.2E-06 53.6 10.9 59 405-466 2-64 (159)
183 KOG0330 ATP-dependent RNA heli 95.6 0.034 7.3E-07 63.4 8.0 68 390-457 83-152 (476)
184 cd01129 PulE-GspE PulE/GspE Th 95.5 0.02 4.3E-07 63.6 6.0 50 390-440 63-114 (264)
185 TIGR03877 thermo_KaiC_1 KaiC d 95.5 0.019 4.1E-07 62.6 5.6 54 405-460 21-74 (237)
186 PRK14948 DNA polymerase III su 95.5 0.028 6.1E-07 69.6 7.5 26 406-431 39-64 (620)
187 PRK08116 hypothetical protein; 95.5 0.047 1E-06 60.8 8.6 34 407-441 116-149 (268)
188 COG1197 Mfd Transcription-repa 95.5 0.19 4.1E-06 64.9 14.8 73 390-463 594-676 (1139)
189 PRK14951 DNA polymerase III su 95.4 0.023 5E-07 70.0 6.6 25 407-431 40-64 (618)
190 PRK05973 replicative DNA helic 95.4 0.024 5.1E-07 62.0 6.0 53 405-459 64-116 (237)
191 PRK08691 DNA polymerase III su 95.4 0.024 5.1E-07 70.2 6.6 26 407-432 40-65 (709)
192 PRK05563 DNA polymerase III su 95.4 0.03 6.6E-07 68.6 7.4 26 406-431 39-64 (559)
193 cd03115 SRP The signal recogni 95.4 0.038 8.2E-07 56.9 7.0 34 407-441 2-35 (173)
194 cd01131 PilT Pilus retraction 95.3 0.02 4.4E-07 60.7 5.0 37 405-441 1-37 (198)
195 PF00004 AAA: ATPase family as 95.3 0.013 2.8E-07 56.7 3.1 22 408-429 1-22 (132)
196 PRK14960 DNA polymerase III su 95.3 0.023 4.9E-07 69.9 5.7 25 406-430 38-62 (702)
197 PRK14969 DNA polymerase III su 95.3 0.047 1E-06 66.5 8.5 24 407-430 40-63 (527)
198 PRK06893 DNA replication initi 95.3 0.07 1.5E-06 57.9 9.0 37 405-442 39-75 (229)
199 PRK09183 transposase/IS protei 95.2 0.04 8.7E-07 61.0 7.1 53 388-441 82-137 (259)
200 PRK09112 DNA polymerase III su 95.2 0.048 1E-06 63.1 8.0 26 407-432 47-72 (351)
201 cd01120 RecA-like_NTPases RecA 95.2 0.029 6.4E-07 55.8 5.6 41 407-448 1-41 (165)
202 PRK08533 flagellar accessory p 95.2 0.029 6.3E-07 61.0 5.9 53 405-459 24-76 (230)
203 PRK09200 preprotein translocas 95.2 0.14 3.1E-06 64.6 12.4 62 392-456 80-141 (790)
204 COG2805 PilT Tfp pilus assembl 95.2 0.027 5.8E-07 62.6 5.4 34 405-438 125-158 (353)
205 TIGR02774 rexB_recomb ATP-depe 95.2 0.31 6.8E-06 64.3 16.0 154 551-732 185-348 (1076)
206 TIGR03880 KaiC_arch_3 KaiC dom 95.2 0.034 7.3E-07 59.9 6.1 54 405-460 16-69 (224)
207 COG0552 FtsY Signal recognitio 95.1 0.047 1E-06 61.7 7.2 58 407-464 141-200 (340)
208 TIGR02688 conserved hypothetic 95.1 0.096 2.1E-06 61.4 9.9 29 405-433 209-238 (449)
209 TIGR03878 thermo_KaiC_2 KaiC d 95.1 0.03 6.4E-07 62.0 5.6 39 405-444 36-74 (259)
210 KOG0333 U5 snRNP-like RNA heli 95.1 0.31 6.6E-06 57.7 13.8 79 387-465 264-357 (673)
211 PRK13833 conjugal transfer pro 95.1 0.043 9.2E-07 62.7 6.9 50 390-439 128-179 (323)
212 PRK13894 conjugal transfer ATP 95.1 0.044 9.6E-07 62.5 7.0 53 390-442 132-186 (319)
213 PRK14964 DNA polymerase III su 95.0 0.076 1.7E-06 63.8 9.1 24 407-430 37-60 (491)
214 KOG0744 AAA+-type ATPase [Post 95.0 0.016 3.4E-07 64.8 2.9 27 405-431 177-203 (423)
215 PRK10867 signal recognition pa 95.0 0.05 1.1E-06 64.5 7.2 55 407-462 102-160 (433)
216 KOG1924 RhoA GTPase effector D 95.0 0.14 3.1E-06 62.4 10.8 18 979-996 614-631 (1102)
217 smart00763 AAA_PrkA PrkA AAA d 94.9 0.059 1.3E-06 62.0 7.5 27 405-431 78-104 (361)
218 PRK04328 hypothetical protein; 94.9 0.04 8.7E-07 60.6 5.9 54 405-460 23-76 (249)
219 PRK06067 flagellar accessory p 94.9 0.045 9.8E-07 59.4 6.2 55 405-461 25-79 (234)
220 TIGR02782 TrbB_P P-type conjug 94.9 0.052 1.1E-06 61.4 6.8 52 390-441 116-169 (299)
221 PF02689 Herpes_Helicase: Heli 94.9 0.075 1.6E-06 65.4 8.3 48 403-456 57-104 (818)
222 PRK14086 dnaA chromosomal repl 94.8 0.17 3.7E-06 62.1 11.4 36 406-441 315-351 (617)
223 PF13191 AAA_16: AAA ATPase do 94.8 0.037 8.1E-07 56.8 5.1 41 393-433 6-52 (185)
224 KOG0951 RNA helicase BRR2, DEA 94.8 0.049 1.1E-06 69.5 6.8 78 389-466 308-400 (1674)
225 PRK07764 DNA polymerase III su 94.8 0.06 1.3E-06 68.6 7.8 24 407-430 39-62 (824)
226 TIGR03420 DnaA_homol_Hda DnaA 94.8 0.088 1.9E-06 56.4 8.1 50 391-441 21-73 (226)
227 KOG0780 Signal recognition par 94.8 0.16 3.4E-06 58.2 10.1 56 406-461 102-159 (483)
228 PF13481 AAA_25: AAA domain; P 94.8 0.045 9.8E-07 57.1 5.5 52 405-457 32-92 (193)
229 KOG0335 ATP-dependent RNA heli 94.7 0.072 1.6E-06 62.9 7.5 68 390-457 96-175 (482)
230 PRK09694 helicase Cas3; Provis 94.7 0.093 2E-06 67.2 9.1 67 390-456 286-353 (878)
231 PRK13341 recombination factor 94.7 0.12 2.6E-06 65.2 9.9 36 551-587 109-146 (725)
232 PRK10436 hypothetical protein; 94.7 0.045 9.7E-07 65.4 5.9 41 390-430 201-243 (462)
233 PF05729 NACHT: NACHT domain 94.6 0.03 6.6E-07 56.2 3.8 28 406-433 1-28 (166)
234 PRK08903 DnaA regulatory inact 94.6 0.095 2.1E-06 56.5 7.8 51 390-441 23-77 (227)
235 TIGR02533 type_II_gspE general 94.6 0.042 9E-07 66.3 5.5 41 390-430 225-267 (486)
236 COG0556 UvrB Helicase subunit 94.6 0.12 2.6E-06 61.2 8.8 61 393-457 15-80 (663)
237 cd01122 GP4d_helicase GP4d_hel 94.6 0.057 1.2E-06 59.7 6.2 51 405-456 30-80 (271)
238 TIGR00963 secA preprotein tran 94.6 0.19 4.1E-06 62.9 11.1 61 393-456 59-119 (745)
239 PRK08727 hypothetical protein; 94.6 0.17 3.6E-06 55.2 9.7 36 405-441 41-76 (233)
240 KOG0991 Replication factor C, 94.5 0.05 1.1E-06 58.4 5.2 27 405-431 48-74 (333)
241 PRK06851 hypothetical protein; 94.5 0.029 6.2E-07 65.0 3.7 48 405-452 30-78 (367)
242 TIGR00959 ffh signal recogniti 94.5 0.081 1.7E-06 62.7 7.5 56 407-462 101-159 (428)
243 COG2804 PulE Type II secretory 94.5 0.053 1.2E-06 64.3 5.8 43 390-432 241-285 (500)
244 COG0541 Ffh Signal recognition 94.5 0.28 6.1E-06 57.3 11.5 56 407-462 102-159 (451)
245 PRK05986 cob(I)alamin adenolsy 94.5 0.28 6.1E-06 51.8 10.6 40 404-444 21-60 (191)
246 TIGR02655 circ_KaiC circadian 94.5 0.049 1.1E-06 65.7 5.7 54 405-460 263-316 (484)
247 PLN03142 Probable chromatin-re 94.5 0.36 7.7E-06 62.9 13.6 149 390-587 169-331 (1033)
248 PRK06921 hypothetical protein; 94.5 0.11 2.3E-06 58.0 7.8 38 405-442 117-154 (266)
249 TIGR02655 circ_KaiC circadian 94.5 0.052 1.1E-06 65.5 5.8 55 405-460 21-75 (484)
250 COG0467 RAD55 RecA-superfamily 94.4 0.054 1.2E-06 59.8 5.5 44 405-449 23-66 (260)
251 PF13207 AAA_17: AAA domain; P 94.4 0.033 7.1E-07 53.5 3.3 23 407-429 1-23 (121)
252 PRK06835 DNA replication prote 94.4 0.082 1.8E-06 60.6 7.1 36 405-441 183-218 (329)
253 PRK13104 secA preprotein trans 94.4 0.11 2.4E-06 65.8 8.7 47 409-456 99-145 (896)
254 COG4581 Superfamily II RNA hel 94.4 0.26 5.7E-06 63.4 12.0 66 390-456 119-184 (1041)
255 KOG0923 mRNA splicing factor A 94.4 0.065 1.4E-06 64.5 6.1 52 405-456 280-332 (902)
256 COG1419 FlhF Flagellar GTP-bin 94.3 0.26 5.6E-06 57.4 10.8 55 405-459 203-261 (407)
257 TIGR02928 orc1/cdc6 family rep 94.3 0.045 9.8E-07 63.1 4.8 41 392-432 20-67 (365)
258 PHA03368 DNA packaging termina 94.3 0.25 5.3E-06 60.7 10.8 58 399-456 248-306 (738)
259 PRK14873 primosome assembly pr 94.2 0.2 4.3E-06 62.6 10.3 48 409-457 164-211 (665)
260 TIGR02237 recomb_radB DNA repa 94.2 0.07 1.5E-06 56.6 5.6 39 405-444 12-50 (209)
261 TIGR03881 KaiC_arch_4 KaiC dom 94.2 0.076 1.7E-06 57.2 5.9 53 405-459 20-72 (229)
262 PRK09751 putative ATP-dependen 94.2 0.11 2.4E-06 69.6 8.3 47 410-456 1-59 (1490)
263 KOG0922 DEAH-box RNA helicase 94.1 0.19 4.1E-06 61.1 9.4 57 400-456 61-117 (674)
264 PLN03025 replication factor C 94.1 0.064 1.4E-06 61.1 5.4 40 392-431 18-60 (319)
265 cd00984 DnaB_C DnaB helicase C 94.1 0.081 1.8E-06 57.4 5.9 50 405-455 13-62 (242)
266 PRK12726 flagellar biosynthesi 94.0 0.095 2.1E-06 60.8 6.4 56 405-461 206-264 (407)
267 TIGR02538 type_IV_pilB type IV 94.0 0.077 1.7E-06 65.3 6.0 40 390-429 299-340 (564)
268 cd01394 radB RadB. The archaea 93.9 0.07 1.5E-06 57.1 5.0 36 405-441 19-54 (218)
269 PRK14965 DNA polymerase III su 93.9 0.17 3.7E-06 62.4 8.9 37 395-431 24-64 (576)
270 PRK05707 DNA polymerase III su 93.9 0.11 2.5E-06 59.5 6.9 27 406-432 23-49 (328)
271 TIGR02881 spore_V_K stage V sp 93.9 0.05 1.1E-06 60.2 3.8 27 406-432 43-69 (261)
272 PF07728 AAA_5: AAA domain (dy 93.9 0.073 1.6E-06 52.6 4.6 22 408-429 2-23 (139)
273 PRK05642 DNA replication initi 93.9 0.18 3.9E-06 55.0 8.0 35 406-441 46-80 (234)
274 TIGR01650 PD_CobS cobaltochela 93.8 0.081 1.8E-06 60.3 5.4 40 390-429 48-88 (327)
275 PRK08451 DNA polymerase III su 93.8 0.16 3.5E-06 61.7 8.2 25 407-431 38-62 (535)
276 PRK00411 cdc6 cell division co 93.8 0.12 2.7E-06 60.3 7.1 41 393-433 36-83 (394)
277 PRK07471 DNA polymerase III su 93.8 0.21 4.6E-06 58.1 8.9 26 407-432 43-68 (365)
278 TIGR02640 gas_vesic_GvpN gas v 93.7 0.073 1.6E-06 59.0 4.8 25 404-428 20-44 (262)
279 PRK12724 flagellar biosynthesi 93.7 0.15 3.3E-06 60.0 7.5 35 406-441 224-259 (432)
280 cd01983 Fer4_NifH The Fer4_Nif 93.7 0.11 2.3E-06 46.9 5.1 33 408-441 2-34 (99)
281 cd01130 VirB11-like_ATPase Typ 93.7 0.088 1.9E-06 55.2 5.1 40 390-429 9-49 (186)
282 KOG0781 Signal recognition par 93.7 0.28 6E-06 57.6 9.3 44 408-452 381-427 (587)
283 PF13671 AAA_33: AAA domain; P 93.6 0.046 9.9E-07 54.0 2.6 23 407-429 1-23 (143)
284 PF05496 RuvB_N: Holliday junc 93.5 0.049 1.1E-06 58.7 2.9 33 552-585 102-137 (233)
285 TIGR02525 plasmid_TraJ plasmid 93.5 0.15 3.2E-06 59.5 6.9 36 404-439 148-184 (372)
286 PRK09361 radB DNA repair and r 93.5 0.096 2.1E-06 56.4 5.1 38 405-443 23-60 (225)
287 PRK12326 preprotein translocas 93.4 0.28 6.1E-06 60.9 9.4 47 408-455 89-140 (764)
288 TIGR01420 pilT_fam pilus retra 93.4 0.077 1.7E-06 61.2 4.4 37 405-441 122-158 (343)
289 PF02374 ArsA_ATPase: Anion-tr 93.4 0.35 7.6E-06 55.0 9.6 46 406-452 2-49 (305)
290 COG1444 Predicted P-loop ATPas 93.3 0.63 1.4E-05 58.2 12.3 67 390-456 211-283 (758)
291 PF06309 Torsin: Torsin; Inte 93.3 0.12 2.6E-06 50.9 4.9 29 405-433 52-81 (127)
292 KOG4284 DEAD box protein [Tran 93.2 0.092 2E-06 63.1 4.6 68 392-459 49-118 (980)
293 PF02492 cobW: CobW/HypB/UreG, 93.2 0.16 3.5E-06 52.8 6.1 57 406-466 1-59 (178)
294 PRK14959 DNA polymerase III su 93.2 0.36 7.7E-06 59.6 9.8 26 406-431 39-64 (624)
295 KOG0743 AAA+-type ATPase [Post 93.1 0.05 1.1E-06 63.5 2.3 24 406-429 236-259 (457)
296 PHA00350 putative assembly pro 93.1 0.15 3.3E-06 59.6 6.3 32 407-440 3-35 (399)
297 TIGR02012 tigrfam_recA protein 93.1 0.16 3.4E-06 58.0 6.2 43 405-448 55-97 (321)
298 PRK06731 flhF flagellar biosyn 93.1 0.74 1.6E-05 51.4 11.3 54 406-460 76-132 (270)
299 PRK12402 replication factor C 93.1 0.13 2.7E-06 58.6 5.5 41 392-432 20-63 (337)
300 PRK08058 DNA polymerase III su 93.1 0.33 7.2E-06 55.7 8.9 27 406-432 29-55 (329)
301 PF13238 AAA_18: AAA domain; P 93.1 0.081 1.8E-06 50.8 3.3 22 408-429 1-22 (129)
302 PRK11823 DNA repair protein Ra 93.0 0.15 3.3E-06 60.8 6.3 53 405-459 80-132 (446)
303 PRK08939 primosomal protein Dn 93.0 0.12 2.7E-06 58.6 5.3 35 407-442 158-192 (306)
304 PF00308 Bac_DnaA: Bacterial d 93.0 0.44 9.5E-06 51.5 9.2 50 392-441 16-71 (219)
305 cd00544 CobU Adenosylcobinamid 93.0 0.12 2.6E-06 53.7 4.7 46 407-456 1-46 (169)
306 PRK09302 circadian clock prote 93.0 0.14 3E-06 62.3 5.9 54 405-460 273-326 (509)
307 cd01121 Sms Sms (bacterial rad 93.0 0.16 3.5E-06 59.2 6.3 52 405-458 82-133 (372)
308 TIGR02880 cbbX_cfxQ probable R 92.9 0.089 1.9E-06 59.1 3.8 27 407-433 60-86 (284)
309 PF00437 T2SE: Type II/IV secr 92.9 0.099 2.2E-06 57.9 4.2 47 394-441 115-162 (270)
310 PRK08769 DNA polymerase III su 92.9 0.32 6.8E-06 55.6 8.2 44 551-594 113-162 (319)
311 TIGR00635 ruvB Holliday juncti 92.9 0.13 2.9E-06 57.9 5.2 24 406-429 31-54 (305)
312 cd00983 recA RecA is a bacter 92.9 0.24 5.1E-06 56.7 7.2 40 405-445 55-94 (325)
313 KOG0342 ATP-dependent RNA heli 92.8 0.47 1E-05 55.9 9.3 70 386-455 100-175 (543)
314 PRK11331 5-methylcytosine-spec 92.6 0.17 3.8E-06 59.9 5.8 40 391-430 179-219 (459)
315 cd02019 NK Nucleoside/nucleoti 92.6 0.2 4.2E-06 43.9 4.8 22 408-429 2-23 (69)
316 PRK06851 hypothetical protein; 92.5 0.15 3.2E-06 59.2 4.9 44 405-448 214-258 (367)
317 PRK04195 replication factor C 92.5 0.14 3.1E-06 61.7 5.1 39 391-429 18-63 (482)
318 PRK09302 circadian clock prote 92.4 0.18 3.8E-06 61.4 5.8 55 405-460 31-85 (509)
319 TIGR02524 dot_icm_DotB Dot/Icm 92.4 0.23 5E-06 57.7 6.4 29 404-432 133-161 (358)
320 PRK13768 GTPase; Provisional 92.4 0.16 3.4E-06 56.1 4.9 34 407-441 4-37 (253)
321 COG0507 RecD ATP-dependent exo 92.4 0.02 4.3E-07 72.2 -2.5 64 389-452 200-272 (696)
322 COG1474 CDC6 Cdc6-related prot 92.3 0.29 6.3E-06 57.0 7.1 64 392-455 22-94 (366)
323 PF03266 NTPase_1: NTPase; In 92.3 0.14 3E-06 53.1 4.0 25 408-432 2-26 (168)
324 KOG0339 ATP-dependent RNA heli 92.2 5.6 0.00012 47.4 17.1 77 390-466 245-332 (731)
325 TIGR00416 sms DNA repair prote 92.2 0.23 4.9E-06 59.5 6.3 52 405-458 94-145 (454)
326 PF03205 MobB: Molybdopterin g 92.2 0.19 4.1E-06 50.5 4.8 34 406-440 1-34 (140)
327 PF12846 AAA_10: AAA-like doma 92.2 0.18 4E-06 55.8 5.2 57 405-466 1-57 (304)
328 KOG0331 ATP-dependent RNA heli 92.2 0.53 1.2E-05 56.6 9.2 69 389-457 112-188 (519)
329 PHA00729 NTP-binding motif con 92.2 0.12 2.6E-06 56.0 3.5 24 407-430 19-42 (226)
330 PTZ00112 origin recognition co 92.1 0.2 4.3E-06 63.2 5.6 39 393-431 761-807 (1164)
331 CHL00181 cbbX CbbX; Provisiona 92.1 0.13 2.9E-06 57.8 3.9 26 407-432 61-86 (287)
332 PRK07399 DNA polymerase III su 92.0 0.54 1.2E-05 53.7 8.8 27 406-432 27-53 (314)
333 PHA02544 44 clamp loader, smal 92.0 0.33 7.2E-06 54.9 7.1 39 391-429 25-67 (316)
334 PF05673 DUF815: Protein of un 92.0 0.6 1.3E-05 51.2 8.5 58 405-463 52-110 (249)
335 PRK14723 flhF flagellar biosyn 91.9 0.27 5.7E-06 61.9 6.5 54 406-459 186-243 (767)
336 PRK00080 ruvB Holliday junctio 91.8 0.21 4.5E-06 57.2 5.2 24 406-429 52-75 (328)
337 PRK13531 regulatory ATPase Rav 91.8 0.22 4.7E-06 59.6 5.4 32 399-430 33-64 (498)
338 TIGR01359 UMP_CMP_kin_fam UMP- 91.8 0.13 2.9E-06 53.2 3.2 23 407-429 1-23 (183)
339 PF01078 Mg_chelatase: Magnesi 91.8 0.2 4.4E-06 53.5 4.6 36 393-428 9-45 (206)
340 TIGR01360 aden_kin_iso1 adenyl 91.7 0.14 3.1E-06 52.9 3.4 25 405-429 3-27 (188)
341 PF03308 ArgK: ArgK protein; 91.7 0.18 3.9E-06 55.5 4.2 33 408-441 32-64 (266)
342 PF00910 RNA_helicase: RNA hel 91.7 0.16 3.4E-06 48.4 3.4 24 409-432 2-25 (107)
343 TIGR00750 lao LAO/AO transport 91.7 0.22 4.7E-06 56.4 5.0 36 405-441 34-69 (300)
344 PRK06995 flhF flagellar biosyn 91.7 0.21 4.6E-06 60.0 5.1 36 406-441 257-293 (484)
345 TIGR00176 mobB molybdopterin-g 91.6 0.26 5.6E-06 50.4 5.0 35 408-443 2-36 (155)
346 COG1102 Cmk Cytidylate kinase 91.6 0.14 3E-06 52.4 2.9 22 408-429 3-24 (179)
347 cd03114 ArgK-like The function 91.5 0.27 5.9E-06 49.8 5.0 33 408-441 2-34 (148)
348 TIGR00362 DnaA chromosomal rep 91.5 0.34 7.4E-06 57.1 6.6 36 406-441 137-173 (405)
349 PRK09354 recA recombinase A; P 91.5 0.41 9E-06 55.2 7.0 42 405-447 60-101 (349)
350 cd01393 recA_like RecA is a b 91.5 0.33 7.2E-06 52.0 6.0 40 405-444 19-63 (226)
351 KOG1131 RNA polymerase II tran 91.4 1.6 3.6E-05 51.8 11.6 61 392-452 18-85 (755)
352 PF00265 TK: Thymidine kinase; 91.3 0.32 6.9E-06 50.9 5.4 36 406-442 2-37 (176)
353 TIGR01242 26Sp45 26S proteasom 91.3 0.22 4.9E-06 57.8 4.8 22 408-429 159-180 (364)
354 PF03215 Rad17: Rad17 cell cyc 91.2 0.25 5.3E-06 60.1 5.2 25 405-429 45-69 (519)
355 PRK03992 proteasome-activating 91.1 0.27 5.9E-06 57.7 5.3 23 407-429 167-189 (389)
356 KOG0389 SNF2 family DNA-depend 91.1 0.74 1.6E-05 57.0 8.8 151 390-587 399-564 (941)
357 PRK05800 cobU adenosylcobinami 91.1 0.22 4.7E-06 51.8 3.9 47 407-457 3-49 (170)
358 COG3857 AddB ATP-dependent nuc 91.1 4 8.6E-05 52.5 15.3 56 408-464 4-65 (1108)
359 cd01125 repA Hexameric Replica 91.0 0.29 6.3E-06 53.3 5.1 50 407-457 3-63 (239)
360 TIGR03689 pup_AAA proteasome A 91.0 0.27 5.8E-06 59.5 5.1 24 407-430 218-241 (512)
361 PF13555 AAA_29: P-loop contai 91.0 0.24 5.3E-06 42.8 3.4 26 406-431 24-49 (62)
362 COG1222 RPT1 ATP-dependent 26S 90.9 0.26 5.7E-06 56.2 4.6 20 408-427 188-207 (406)
363 cd02117 NifH_like This family 90.9 0.32 6.9E-06 52.0 5.1 32 408-440 3-34 (212)
364 PRK09435 membrane ATPase/prote 90.9 0.29 6.3E-06 56.2 5.1 34 407-441 58-91 (332)
365 PRK08233 hypothetical protein; 90.9 0.17 3.6E-06 52.1 2.8 24 406-429 4-27 (182)
366 PRK13342 recombination factor 90.8 0.35 7.6E-06 57.2 5.8 24 406-429 37-60 (413)
367 COG4088 Predicted nucleotide k 90.8 0.22 4.7E-06 52.9 3.5 28 406-433 2-29 (261)
368 PRK00440 rfc replication facto 90.7 0.34 7.3E-06 54.6 5.4 39 393-431 23-64 (319)
369 COG1618 Predicted nucleotide k 90.7 0.28 6E-06 50.3 4.1 26 408-433 8-33 (179)
370 cd02034 CooC The accessory pro 90.7 0.39 8.4E-06 46.7 5.0 44 408-455 2-45 (116)
371 PRK05541 adenylylsulfate kinas 90.6 0.33 7.1E-06 50.1 4.8 29 406-434 8-36 (176)
372 PTZ00361 26 proteosome regulat 90.6 0.32 7E-06 57.9 5.3 23 407-429 219-241 (438)
373 PF04665 Pox_A32: Poxvirus A32 90.6 0.28 6E-06 53.8 4.4 40 402-442 9-49 (241)
374 PRK08118 topology modulation p 90.6 0.21 4.6E-06 51.5 3.3 22 408-429 4-25 (167)
375 TIGR00767 rho transcription te 90.6 1.2 2.7E-05 52.2 9.8 51 405-455 168-221 (415)
376 smart00350 MCM minichromosome 90.6 4 8.7E-05 49.8 14.7 21 407-427 238-258 (509)
377 COG2019 AdkA Archaeal adenylat 90.5 1.2 2.6E-05 46.0 8.4 24 406-429 5-28 (189)
378 PRK13900 type IV secretion sys 90.5 0.42 9.1E-06 55.0 5.9 41 397-439 151-192 (332)
379 cd02021 GntK Gluconate kinase 90.4 0.21 4.5E-06 50.0 3.0 22 407-428 1-22 (150)
380 PRK14962 DNA polymerase III su 90.4 0.27 5.9E-06 59.1 4.5 24 408-431 39-62 (472)
381 PF03029 ATP_bind_1: Conserved 90.4 0.2 4.3E-06 54.9 3.0 29 410-439 1-29 (238)
382 cd02028 UMPK_like Uridine mono 90.4 0.38 8.2E-06 50.2 5.0 33 407-440 1-33 (179)
383 KOG0348 ATP-dependent RNA heli 90.4 0.79 1.7E-05 54.5 7.9 68 390-457 159-234 (708)
384 COG3854 SpoIIIAA ncharacterize 90.3 0.34 7.4E-06 52.2 4.6 37 408-444 140-180 (308)
385 cd01123 Rad51_DMC1_radA Rad51_ 90.3 0.39 8.5E-06 51.8 5.3 40 405-444 19-63 (235)
386 TIGR03574 selen_PSTK L-seryl-t 90.3 0.36 7.7E-06 53.0 5.0 33 407-440 1-33 (249)
387 PRK14961 DNA polymerase III su 90.3 0.29 6.3E-06 56.9 4.5 24 407-430 40-63 (363)
388 PF13521 AAA_28: AAA domain; P 90.3 0.22 4.7E-06 50.8 3.0 21 408-428 2-22 (163)
389 KOG0328 Predicted ATP-dependen 90.3 0.11 2.4E-06 57.0 0.9 67 392-458 51-119 (400)
390 PRK12608 transcription termina 90.2 0.36 7.8E-06 56.0 5.1 51 406-456 134-187 (380)
391 PHA02244 ATPase-like protein 90.2 0.41 8.8E-06 55.5 5.4 32 397-428 110-142 (383)
392 KOG0390 DNA repair protein, SN 90.1 2.2 4.9E-05 53.7 12.1 56 390-445 238-309 (776)
393 PRK00889 adenylylsulfate kinas 90.1 0.42 9E-06 49.3 5.0 34 406-440 5-38 (175)
394 COG0378 HypB Ni2+-binding GTPa 90.1 0.31 6.8E-06 51.3 4.0 53 408-465 16-71 (202)
395 PRK14530 adenylate kinase; Pro 90.0 0.26 5.7E-06 52.7 3.6 25 405-429 3-27 (215)
396 PTZ00301 uridine kinase; Provi 90.0 0.42 9.1E-06 51.4 5.0 27 406-432 4-30 (210)
397 PF07726 AAA_3: ATPase family 89.9 0.18 3.9E-06 49.9 2.0 22 408-429 2-23 (131)
398 PRK03839 putative kinase; Prov 89.9 0.27 5.8E-06 51.0 3.4 22 408-429 3-24 (180)
399 PRK10463 hydrogenase nickel in 89.9 0.85 1.8E-05 51.3 7.5 72 392-466 88-162 (290)
400 COG0714 MoxR-like ATPases [Gen 89.8 0.42 9.2E-06 54.7 5.3 45 402-448 40-84 (329)
401 PRK06762 hypothetical protein; 89.8 0.28 6.1E-06 50.0 3.4 40 406-454 3-42 (166)
402 KOG1970 Checkpoint RAD17-RFC c 89.8 0.24 5.1E-06 59.2 3.1 27 403-429 108-134 (634)
403 PRK00131 aroK shikimate kinase 89.8 0.3 6.4E-06 49.7 3.6 25 405-429 4-28 (175)
404 cd02023 UMPK Uridine monophosp 89.6 0.42 9.1E-06 50.3 4.7 32 407-441 1-32 (198)
405 PRK14531 adenylate kinase; Pro 89.6 0.29 6.2E-06 51.1 3.4 23 407-429 4-26 (183)
406 TIGR00150 HI0065_YjeE ATPase, 89.6 0.52 1.1E-05 47.0 5.0 25 405-429 22-46 (133)
407 COG1703 ArgK Putative periplas 89.6 0.36 7.7E-06 54.0 4.2 34 407-441 53-86 (323)
408 COG5192 BMS1 GTP-binding prote 89.6 0.4 8.6E-06 56.9 4.7 25 408-432 72-96 (1077)
409 PRK12904 preprotein translocas 89.5 1.3 2.9E-05 56.3 9.6 47 409-456 98-144 (830)
410 PRK06620 hypothetical protein; 89.5 0.26 5.7E-06 53.0 3.1 19 406-424 45-63 (214)
411 PRK07667 uridine kinase; Provi 89.5 0.48 1E-05 50.0 5.0 36 407-443 19-54 (193)
412 COG1202 Superfamily II helicas 89.5 0.7 1.5E-05 55.4 6.6 78 388-466 214-298 (830)
413 TIGR02322 phosphon_PhnN phosph 89.5 0.29 6.3E-06 50.6 3.3 24 406-429 2-25 (179)
414 cd01428 ADK Adenylate kinase ( 89.5 0.28 6E-06 51.1 3.2 21 408-428 2-22 (194)
415 TIGR00665 DnaB replicative DNA 89.3 0.55 1.2E-05 55.9 5.9 51 405-456 195-245 (434)
416 PRK13764 ATPase; Provisional 89.3 0.68 1.5E-05 57.1 6.7 27 405-431 257-283 (602)
417 TIGR00631 uvrb excinuclease AB 89.3 1 2.2E-05 56.5 8.3 62 392-457 11-77 (655)
418 PRK13103 secA preprotein trans 89.3 1.6 3.6E-05 55.6 10.1 43 413-456 103-145 (913)
419 PRK05298 excinuclease ABC subu 89.2 1.4 3.1E-05 55.3 9.6 65 389-457 11-80 (652)
420 PRK14532 adenylate kinase; Pro 89.2 0.29 6.2E-06 51.1 3.0 21 408-428 3-23 (188)
421 PRK08154 anaerobic benzoate ca 89.2 0.48 1E-05 53.9 5.0 42 388-429 105-157 (309)
422 PRK04040 adenylate kinase; Pro 89.1 0.32 6.9E-06 51.3 3.3 23 407-429 4-26 (188)
423 cd00227 CPT Chloramphenicol (C 89.1 0.36 7.8E-06 50.0 3.6 25 405-429 2-26 (175)
424 TIGR01313 therm_gnt_kin carboh 89.0 0.27 5.8E-06 50.0 2.6 21 409-429 2-22 (163)
425 PRK13851 type IV secretion sys 89.0 0.4 8.8E-06 55.3 4.3 45 394-440 150-195 (344)
426 cd00550 ArsA_ATPase Oxyanion-t 89.0 0.48 1E-05 52.3 4.7 35 406-441 1-35 (254)
427 PRK06696 uridine kinase; Valid 88.9 0.54 1.2E-05 50.7 5.0 33 407-440 24-56 (223)
428 PRK10751 molybdopterin-guanine 88.9 0.55 1.2E-05 49.0 4.8 39 405-444 6-44 (173)
429 PRK14493 putative bifunctional 88.9 0.52 1.1E-05 52.8 4.9 35 407-443 3-37 (274)
430 cd02027 APSK Adenosine 5'-phos 88.9 0.58 1.3E-05 47.3 4.9 28 407-434 1-28 (149)
431 KOG1533 Predicted GTPase [Gene 88.9 0.36 7.7E-06 52.1 3.4 32 408-440 5-36 (290)
432 TIGR00041 DTMP_kinase thymidyl 88.8 0.74 1.6E-05 48.1 5.8 34 406-440 4-37 (195)
433 TIGR02858 spore_III_AA stage I 88.8 0.88 1.9E-05 50.8 6.7 25 406-430 112-136 (270)
434 PRK06645 DNA polymerase III su 88.8 0.43 9.3E-06 57.9 4.5 26 406-431 44-69 (507)
435 cd02025 PanK Pantothenate kina 88.8 0.54 1.2E-05 50.9 4.8 34 408-441 2-36 (220)
436 COG3911 Predicted ATPase [Gene 88.8 0.34 7.5E-06 48.9 3.0 21 406-426 10-30 (183)
437 cd02020 CMPK Cytidine monophos 88.7 0.38 8.3E-06 47.4 3.4 23 407-429 1-23 (147)
438 cd02037 MRP-like MRP (Multiple 88.7 0.55 1.2E-05 48.2 4.6 33 407-440 2-34 (169)
439 KOG0338 ATP-dependent RNA heli 88.7 0.83 1.8E-05 54.1 6.4 62 392-453 205-271 (691)
440 PRK13107 preprotein translocas 88.7 1.8 4E-05 55.2 9.9 47 409-456 99-145 (908)
441 PLN02200 adenylate kinase fami 88.6 0.36 7.7E-06 52.8 3.3 24 406-429 44-67 (234)
442 KOG0951 RNA helicase BRR2, DEA 88.6 0.38 8.1E-06 62.0 3.9 76 389-466 1142-1223(1674)
443 PRK02496 adk adenylate kinase; 88.6 0.37 8.1E-06 50.1 3.4 22 408-429 4-25 (184)
444 PRK14527 adenylate kinase; Pro 88.5 0.38 8.3E-06 50.5 3.4 25 405-429 6-30 (191)
445 PTZ00454 26S protease regulato 88.5 0.32 6.8E-06 57.3 3.0 23 406-428 180-202 (398)
446 TIGR03600 phage_DnaB phage rep 88.5 0.72 1.6E-05 54.7 6.1 51 405-456 194-244 (421)
447 PRK06964 DNA polymerase III su 88.5 1.1 2.3E-05 51.9 7.2 44 551-594 132-181 (342)
448 PRK07261 topology modulation p 88.3 0.39 8.4E-06 49.8 3.3 21 408-428 3-23 (171)
449 PRK05480 uridine/cytidine kina 88.3 0.58 1.2E-05 49.8 4.7 24 406-429 7-30 (209)
450 PF08433 KTI12: Chromatin asso 88.3 0.59 1.3E-05 52.2 4.8 35 406-441 2-36 (270)
451 PF00406 ADK: Adenylate kinase 88.2 0.36 7.8E-06 48.6 2.9 20 410-429 1-20 (151)
452 PRK14528 adenylate kinase; Pro 88.2 0.41 9E-06 50.2 3.4 23 407-429 3-25 (186)
453 PRK12906 secA preprotein trans 88.2 1.9 4.1E-05 54.7 9.6 45 409-454 97-141 (796)
454 cd02040 NifH NifH gene encodes 88.2 0.56 1.2E-05 51.6 4.6 32 407-440 4-35 (270)
455 PF01656 CbiA: CobQ/CobB/MinD/ 88.1 0.73 1.6E-05 47.7 5.2 34 407-441 1-34 (195)
456 cd03116 MobB Molybdenum is an 88.1 0.93 2E-05 46.6 5.8 59 407-466 3-66 (159)
457 PRK14494 putative molybdopteri 88.1 0.79 1.7E-05 49.9 5.5 57 407-464 3-62 (229)
458 PRK14489 putative bifunctional 88.0 1.2 2.5E-05 52.1 7.3 60 406-466 206-270 (366)
459 PHA02624 large T antigen; Prov 88.0 0.52 1.1E-05 57.6 4.4 36 394-429 416-455 (647)
460 PF06068 TIP49: TIP49 C-termin 88.0 0.52 1.1E-05 54.4 4.2 25 405-429 50-74 (398)
461 PF01583 APS_kinase: Adenylyls 88.0 0.81 1.8E-05 46.9 5.2 33 407-440 4-36 (156)
462 PRK04301 radA DNA repair and r 87.9 0.68 1.5E-05 52.8 5.2 51 405-455 102-158 (317)
463 PRK00279 adk adenylate kinase; 87.9 0.43 9.3E-06 51.1 3.4 22 408-429 3-24 (215)
464 KOG0733 Nuclear AAA ATPase (VC 87.9 0.32 7E-06 58.6 2.5 22 408-429 226-247 (802)
465 COG2255 RuvB Holliday junction 87.8 0.75 1.6E-05 51.2 5.1 24 406-429 53-76 (332)
466 PLN00020 ribulose bisphosphate 87.8 0.4 8.7E-06 55.5 3.1 24 406-429 149-172 (413)
467 PF00485 PRK: Phosphoribulokin 87.7 0.45 9.7E-06 50.1 3.3 27 407-433 1-27 (194)
468 KOG1132 Helicase of the DEAD s 87.7 2.7 5.9E-05 52.9 10.3 75 392-466 23-144 (945)
469 COG0610 Type I site-specific r 87.7 3.6 7.9E-05 53.9 12.1 51 407-457 275-326 (962)
470 PRK14957 DNA polymerase III su 87.7 0.55 1.2E-05 57.4 4.4 25 407-431 40-64 (546)
471 PRK06547 hypothetical protein; 87.7 0.65 1.4E-05 48.3 4.4 23 406-428 16-38 (172)
472 TIGR02397 dnaX_nterm DNA polym 87.6 0.71 1.5E-05 53.0 5.1 40 392-431 19-62 (355)
473 PF03796 DnaB_C: DnaB-like hel 87.6 1.1 2.3E-05 49.5 6.4 50 405-455 19-68 (259)
474 KOG3347 Predicted nucleotide k 87.6 0.49 1.1E-05 47.9 3.2 22 405-426 7-28 (176)
475 KOG0731 AAA+-type ATPase conta 87.5 0.38 8.2E-06 60.1 3.0 20 408-427 347-366 (774)
476 COG1936 Predicted nucleotide k 87.5 0.42 9.1E-06 49.5 2.8 20 407-426 2-21 (180)
477 TIGR01351 adk adenylate kinase 87.4 0.45 9.7E-06 50.8 3.1 21 408-428 2-22 (210)
478 TIGR01287 nifH nitrogenase iro 87.3 0.76 1.7E-05 51.0 5.1 32 408-440 3-34 (275)
479 PRK13235 nifH nitrogenase redu 87.3 0.7 1.5E-05 51.4 4.7 32 407-440 4-35 (274)
480 TIGR02016 BchX chlorophyllide 87.3 0.71 1.5E-05 52.2 4.8 31 410-441 5-35 (296)
481 PHA00547 hypothetical protein 87.3 0.88 1.9E-05 49.9 5.2 38 394-431 64-101 (337)
482 TIGR00764 lon_rel lon-related 87.3 0.79 1.7E-05 57.0 5.6 40 405-444 37-76 (608)
483 cd01672 TMPK Thymidine monopho 87.2 1 2.2E-05 46.8 5.6 33 407-440 2-34 (200)
484 TIGR01241 FtsH_fam ATP-depende 87.2 0.42 9E-06 58.0 3.1 22 407-428 90-111 (495)
485 COG4962 CpaF Flp pilus assembl 87.1 0.71 1.5E-05 52.7 4.6 53 389-443 156-209 (355)
486 COG0470 HolB ATPase involved i 87.1 0.93 2E-05 51.1 5.7 26 407-432 26-51 (325)
487 COG4178 ABC-type uncharacteriz 87.0 2 4.4E-05 52.7 8.7 23 405-427 419-441 (604)
488 CHL00072 chlL photochlorophyll 86.9 0.81 1.8E-05 51.6 5.0 32 408-440 3-34 (290)
489 PRK13407 bchI magnesium chelat 86.9 0.78 1.7E-05 52.8 4.9 24 406-429 30-53 (334)
490 COG1224 TIP49 DNA helicase TIP 86.9 0.74 1.6E-05 52.6 4.5 25 405-429 65-89 (450)
491 PRK13947 shikimate kinase; Pro 86.9 0.55 1.2E-05 48.0 3.3 22 408-429 4-25 (171)
492 CHL00195 ycf46 Ycf46; Provisio 86.8 0.5 1.1E-05 57.1 3.4 23 407-429 261-283 (489)
493 PRK13765 ATP-dependent proteas 86.8 0.73 1.6E-05 57.4 4.9 38 405-442 50-87 (637)
494 PRK05439 pantothenate kinase; 86.8 0.83 1.8E-05 52.0 4.9 35 407-441 88-123 (311)
495 COG0563 Adk Adenylate kinase a 86.8 0.55 1.2E-05 49.1 3.3 21 408-428 3-23 (178)
496 TIGR02236 recomb_radA DNA repa 86.7 0.81 1.7E-05 51.9 4.9 26 405-430 95-120 (310)
497 KOG0651 26S proteasome regulat 86.7 0.48 1E-05 53.2 2.8 24 406-429 167-190 (388)
498 TIGR03575 selen_PSTK_euk L-ser 86.6 0.85 1.8E-05 52.6 5.0 37 407-443 1-37 (340)
499 cd02035 ArsA ArsA ATPase funct 86.6 0.9 1.9E-05 48.9 4.9 34 407-441 1-34 (217)
500 TIGR00382 clpX endopeptidase C 86.5 0.77 1.7E-05 54.3 4.6 25 405-429 116-140 (413)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=6.2e-179 Score=1504.77 Aligned_cols=787 Identities=69% Similarity=1.104 Sum_probs=729.3
Q ss_pred cccccccccCCCccCcccCCcCCCcccccccCCCCCCceEEcCCCCcCceeeCCCCCCCcchhhhhhhhcccceeeecCC
Q 001718 118 MAGLSFEETGDDVEGFEYGKADFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKD 197 (1021)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~yc~~~~~~~~~~c~~~~~~~~fcn~~~~~~~sh~~~~l~~~~~~~~~~~~~ 197 (1021)
+.++.|||-..+.+ ..+ +.++|+|+|+||||++|.||++|++ |+|||||+|++|++||||+||||++||+|+||+|
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 VGEVLFEECLVEKN-RAR-EQKLPEHACAYCGISEPACVIKCNT--CGKWFCNSRGGTSGSHIVNHLVRAKHKEVSLHKD 113 (935)
T ss_pred cchhhhhhhccccc-ccc-ccccchhhhhhccCCCchheeeccc--cCceeecCCCCCchhHHHHHHHHhhhheeEeccC
Confidence 88999998555432 334 4599999999999999999999999 9999999999999999999999999999999999
Q ss_pred CCCCccceeeecccccccccccceeccCCceEEEEechhhhH--------------------------------------
Q 001718 198 SPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLN-------------------------------------- 239 (1021)
Q Consensus 198 ~~~~~~~~~cy~~~~~n~f~lg~~~~~~~~~~~~~~r~~~~~-------------------------------------- 239 (1021)
+++|||+||||+||++|||+|||||+|+|+|||++||+||++
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 001718 240 -----------------------------------------------------------------MMKESQSKDNVTIRW 254 (1021)
Q Consensus 240 -----------------------------------------------------------------~~~e~~~~~~~~~~~ 254 (1021)
.+||||++++++|||
T Consensus 194 aR~iT~qqi~~~eelwr~np~at~~dl~kP~~d~~~~hv~~ry~da~~y~~vf~pliklea~ydk~~Kes~~q~~~tvRW 273 (935)
T KOG1802|consen 194 ARKITAQQIVKLEELWRKNPSATLEDLDKPGEDEEPPHVQLRYEDAYEYQNVFSPLIKLEADYDKRLKESQTQENGTVRW 273 (935)
T ss_pred hccccHHHHHHHHhhhccCCccchhhcCCcccccCCCcccccccchHHHhhhcchhhhhhhhhhhhhhhhcccccceEEe
Confidence 699999999999999
Q ss_pred EecCCCeEEEEEEccCCCCCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEecC--ccEEEEEeccCCCCCcccCCCceEE
Q 001718 255 DIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTA--QEEVALELRASQGVPVDINHGFSVD 332 (1021)
Q Consensus 255 ~~~l~~k~~~~~~~~~~~~~~~~~~GD~v~l~~~~~~~~~~~~~~g~V~~i~~--~~~v~l~l~~~~~~p~~~~~~~~v~ 332 (1021)
++|||+|+++||.+++-+.++++..||+++|+|+++ ....|.++|+|+++++ ++|+.||++.....|.+.+++|.|+
T Consensus 274 ~~gLnkk~~a~f~~~k~~~e~kl~~GdE~~L~y~~~-~~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~p~e~~~~Ftvd 352 (935)
T KOG1802|consen 274 DIGLNKKRLAYFTLPKLDSELKLAIGDEIRLTYSGG-LVLPWNGIGSVLKIPDNNGDEVKLELEFSQDPPIEVTHGFTVD 352 (935)
T ss_pred eeccccceEEEEecCCCcchhccccCCeeEEEecCC-cCCcccccceEEecCCCCcceeEEEeecCCCCCcccccceEEE
Confidence 999999999999999998899999999999999998 5566999999999998 6999999999999999999999999
Q ss_pred EeeccchHHHHHHHHHHHHHhhhchhhhHHhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHHHHHhcCCcEEEEC
Q 001718 333 FVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQRPISLIQG 412 (1021)
Q Consensus 333 ~~~~~~s~~R~~~AL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~lp~~~~~~~~~~LN~sQ~~AV~~al~~~l~LIqG 412 (1021)
|+|+.++|+||+.||+.|+.|+.+++.|+|+.+||+++++..++..+|+.|..|++++||.+|..||+++|+++++||||
T Consensus 353 ~vwk~ts~drm~~alk~la~D~~~vs~y~y~klLgh~~~~~~~k~~LP~~~s~~~lpkLN~SQ~~AV~~VL~rplsLIQG 432 (935)
T KOG1802|consen 353 FVWKSTSFDRMQLALKLLAVDEKKVSGYLYHKLLGHPVEDSSLKKLLPRRFSVPNLPKLNASQSNAVKHVLQRPLSLIQG 432 (935)
T ss_pred EEEcCccHHHHHHHHHHhhhccccchhhhhhHHhcCcchhhhhcccCchhhcCCCchhhchHHHHHHHHHHcCCceeeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHHHHhhccchh
Q 001718 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (1021)
Q Consensus 413 PPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l~~~i~~l~~~~ 492 (1021)
|||||||.|+++||++|+++...+||||||||.|||+|+++|++.+++|||+.+++||.++++++++++|.+++.+..
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 999999999999999999998889999999999999999999999999999999999999999999999999999876
Q ss_pred HHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCcccCCCCEEEEECCCCCCchhhhhhh
Q 001718 493 KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPL 572 (1021)
Q Consensus 493 ~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~se~e~LipL 572 (1021)
.+++++.+++++.++++..++++|+.+++..+++++..|+||||||++|++.+|.+++|..||||||.|++||++||||
T Consensus 511 -pELq~l~klkde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~rl~~~kfr~VLiDEaTQatEpe~LiPl 589 (935)
T KOG1802|consen 511 -PELQKLLKLKDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAGDRRLSKFKFRTVLIDEATQATEPECLIPL 589 (935)
T ss_pred -HHHHHHHhhhhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEecccccchhhccccccEEEEecccccCCcchhhhh
Confidence 8899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcCCcceEeeEeeccCCCCCCccccccccCccccccccccc
Q 001718 573 VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINER 652 (1021)
Q Consensus 573 ~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r 652 (1021)
+++++++||||||+||+|++++++++.++|.+||||||+..|..+++|.+||||||.|++|++++||+|.|+++++..+|
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 ccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHHHhc
Q 001718 653 QSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1021)
Q Consensus 653 ~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L~~~ 732 (1021)
...+++++||.++.|++|+...|.|++..+|+||.|+.||..++++|+.|++.|+.+++|||||||++|+.+|.++|...
T Consensus 670 ~~~g~~~pwp~p~~pl~fy~~~g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~qIGVITpYegQr~~i~~ym~~~ 749 (935)
T KOG1802|consen 670 SPLGVDFPWPQPDKPLFFYVCYGQEEISASGTSFLNRTEAANCEKIITKLLKSGVKPSQIGVITPYEGQRSYIVNYMQTN 749 (935)
T ss_pred ccCCCCCCCCCCCCccceEEeccceeeeccccceecHHHHHHHHHHHHHHHHcCCCHHHeeeecccchhHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhccCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCCcCceeeechhhccceEEEeccccccCChhHHHHHH
Q 001718 733 GALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLT 812 (1021)
Q Consensus 733 ~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~ 812 (1021)
+.+...++..|+|+|||+|||+|+|+||+||||+|...+|||+.|+|||||||||||++|+||||+.+|+++++|.++|.
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 HHHhcCceecCCCcchhhhhhhcccCccccccccccccCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 001718 813 HYKEHECLVEGPLNNLKQSMVQFQKPKKIYNDRRLFFGAGPGIVPNDI-STSNPNADRRGSRARGYMPPGPPNGTHKPGL 891 (1021)
Q Consensus 813 ~~~~~~~l~~~~l~~l~~s~~~~~~p~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 891 (1021)
|+++++++++|++++++++++++.+|.++.+.++...+........+. ...++...+..++...|.+.....+...
T Consensus 830 h~~eke~l~eg~ln~l~~~~~~l~kp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~y~~~~n~~~~~~--- 906 (935)
T KOG1802|consen 830 HYKEKEVLVEGPLNNLKPSLLQLLKPQKLKNFKEKQKGFMNKSKIKDKSHSFNPSASNRPSRLSSYLNSGNLFGMSK--- 906 (935)
T ss_pred HhhcccceeecchhhhhhhhhhhcCCchhhhhhhhhhhhhhhcccccccccCCcchhccccccchhccccCcccccC---
Confidence 999999999999999999999999999999887665433222222221 1233333333444444544433333221
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCC
Q 001718 892 HPAGFPMPRVPLPPFQGGPPSQPYA 916 (1021)
Q Consensus 892 ~~~~~~~~~~~~p~~~~~p~~~~~~ 916 (1021)
++.......+-|.....||.++++
T Consensus 907 -~~~~~~~~~~~~~~~~~~~~~~~~ 930 (935)
T KOG1802|consen 907 -LAQYFNKNVPIPANMVGPPSQKAA 930 (935)
T ss_pred -hhhccccCCCCchhhcCCCccccc
Confidence 233344455555556666555553
No 2
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=1.8e-79 Score=742.29 Aligned_cols=551 Identities=32% Similarity=0.456 Sum_probs=426.0
Q ss_pred ccccccEEEEEEecCCCeEEEEEEccCCCCCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEecCccEEEEEeccCCCCCc
Q 001718 244 SQSKDNVTIRWDIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPV 323 (1021)
Q Consensus 244 ~~~~~~~~~~~~~~l~~k~~~~~~~~~~~~~~~~~~GD~v~l~~~~~~~~~~~~~~g~V~~i~~~~~v~l~l~~~~~~p~ 323 (1021)
.....++.++|..++.+++++.|.-. ...+.+|.+||.|.|...+. ..|...|+|+++.+ ..|.|.+... .|.
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 66677999999999999999998843 34467999999999964332 34667899999986 3444444332 444
Q ss_pred ccCCCceEEEeeccchHHHHHHHHHHHHHhhhchhhhHHhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHHHHHh
Q 001718 324 DINHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVL 403 (1021)
Q Consensus 324 ~~~~~~~v~~~~~~~s~~R~~~AL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~lp~~~~~~~~~~LN~sQ~~AV~~al 403 (1021)
+....|+++++|+++||+||..||.+|..... .+++.++|...+..... ..+-. +..+.||++|++||..++
T Consensus 99 ~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~----~l~~~llg~~~p~~~~~-~~~~~---~~~~~ln~~Q~~Av~~~l 170 (637)
T TIGR00376 99 WSLKRVRIDLYANDVTFKRMKEALRALTENHS----RLLEFILGREAPSKASE-IHDFQ---FFDPNLNESQKEAVSFAL 170 (637)
T ss_pred ccCceEEEEEecCccHHHHHHHHHHHHHhchh----hHHHHHhCCCCCCcccc-ccccc---ccCCCCCHHHHHHHHHHh
Confidence 44556999999999999999999999976543 45677787654322111 11111 123689999999999999
Q ss_pred cC-CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHH
Q 001718 404 QR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLH 482 (1021)
Q Consensus 404 ~~-~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l~ 482 (1021)
.. ++++|+||||||||+|+++++.++++.+. +||+|||||.|||+|++||...+++++|+|+..+. ...+...++.
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 89999999999999999999999998876 99999999999999999999999999999998773 2222233333
Q ss_pred HHHhhccch-----hHHHHHHHHH---------------------hhhh-----hccCCh--------------hH---H
Q 001718 483 YQVRHLDTS-----EKSELHKLQQ---------------------LKDE-----QGELSS--------------SD---E 514 (1021)
Q Consensus 483 ~~i~~l~~~-----~~~~l~kl~~---------------------lk~~-----~~~ls~--------------~~---~ 514 (1021)
..+...... ...++..+.. ++.+ ...+.. .. .
T Consensus 248 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 327 (637)
T TIGR00376 248 YLIENHPKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLL 327 (637)
T ss_pred HHHhcChhHHHHHHHHHHHHHHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHH
Confidence 333221110 0001111000 0000 000000 00 0
Q ss_pred HHHHHHHHHHHHHHhhccceeeecccccCCCCcccCCCCEEEEECCCCCCchhhhhhhhccCceEEEeCCccCCCceeec
Q 001718 515 KKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1021)
Q Consensus 515 k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~se~e~LipL~~~~krlILVGD~~QLpPvv~s 594 (1021)
+.++........+++..|+|+++| ++...+....||+||||||+|++||++|+|+.. ++++||||||+||||++.+
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 111122233456799999988766 445667888999999999999999999999975 5799999999999999987
Q ss_pred HHHHHhcchHHHHHHHHHcC-CcceEeeEeeccCCCCCCccccccccCcccccccccccccCCCCCCC-------CCCCC
Q 001718 595 KKAARAGLAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW-------PVPNR 666 (1021)
Q Consensus 595 ~~a~~~gl~~SLFeRL~~~g-~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~-------p~~~~ 666 (1021)
.. ..++..|+|+||.... ....+|++||||||+|++|+|..||+|+|.++.....+.+....... .....
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 34689999999999999999999999999988766555432221111 12346
Q ss_pred CeEEEEeCCcee---ecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHHHhccchhhhccCCe
Q 001718 667 PMFFYVQMGQEE---ISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI 743 (1021)
Q Consensus 667 p~~f~~~~g~ee---~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V 743 (1021)
|++|+++.|.+. ....+.|++|..||..|.+++..|++.|+++.+|||||||++|+.+|++.|... ...|
T Consensus 482 p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~-------~~~i 554 (637)
T TIGR00376 482 PLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHR-------HIDI 554 (637)
T ss_pred CEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhh-------CCCe
Confidence 999999998764 344578999999999999999999999999999999999999999999998543 2469
Q ss_pred EEeecccCCCccccEEEEEccccCCCCCcCCCCCcCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCceecC
Q 001718 744 EVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEG 823 (1021)
Q Consensus 744 ~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~~~~~~l~~~ 823 (1021)
+|.|||+|||+|+|+||+|+||+|....+||+.|.|||||||||||++||||||..+|+++++|++|++|+++++++++.
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 99999999999999999999999998889999999999999999999999999999999999999999999999999886
Q ss_pred CC
Q 001718 824 PL 825 (1021)
Q Consensus 824 ~l 825 (1021)
.+
T Consensus 635 ~~ 636 (637)
T TIGR00376 635 FK 636 (637)
T ss_pred CC
Confidence 54
No 3
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=3.9e-79 Score=696.27 Aligned_cols=554 Identities=31% Similarity=0.448 Sum_probs=415.5
Q ss_pred ecCCCeEEEEEEccCCC-CCCCCCCCCEEEEEeCCCCCCCcceEEEEEEEecCccEEEEEeccCCCCCcccCCCceEEEe
Q 001718 256 IGLNKKRVAYFVFPKED-NELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPVDINHGFSVDFV 334 (1021)
Q Consensus 256 ~~l~~k~~~~~~~~~~~-~~~~~~~GD~v~l~~~~~~~~~~~~~~g~V~~i~~~~~v~l~l~~~~~~p~~~~~~~~v~~~ 334 (1021)
.||-+|.+..|....+. ....|.+||.|.|+...-..+..-...|.|+++... .|.+.+......|.... ..++..+
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 78999999888766532 456899999999984322111111356888888752 34444433334443322 4556777
Q ss_pred eccchHHHHHHHHHHHHHhhh-chhhhHHhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHHHHHhcC-CcEEEEC
Q 001718 335 WKSTSFDRMQGAMKTFAVDET-SVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQR-PISLIQG 412 (1021)
Q Consensus 335 ~~~~s~~R~~~AL~~~~~~~~-~~~~~i~~~llg~~~~~~~~~~~lp~~~~~~~~~~LN~sQ~~AV~~al~~-~l~LIqG 412 (1021)
.|..+|+||..+|..+...-. ..+.-+.+.+.+...........+ .-..+....||.+|++||..++.+ .+.+|+|
T Consensus 131 ~n~vty~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~~~--~~~~~~~~~ln~SQk~Av~~~~~~k~l~~I~G 208 (649)
T KOG1803|consen 131 ENKVTYRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEI--KKITFFNKNLNSSQKAAVSFAINNKDLLIIHG 208 (649)
T ss_pred hhhhhheecHHHHhhHhhhcCccchhhhHHHHhccccCCCCchhhh--cccccCCccccHHHHHHHHHHhccCCceEeeC
Confidence 889999999999887754211 122223333443321111111000 001123468999999999999985 8999999
Q ss_pred CCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHHHHhhccchh
Q 001718 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (1021)
Q Consensus 413 PPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l~~~i~~l~~~~ 492 (1021)
|||||||+|++++|.++++++. +||||||||.|||||.+||...+++++|+|++.|........ .+...+..-+...
T Consensus 209 PPGTGKT~TlvEiI~qlvk~~k-~VLVcaPSn~AVdNiverl~~~~~~l~R~g~paRl~~~~~~~--sld~~~~t~d~~~ 285 (649)
T KOG1803|consen 209 PPGTGKTRTLVEIISQLVKQKK-RVLVCAPSNVAVDNIVERLTHLKLNLVRVGHPARLLESVADH--SLDLLSNTKDNSQ 285 (649)
T ss_pred CCCCCceeeHHHHHHHHHHcCC-eEEEEcCchHHHHHHHHHhcccccchhhcCchhhhhhhhhhh--HHHHHHhcCchhh
Confidence 9999999999999999999985 999999999999999999999999999999988853222111 1111111111100
Q ss_pred H-HHHHH-HHHhhhhhc-----cCChhHHHHHHHHH-------HHHHHHHhhccceeeecccccCCCCcccCCCCEEEEE
Q 001718 493 K-SELHK-LQQLKDEQG-----ELSSSDEKKYKALK-------RATEREISQSADVICCTCVGAGDPRLANFRFRQVLID 558 (1021)
Q Consensus 493 ~-~~l~k-l~~lk~~~~-----~ls~~~~k~~~~l~-------~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIID 558 (1021)
. ..+.+ +........ .+.....+.++.+. +....+++.+++||++|..++....+.+..||+||||
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 0 01111 000000000 01111111122222 2334689999999999999999988888899999999
Q ss_pred CCCCCCchhhhhhhhccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcC--CcceEeeEeeccCCCCCCcccc
Q 001718 559 ESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFPSN 636 (1021)
Q Consensus 559 EAsQ~se~e~LipL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g--~~~i~L~~qYRm~p~I~~f~s~ 636 (1021)
||+|+.||+||+|+.. .+++||+|||+||||++.+.++...++..|+|+|+.... .-.++|++|||||..|+.|+|.
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 9999999999999976 579999999999999999999999999999999999864 3457999999999999999999
Q ss_pred ccccCcccccccccccccCCCCCCCC--CCCCCeEEEEeCCceeeccc-----CCCccCHHHHHHHHHHHHHHHHcCCCC
Q 001718 637 SFYEGTLQNGVTINERQSSGIDFPWP--VPNRPMFFYVQMGQEEISAS-----GTSYLNRTEAANVEKIVTTFLRSGVVP 709 (1021)
Q Consensus 637 ~FY~g~L~~~~~~~~r~~~~~~~~~p--~~~~p~~f~~~~g~ee~~~~-----~~S~~N~~EA~~V~~iV~~Ll~~gv~~ 709 (1021)
.||+|+|..+.++..+.+..+....+ ....|++|+++.+.+..... ..|++|..||++|..++..|++.|+.+
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 99999999999888877654443322 25689999999887543221 248899999999999999999999999
Q ss_pred CcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCCcCceeeechhhc
Q 001718 710 SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRAR 789 (1021)
Q Consensus 710 ~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTRAK 789 (1021)
.||||||||++|+.+|++.. .....+++|+|||+|||+|+|+||||+||+|+...+||+.|.|||||||||||
T Consensus 525 ~dIaVIsPY~aQv~llR~~~-------~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTRaR 597 (649)
T KOG1803|consen 525 SDIAVISPYNAQVSLLREED-------EEDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITRAR 597 (649)
T ss_pred hHeEEeccchHHHHHHhhcc-------cccCccceeecccccccceeeEEEEEEEeecCcccccccCCcceeeEEEEecc
Confidence 99999999999999998321 12345799999999999999999999999999999999999999999999999
Q ss_pred cceEEEecccccc-CChhHHHHHHHHHhcCceecCC
Q 001718 790 YGIVILGNPKVLS-KQPLWNGLLTHYKEHECLVEGP 824 (1021)
Q Consensus 790 ~~LiIVGn~~~Ls-~~~~W~~ll~~~~~~~~l~~~~ 824 (1021)
++++||||..+++ .+.+.+++++|+.+++.+...+
T Consensus 598 Rh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p~ 633 (649)
T KOG1803|consen 598 RHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGPS 633 (649)
T ss_pred ceEEEEcCcHHHHhhHHHHHHHHHHhhhcceecccc
Confidence 9999999999999 8999999999999999888544
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.9e-62 Score=578.78 Aligned_cols=389 Identities=34% Similarity=0.551 Sum_probs=324.1
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001718 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~ 466 (1021)
+..||..|++|+..++. +++.||.|-||||||||++.+|+.|+..++ +||+++|||.|||||+-||...++.++|+|.
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 789999999999999999999999998876 9999999999999999999999999999997
Q ss_pred ccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCC
Q 001718 467 KSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1021)
Q Consensus 467 ~sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~ 546 (1021)
..+ .|..++++.. ......+.|..+ +..++...||.|||.+..++.
T Consensus 746 ~~k-----------ih~~v~e~~~------------------~~~~s~ks~~~l-----~~~~~~~~IVa~TClgi~~pl 791 (1100)
T KOG1805|consen 746 EEK-----------IHPDVEEFTL------------------TNETSEKSYADL-----KKFLDQTSIVACTCLGINHPL 791 (1100)
T ss_pred ccc-----------cchHHHHHhc------------------ccccchhhHHHH-----HHHhCCCcEEEEEccCCCchh
Confidence 654 2222222210 011112233333 346788999999999999988
Q ss_pred cccCCCCEEEEECCCCCCchhhhhhhhccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcCC-cceEeeEeec
Q 001718 547 LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYR 625 (1021)
Q Consensus 547 L~~~~Fd~VIIDEAsQ~se~e~LipL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~-~~i~L~~qYR 625 (1021)
+.+.+||++|||||+|+..|-+|.||.. ++++||||||.||||.+.+.+++..|+..|||+||...+. .+..|+.|||
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 6899999999999999999999999999999999998653 4568999999
Q ss_pred cCCCCCCccccccccCccccccccccccc-------------CCCCCCCC----CCCCCeEEEEeCCceee--cccCCCc
Q 001718 626 MHPSLSEFPSNSFYEGTLQNGVTINERQS-------------SGIDFPWP----VPNRPMFFYVQMGQEEI--SASGTSY 686 (1021)
Q Consensus 626 m~p~I~~f~s~~FY~g~L~~~~~~~~r~~-------------~~~~~~~p----~~~~p~~f~~~~g~ee~--~~~~~S~ 686 (1021)
|+.+|+.++|.+||+|+|..+...-.+.. .....+|- .+..++.|+.++..... .......
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 99999999999999999997754332210 01122332 35677777655433222 2234456
Q ss_pred cCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEcccc
Q 001718 687 LNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRS 766 (1021)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~Vrs 766 (1021)
.|..||..|.+++..+++.|+++++||||+||++|+++|++.+... .++|.|||+|||||+|+||+|+||+
T Consensus 951 ~N~~EA~li~~~~~~fv~sGv~~~dIGIis~YraQv~Li~~~l~~~---------~lEinTVD~yQGRDKd~IivSfvrs 1021 (1100)
T KOG1805|consen 951 TNHGEAKLISELVEDFVKSGVKPSDIGIISPYRAQVELIRKILSSA---------VLEINTVDRYQGRDKDCIIVSFVRS 1021 (1100)
T ss_pred CchhHHHHHHHHHHHHHHcCCCHHHeeeeehHHHHHHHHHhhcccc---------ceeeeehhhhcCCCCCEEEEEEEec
Confidence 6999999999999999999999999999999999999999988642 3999999999999999999999999
Q ss_pred CCCCCcC-CCCCcCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCcee
Q 001718 767 NEHQGIG-FLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLV 821 (1021)
Q Consensus 767 n~~~~iG-Fl~d~RrLnVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~~~~~~l~ 821 (1021)
|.....| .|+|+||+||||||||.+||+||+..+|...+.+++|+++..++..++
T Consensus 1022 n~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~~~~~~l~~~l~~~~~l~ 1077 (1100)
T KOG1805|consen 1022 NKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESYPPFRQLLKLLENRIELL 1077 (1100)
T ss_pred CCcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccCchHHHHHhhhhhhhhHH
Confidence 9875554 788999999999999999999999999999999999999997775544
No 5
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=3.1e-51 Score=471.69 Aligned_cols=283 Identities=35% Similarity=0.522 Sum_probs=246.0
Q ss_pred HHHhhccceeeecccccCCCC--cccCCCCEEEEECCCCCCchhhhhhhhccCceEEEeCCccCCCceeecH-HHHHhcc
Q 001718 526 REISQSADVICCTCVGAGDPR--LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCK-KAARAGL 602 (1021)
Q Consensus 526 ~~iL~~a~VI~~T~~~a~~~~--L~~~~Fd~VIIDEAsQ~se~e~LipL~~~~krlILVGD~~QLpPvv~s~-~a~~~gl 602 (1021)
..+++.++||.+|+++++..+ |.+...++|||.||+.+.|..++..+...+.++||||||+||.|..-.. .+..+++
T Consensus 693 a~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~fnL 772 (1025)
T KOG1807|consen 693 AFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIFNL 772 (1025)
T ss_pred HHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcchhhHhHhcch
Confidence 358899999999999998765 6677899999999999999987777777889999999999999987553 3556899
Q ss_pred hHHHHHHHHHcCCcceEeeEeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeeccc
Q 001718 603 AQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISAS 682 (1021)
Q Consensus 603 ~~SLFeRL~~~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~ 682 (1021)
..|+||||+..|.+-.+|+.||||+|.|+++....||++-+ +.+++.... ..+.....++|+.+...++....
T Consensus 773 ~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYddl~-d~esvk~ye------dI~gms~nlfFv~hnspee~~de 845 (1025)
T KOG1807|consen 773 SISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDDLL-DSESVKEYE------DIRGMSKNLFFVQHNSPEECMDE 845 (1025)
T ss_pred hHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhhhh-cchhhcccc------ccccccceeeEEecCCcccCcch
Confidence 99999999999999999999999999999999999998644 333332211 11223456778877777765544
Q ss_pred CCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEE
Q 001718 683 GTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILS 762 (1021)
Q Consensus 683 ~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS 762 (1021)
.|+.|..||.+++++++.|++.++.+.||.|+|+|++|...|++.+... ....|.|.|||+|||.|.|||++|
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-ChhHHHHHHHHHhcCceec
Q 001718 763 CVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK-QPLWNGLLTHYKEHECLVE 822 (1021)
Q Consensus 763 ~Vrsn~~~~iGFl~d~RrLnVALTRAK~~LiIVGn~~~Ls~-~~~W~~ll~~~~~~~~l~~ 822 (1021)
+||+|..+.+|||.-.+|++|||||||++||||||..++.. .++|+++++-+++++.+-+
T Consensus 919 LVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~ 979 (1025)
T KOG1807|consen 919 LVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGE 979 (1025)
T ss_pred EEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhcccccc
Confidence 99999999999999999999999999999999999999987 8999999999999988754
No 6
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=6.9e-45 Score=454.35 Aligned_cols=487 Identities=36% Similarity=0.506 Sum_probs=355.2
Q ss_pred CCCceEEEeec------cchHHHHHHHHHHHHHhhhchhhhHHhhhcCCchhhhhhcccCCCCCCCCCCCCCCHHHHHHH
Q 001718 326 NHGFSVDFVWK------STSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAV 399 (1021)
Q Consensus 326 ~~~~~v~~~~~------~~s~~R~~~AL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~lp~~~~~~~~~~LN~sQ~~AV 399 (1021)
.....+++..+ ...+.++...+..+.........++.+...+......... ...........++..|..++
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~ 283 (767)
T COG1112 207 KEEVRVDIVENLLELSESILLRRELELLSKFALILKRLLESLFEILRGKDLPIKLLD---VELELVEINKELDNEQKLAV 283 (767)
T ss_pred ccceEEEehhhccccchhHHHHhhhhhhHHHhhcccchhhhHHHHhhccccccccCC---cceeeeccchhccchhHHHH
Confidence 34556666655 7788888887777654333222222221211111000000 00000112346788888888
Q ss_pred HHHhc-CCcEEEE-CCCCCcHHH--HHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC--CeEEEeccccccccC
Q 001718 400 KSVLQ-RPISLIQ-GPPGTGKTV--TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG--LKVVRLCAKSREAVS 473 (1021)
Q Consensus 400 ~~al~-~~l~LIq-GPPGTGKTt--Tla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~g--l~ivRlg~~sre~i~ 473 (1021)
..... ....++. +++|||||. ++...+.........+++.+++++.+++++..++.... ...+++++.......
T Consensus 284 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 363 (767)
T COG1112 284 KRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTVIKVELLRIGHPSRVLKK 363 (767)
T ss_pred HHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhccccceEEcCCcchhhhh
Confidence 88765 5555555 999999999 77777777777766799999999999999999998754 446677665542211
Q ss_pred Ccch---------------hhhHHHHHhhccchh---------------HHHHHHHHHhhhhhccCCh------------
Q 001718 474 SPVE---------------HLTLHYQVRHLDTSE---------------KSELHKLQQLKDEQGELSS------------ 511 (1021)
Q Consensus 474 ~~~~---------------~l~l~~~i~~l~~~~---------------~~~l~kl~~lk~~~~~ls~------------ 511 (1021)
.... .......+..+.... ...+.+..........+..
T Consensus 364 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ 443 (767)
T COG1112 364 LKLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGILPALNKSEALWISL 443 (767)
T ss_pred hhhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcchhHHHHHHHHHHHhh
Confidence 1000 000000000000000 0000000000000000000
Q ss_pred -----hHHHHHHHHHHHHHHHHhhccceeeecccccCCCCcccCCCCEEEEECCCCCCchhhhhhhhccCceEEEeCCcc
Q 001718 512 -----SDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHC 586 (1021)
Q Consensus 512 -----~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~se~e~LipL~~~~krlILVGD~~ 586 (1021)
......+.+.......+...++++++|++.++...+....||+||||||+|++++.+++++.. ++++|++|||+
T Consensus 444 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~~~~fd~viiDEAsQ~~~~~~~~~l~~-~~~~il~GD~k 522 (767)
T COG1112 444 EEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILKKYEFDYVIIDEASQATEPSALIALSR-AKKVILVGDHK 522 (767)
T ss_pred hhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhcccccCEEEEcchhcccchhHHHhHhh-cCeEEEecCCc
Confidence 001111122233445677778899999999998888888999999999999999999999988 89999999999
Q ss_pred CCCceeecHHHHHhcchHHHHHHHHHcCC-cceEeeEeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCC
Q 001718 587 QLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPN 665 (1021)
Q Consensus 587 QLpPvv~s~~a~~~gl~~SLFeRL~~~g~-~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~ 665 (1021)
||||++.+......++..++|+++...+. ...+|+.|||||+.|+.|+|..||++++..+.............++....
T Consensus 523 QL~p~~~~~~~~~~~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~ 602 (767)
T COG1112 523 QLPPTVFFKESSPEGLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVIS 602 (767)
T ss_pred cCCCeecchhhcccchhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhcccccccccc
Confidence 99999988766778899999999999876 77899999999999999999999999999876655544333333333346
Q ss_pred CCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHHHhccchhhhccCCeEE
Q 001718 666 RPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEV 745 (1021)
Q Consensus 666 ~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V 745 (1021)
.|+.++++.+.++ .....++.|..|+..+..++..+++.++.+.+||||+||++|+..|++.+...+ ..++|
T Consensus 603 ~~~~~~~~~~~~~-~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~~igvis~y~~q~~~i~~~~~~~~-------~~v~v 674 (767)
T COG1112 603 NPLEFYDTLGAEE-FFESKSKLNELEAEIVKVIVDELLKDGLEENDIGVISPYRAQVSLIRRLLNEAG-------KGVEV 674 (767)
T ss_pred CceEEEEecCccc-ccCccceecHHHHHHHHHHHHHHHHcCCcHHHcceecccHHHHHHHHHHHHhcC-------CceEE
Confidence 7999999988877 556789999999999999999999999999999999999999999999987543 57999
Q ss_pred eecccCCCccccEEEEEccccCCC-CCcCCCCCcCceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCceecCC
Q 001718 746 ASVDSFQGREKDYIILSCVRSNEH-QGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGP 824 (1021)
Q Consensus 746 ~TVdsfQG~E~DvVIlS~Vrsn~~-~~iGFl~d~RrLnVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~~~~~~l~~~~ 824 (1021)
.|||+|||+|+|+||+|+|+++.. ..+||+.|.||||||+||||++|||||+..++..++.|.+++.+++.++++.+..
T Consensus 675 ~tvd~fQG~EkdvIi~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 675 GTVDGFQGREKDVIILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESDPLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred eeccccCCccCcEEEEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhhchhHHHHHHHHHhcCcEeecc
Confidence 999999999999999999999988 6999999999999999999999999999999999999999999999999998766
No 7
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=100.00 E-value=4.9e-47 Score=370.98 Aligned_cols=95 Identities=78% Similarity=1.533 Sum_probs=73.0
Q ss_pred ccccccCCCCCCceEEcCCCCcCceeeCCCCCCCcchhhhhhhhcccceeeecCCCCCCccceeeeccccccccccccee
Q 001718 143 HACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFIS 222 (1021)
Q Consensus 143 ~~c~yc~~~~~~~~~~c~~~~~~~~fcn~~~~~~~sh~~~~l~~~~~~~~~~~~~~~~~~~~~~cy~~~~~n~f~lg~~~ 222 (1021)
|||+|||||+|+|||+|++ |+||||||+++|++||||+||||+|||||+||||+|||||+||||+||+||||+|||||
T Consensus 1 haC~YCG~~~p~~vv~C~~--c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~NvF~LGFip 78 (152)
T PF09416_consen 1 HACAYCGIHDPSCVVKCNT--CNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSRNVFLLGFIP 78 (152)
T ss_dssp TS-TTT----CCCEEEETT--TTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT----TTTEEEEE
T ss_pred CCccccCCCCcccEeEcCC--CCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCCceeeEEEEE
Confidence 8999999999999999999 99999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCceEEEEechhhhH
Q 001718 223 AKTESVVVLLCREPCLN 239 (1021)
Q Consensus 223 ~~~~~~~~~~~r~~~~~ 239 (1021)
+|+|+|||||||+||++
T Consensus 79 ak~d~vvvllCR~pC~~ 95 (152)
T PF09416_consen 79 AKSDSVVVLLCRQPCAN 95 (152)
T ss_dssp ETTSCEEEEEETTTTTS
T ss_pred eccCCeEEEEeCCchhc
Confidence 99999999999999984
No 8
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=3.3e-35 Score=364.50 Aligned_cols=294 Identities=35% Similarity=0.505 Sum_probs=248.6
Q ss_pred hccceeeecccccCCCCc--ccCCCCEEEEECCCCCCchhhhhhhhc-cCceEEEeCCccCCCceeecHHHHHhcchHHH
Q 001718 530 QSADVICCTCVGAGDPRL--ANFRFRQVLIDESTQATEPECLIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSL 606 (1021)
Q Consensus 530 ~~a~VI~~T~~~a~~~~L--~~~~Fd~VIIDEAsQ~se~e~LipL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SL 606 (1021)
+++.+|++|+.+.+.... ....|+.|+||||.|+.|+..++||.+ +..+.+++||+.|||++|.+..+..+.+..|+
T Consensus 513 ~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~sl 592 (827)
T KOG1801|consen 513 EEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFKYMTSL 592 (827)
T ss_pred ccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccccchhhH
Confidence 388899999987776433 334799999999999999999999998 78999999999999999999999999999999
Q ss_pred HHHHHHcCCcceEeeEeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeC-CceeecccCCC
Q 001718 607 FERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQM-GQEEISASGTS 685 (1021)
Q Consensus 607 FeRL~~~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~-g~ee~~~~~~S 685 (1021)
|+|+...+.....|++||||||+|..|++..||+++|.+...+........... .....|+.|++.. |.++.. .+.|
T Consensus 593 f~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~-~~~~~~y~f~~v~~g~e~~~-~~~s 670 (827)
T KOG1801|consen 593 FERLELAGHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHS-GETFGPYPFFNVHYGKERAG-GGKS 670 (827)
T ss_pred HHHHHHccCccceecceeecCCccccCccccccccccccCcccchhhccccCcC-CCccCceEEEEecccccccC-CCCC
Confidence 999999998888999999999999999999999999887776664443322222 2234577777766 555544 4589
Q ss_pred ccCHHHHHHHHHHHHHHHHc----CCCCCcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEE
Q 001718 686 YLNRTEAANVEKIVTTFLRS----GVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIIL 761 (1021)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~----gv~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIl 761 (1021)
..|..|+..+..++..|.+. ...+..+|||+||+.|+..+++.+...-.........+.+.|||+|||.|.|++|+
T Consensus 671 ~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e~diii~ 750 (827)
T KOG1801|consen 671 PVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGERDIIII 750 (827)
T ss_pred cccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCCCceeEE
Confidence 99999999999999988763 23367899999999999999988765432222223479999999999999999999
Q ss_pred EccccCCCCCcCCCCCcCceeeechhhccceEEEeccccccCChh-HHHHHHHHHhcCceecCCC
Q 001718 762 SCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPL-WNGLLTHYKEHECLVEGPL 825 (1021)
Q Consensus 762 S~Vrsn~~~~iGFl~d~RrLnVALTRAK~~LiIVGn~~~Ls~~~~-W~~ll~~~~~~~~l~~~~l 825 (1021)
|+||++....+||+.+.||+|||+||||..++++||...|..+.. |..++.-.+..+|+.+...
T Consensus 751 s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~ 815 (827)
T KOG1801|consen 751 STVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAA 815 (827)
T ss_pred EEEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhccccccccccc
Confidence 999999988899999999999999999999999999999998766 9999999999999987653
No 9
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=8.6e-36 Score=357.28 Aligned_cols=373 Identities=32% Similarity=0.415 Sum_probs=285.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE-eccccccccCCcchhhhHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVR-LCAKSREAVSSPVEHLTLH 482 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~gl~ivR-lg~~sre~i~~~~~~l~l~ 482 (1021)
.....|.||||||||.++++-++++... ....|++|+++|.++|....|++.. ..+-+ .+.+.++. ....++.
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 4578999999999999988777666544 4558999999999999999988321 11110 00000000 0000000
Q ss_pred HHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCC---cccCCCCEEEEEC
Q 001718 483 YQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR---LANFRFRQVLIDE 559 (1021)
Q Consensus 483 ~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~---L~~~~Fd~VIIDE 559 (1021)
+.++ +....+..+...+....++.+||+.++... ..-..|.+++|||
T Consensus 401 ----------~~~v--------------------~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~De 450 (775)
T KOG1804|consen 401 ----------NAEV--------------------SEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDE 450 (775)
T ss_pred ----------hHHH--------------------HHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecc
Confidence 0000 011111111124556788999998877533 4455899999999
Q ss_pred CCCCCchhhhhhhhc--cCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcC------------CcceEeeEeec
Q 001718 560 STQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG------------LKPIRLQVQYR 625 (1021)
Q Consensus 560 AsQ~se~e~LipL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g------------~~~i~L~~qYR 625 (1021)
|++++|+++++++.. ...++||.|||+||+|++.+..+...+++.+||+|++... ...+.|-.|||
T Consensus 451 Ag~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyr 530 (775)
T KOG1804|consen 451 AGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYR 530 (775)
T ss_pred cccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHh
Confidence 999999999999974 2348999999999999999999999999999999998752 12367999999
Q ss_pred cCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHc
Q 001718 626 MHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS 705 (1021)
Q Consensus 626 m~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~ 705 (1021)
+|+.|....|++||.+.|............ ..|. ..++|..+.|..+...+..|+.|..||..|..++..+...
T Consensus 531 shp~il~l~~~l~y~~eL~~~~~~~~v~~~---~~w~---~liif~g~~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~ 604 (775)
T KOG1804|consen 531 SHPIILCLENRLYYLGELTAEASEVDVRGL---ELWS---GLILFYGAPGFTERAGNSPSWLNLEEAAVVVRMTKALPLG 604 (775)
T ss_pred hhhHhhhcccccccccceeeeccHHHHHHH---Hhcc---cceeccccccccccccCChhhccHHHHHHHHHHHhccCCC
Confidence 999999999999999999854433322111 1232 3488889999999988999999999999998888877654
Q ss_pred C-CCCCcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEccccCCCC------CcCCCCCc
Q 001718 706 G-VVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQ------GIGFLNDP 778 (1021)
Q Consensus 706 g-v~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~Vrsn~~~------~iGFl~d~ 778 (1021)
. +...||||||||++|+..|+.++...+ ..++.|++|..|||+|+.+||+|+|||.... ..+|+.+.
T Consensus 605 ~~~~~~DIgvitpy~aq~~~i~~~l~~~~------~~~~~vgsVe~fqGqE~~viiiStVrS~~~~~~~~~~~~~fls~p 678 (775)
T KOG1804|consen 605 EVAQPQDIGVITPYTAQVSEIRKALRRLG------VPGVKVGSVEEFQGQEPWVILGSTVRSFALPLLDDRYFGLFLSRP 678 (775)
T ss_pred CccccccceeeCcHHHHHHHHHHHhcccC------CCCCcccceeeeccccceeeEeecccccCCCcccccccceeecCc
Confidence 3 445699999999999999999987654 5689999999999999999999999998531 22389999
Q ss_pred CceeeechhhccceEEEeccccccCChhHHHHHHHHHhcCceecCC
Q 001718 779 RRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGP 824 (1021)
Q Consensus 779 RrLnVALTRAK~~LiIVGn~~~Ls~~~~W~~ll~~~~~~~~l~~~~ 824 (1021)
++||||+|||+..++++|++..+..++.|+.++.++.+++.+....
T Consensus 679 k~l~v~V~rp~~l~i~~~~~h~~~~~~~~~~~l~~~~~n~~y~~c~ 724 (775)
T KOG1804|consen 679 KRLLVAVGRPRALLINLGNPHLLGGDPPWGLLLLLRVENGRYPGCD 724 (775)
T ss_pred ccceeeccCccccccccCCcccccCCCChhhheeeeecCCcccCCC
Confidence 9999999999999999999999999999999999998888766543
No 10
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=100.00 E-value=4.7e-34 Score=299.51 Aligned_cols=195 Identities=44% Similarity=0.714 Sum_probs=141.3
Q ss_pred chHHHHHHHHHcC-CcceEeeEeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeec
Q 001718 602 LAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEIS 680 (1021)
Q Consensus 602 l~~SLFeRL~~~g-~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~ 680 (1021)
+..|||+|+...+ .+.++|++||||||+|++|+|++||+|+|.+.......... .....+....|+.|+++.+.+...
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 88899999999999999999999999999987765544432 122334566889999999887766
Q ss_pred ccC-CCccCHHHHHHHHHHHHHHHHcCCCC---CcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCccc
Q 001718 681 ASG-TSYLNRTEAANVEKIVTTFLRSGVVP---SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREK 756 (1021)
Q Consensus 681 ~~~-~S~~N~~EA~~V~~iV~~Ll~~gv~~---~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~ 756 (1021)
... +|+.|..||+.|+++++.|+..+... .+|+|||||++|+.+|++.|......... ..++|.|||+|||+|+
T Consensus 80 ~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~--~~~~v~Tvd~~QG~E~ 157 (200)
T PF13087_consen 80 ESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPI--KDIKVSTVDSFQGQEA 157 (200)
T ss_dssp TTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHH--HCSEEEEHHHHTT--E
T ss_pred cccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhcccccc--ceEEEecHHHhccccc
Confidence 554 89999999999999999999987765 89999999999999999999865432211 1299999999999999
Q ss_pred cEEEEEccccCCCCCcCCCCCcCceeeechhhccceEEEeccc
Q 001718 757 DYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPK 799 (1021)
Q Consensus 757 DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTRAK~~LiIVGn~~ 799 (1021)
|+||+|+|+++....+||+.+.+|+|||+||||++||||||++
T Consensus 158 diVi~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~~ 200 (200)
T PF13087_consen 158 DIVIVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNPE 200 (200)
T ss_dssp EEEEEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H-
T ss_pred eEEEEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecCC
Confidence 9999999999877789999999999999999999999999963
No 11
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.97 E-value=1.9e-31 Score=330.40 Aligned_cols=304 Identities=19% Similarity=0.216 Sum_probs=170.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcC-C--eEE
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATG-L--KVV 462 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~---~~~rILV~ApSN~AvDeL~eRL~~~g-l--~iv 462 (1021)
..||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||++|.+|+.+.. . .-+
T Consensus 8 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~~~~ 85 (721)
T PRK11773 8 DSLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQGGM 85 (721)
T ss_pred HhcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccCCCCC
Confidence 36999999999865 6789999999999999999999999974 45689999999999999999997641 1 001
Q ss_pred Eeccc---c----cc-----ccCCcchhhh-------HHHHHhhccch----hHHHH-HHHHHhhhhhccCChhH-----
Q 001718 463 RLCAK---S----RE-----AVSSPVEHLT-------LHYQVRHLDTS----EKSEL-HKLQQLKDEQGELSSSD----- 513 (1021)
Q Consensus 463 Rlg~~---s----re-----~i~~~~~~l~-------l~~~i~~l~~~----~~~~l-~kl~~lk~~~~~ls~~~----- 513 (1021)
.++.- . ++ ........+. +...+..+... ....+ ..+...+.. .+...+
T Consensus 86 ~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~k~~--~~~~~~~~~~~ 163 (721)
T PRK11773 86 WVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDE--GLRPQHIQSYG 163 (721)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHc--CCCHHHHHhcc
Confidence 11110 0 00 0000000000 00001100000 00000 000111100 000000
Q ss_pred -------HHHHHHHHHHHH-HHHhhccceeeecccccC-CCCc---ccCCCCEEEEECCCCCCchhh--hhhhhccCceE
Q 001718 514 -------EKKYKALKRATE-REISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQV 579 (1021)
Q Consensus 514 -------~k~~~~l~~~~~-~~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQ~se~e~--LipL~~~~krl 579 (1021)
...|+.+..... ...++..|++..+..... .+.+ ...+|++|+|||+|+++..+. +-.|.....++
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 111222211111 123444444444333221 1112 123799999999999998663 33333345789
Q ss_pred EEeCCccCCCceeecHHHHHhcchH---HHHHHHHHc--CCcceEeeEeeccCCCCCCccccccccCccccccccccccc
Q 001718 580 VLVGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQS 654 (1021)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~ 654 (1021)
++|||++| .+|+|.. ..|.++... +...+.|++|||+++.|++++|.+|-.+......
T Consensus 244 ~vVGD~dQ----------sIY~fRGA~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k------- 306 (721)
T PRK11773 244 MIVGDDDQ----------SIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGK------- 306 (721)
T ss_pred EEEecCcc----------cccccCCCChHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCc-------
Confidence 99999999 4455543 233333221 3456899999999999999999988553221100
Q ss_pred CCCCCCCCC--CCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHH
Q 001718 655 SGIDFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYM 729 (1021)
Q Consensus 655 ~~~~~~~p~--~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L 729 (1021)
..|.. .+.++.++.. .....|+..|++.|..++..|++.+||+||++.+.|...|++.|
T Consensus 307 ----~~~~~~~~g~~v~~~~~------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L 367 (721)
T PRK11773 307 ----ELWTDGGDGEPISLYCA------------FNELDEARFVVERIKTWQDNGGALSDCAILYRSNAQSRVLEEAL 367 (721)
T ss_pred ----ccccCCCCCCeeEEEeC------------CCHHHHHHHHHHHHHHHHHcCCCcccEEEEEecchhHHHHHHHH
Confidence 00110 1112222211 11257899999999999999999999999987766554444433
No 12
>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=1e-30 Score=278.05 Aligned_cols=204 Identities=38% Similarity=0.569 Sum_probs=128.3
Q ss_pred CCCHHHHHHHHHHhcCCc-EEEECCCCCcHHHHHHHHHHHHH-------HcCCCcEEEEcCcHHHHHHHHHHHHh-----
Q 001718 390 ELNASQVFAVKSVLQRPI-SLIQGPPGTGKTVTSAAIVYHMA-------KQGQGQVLVCAPSNVAVDQLAEKISA----- 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l-~LIqGPPGTGKTtTla~iI~~L~-------k~~~~rILV~ApSN~AvDeL~eRL~~----- 456 (1021)
+||++|++||..++..+. ++|+||||||||+|++.++..++ .....+||+|++||.|+|++.++|.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~~~ 80 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLDED 80 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC-----
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhcccc
Confidence 489999999999999876 99999999999999999999883 23556999999999999999999988
Q ss_pred ---cCCeEEEeccccccccCCcchhhhHHHHHhhccc----hhHHHHHHH------HHhhhhhccCChh---HHHHHHHH
Q 001718 457 ---TGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDT----SEKSELHKL------QQLKDEQGELSSS---DEKKYKAL 520 (1021)
Q Consensus 457 ---~gl~ivRlg~~sre~i~~~~~~l~l~~~i~~l~~----~~~~~l~kl------~~lk~~~~~ls~~---~~k~~~~l 520 (1021)
....++|++... +.....+....+...+..... .....+.++ ..+......+... ..+.++..
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 356799999876 222333333333333332220 000111111 1111122222222 22334444
Q ss_pred HHHHHHHHhhccceeeecccccCCCCcccC--CCCEEEEECCCCCCchhhhhhhhccCceEEEeCCccCCCceeec
Q 001718 521 KRATEREISQSADVICCTCVGAGDPRLANF--RFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1021)
Q Consensus 521 ~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~--~Fd~VIIDEAsQ~se~e~LipL~~~~krlILVGD~~QLpPvv~s 594 (1021)
.+.....+++.++||++|+.++....+... .||+||||||+|++++++|+++...++++||||||+||||++.+
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 555667899999999999999877777666 89999999999999999999998877999999999999999875
No 13
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.97 E-value=5.1e-31 Score=326.77 Aligned_cols=307 Identities=19% Similarity=0.217 Sum_probs=169.6
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcCC---eEE
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL---KVV 462 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~---~~~rILV~ApSN~AvDeL~eRL~~~gl---~iv 462 (1021)
..||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||++|.+||.+..- .-+
T Consensus 3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~~~~~ 80 (715)
T TIGR01075 3 DGLNDKQREAVAAP--PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSARGM 80 (715)
T ss_pred cccCHHHHHHHcCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcccccCc
Confidence 47999999999865 6789999999999999999999999975 356899999999999999999976411 111
Q ss_pred Eecccc-------cc-----ccCCcchhhh-------HHHHHhhccchh----HHHH-HHHHHhhhhh------ccCChh
Q 001718 463 RLCAKS-------RE-----AVSSPVEHLT-------LHYQVRHLDTSE----KSEL-HKLQQLKDEQ------GELSSS 512 (1021)
Q Consensus 463 Rlg~~s-------re-----~i~~~~~~l~-------l~~~i~~l~~~~----~~~l-~kl~~lk~~~------~~ls~~ 512 (1021)
.++.-. ++ ........+. +...+....... ...+ ..+...+... ......
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 00 0000000000 000011000000 0000 0011111100 000000
Q ss_pred H----HHHHHHHHHHHH-HHHhhccceeeecccccC-CCCc---ccCCCCEEEEECCCCCCchhh--hhhhhccCceEEE
Q 001718 513 D----EKKYKALKRATE-REISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVL 581 (1021)
Q Consensus 513 ~----~k~~~~l~~~~~-~~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQ~se~e~--LipL~~~~krlIL 581 (1021)
. ...|+.+..... ...++..|++..+..... .+.+ ...+|++|+|||+|+++..+. +-.|....+++++
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 0 011222211111 113333344433322211 1111 123799999999999998764 2233334578999
Q ss_pred eCCccCCCceeecHHHHHhcchH---HHHHHHHHc--CCcceEeeEeeccCCCCCCccccccccCcccccccccccccCC
Q 001718 582 VGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSG 656 (1021)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~ 656 (1021)
|||++| .+|+|.. ..|.++... +...+.|++|||+++.|++++|.++-.+.-.... .
T Consensus 241 VGD~~Q----------sIY~fRGA~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~----~---- 302 (715)
T TIGR01075 241 VGDDDQ----------SIYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGK----N---- 302 (715)
T ss_pred EeCCcc----------cccccCCCCHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhccccccc----c----
Confidence 999999 4455543 333333322 2346899999999999999999988554221100 0
Q ss_pred CCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHH
Q 001718 657 IDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNY 728 (1021)
Q Consensus 657 ~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~ 728 (1021)
. +.......++.++.. .....|+..|++.|..+++.|++++||+||++.+.|...|+..
T Consensus 303 ~-~~~~~~g~~i~~~~~------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~ 361 (715)
T TIGR01075 303 L-WTDGEVGEPISLYSA------------FNELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSRVLEEA 361 (715)
T ss_pred c-cCCCCCCCceEEEeC------------CCHHHHHHHHHHHHHHHHHcCCCccCEEEEEecCchHHHHHHH
Confidence 0 000001112222211 1125689999999999999999999999998766554444433
No 14
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.97 E-value=1.9e-30 Score=322.30 Aligned_cols=304 Identities=15% Similarity=0.181 Sum_probs=167.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcC---CeEE
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATG---LKVV 462 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~---~~~rILV~ApSN~AvDeL~eRL~~~g---l~iv 462 (1021)
..||++|++||... .+..+|.|+||||||+|++++|.+|+.. .+.+||++||||+||++|.+|+.+.. ..-+
T Consensus 3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~~~~ 80 (726)
T TIGR01073 3 AHLNPEQREAVKTT--EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVAEDI 80 (726)
T ss_pred cccCHHHHHHHhCC--CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhccccCCc
Confidence 46999999999865 7889999999999999999999999975 34689999999999999999997541 1111
Q ss_pred Eeccccc-------c-----ccCCcchhh-------hHHHHHhhccch----hHHHH-HHHHHhhhhhccCChhH-----
Q 001718 463 RLCAKSR-------E-----AVSSPVEHL-------TLHYQVRHLDTS----EKSEL-HKLQQLKDEQGELSSSD----- 513 (1021)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~l-------~l~~~i~~l~~~----~~~~l-~kl~~lk~~~~~ls~~~----- 513 (1021)
.++.-.. + ........+ .+...++..... ....+ ..+..++.. .+...+
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 0 000000000 000011100000 00000 011111111 000000
Q ss_pred --------HHHHHHHHHHH-HHHHhhccceeeecccccC-CCCc---ccCCCCEEEEECCCCCCchhh--hhhhhccCce
Q 001718 514 --------EKKYKALKRAT-EREISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQ 578 (1021)
Q Consensus 514 --------~k~~~~l~~~~-~~~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQ~se~e~--LipL~~~~kr 578 (1021)
...|+.+.... +...++..|++..+..... .+.+ ...+|++|+|||+|+++..+. +-.|....++
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 01111111111 1123344444433332211 1111 123799999999999999774 3333334578
Q ss_pred EEEeCCccCCCceeecHHHHHhcchHH---HHHHHHHc--CCcceEeeEeeccCCCCCCccccccccCcccccccccccc
Q 001718 579 VVLVGDHCQLGPVIMCKKAARAGLAQS---LFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ 653 (1021)
Q Consensus 579 lILVGD~~QLpPvv~s~~a~~~gl~~S---LFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~ 653 (1021)
+++|||++| .+|+|..+ .|.++... +...+.|++|||+++.|++++|.++-.+.-...
T Consensus 239 l~vVGD~~Q----------sIY~fRgA~~~~~~~f~~~~~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~------- 301 (726)
T TIGR01073 239 LCVVGDADQ----------SIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKP------- 301 (726)
T ss_pred EEEEeCCCc----------cccccCCCChHHHHHHHHhCCCCeEEECccCCCCCHHHHHHHHHHHHhcccccc-------
Confidence 999999999 44444332 23333221 345689999999999999999998754321100
Q ss_pred cCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHcC-CCCCcEEEEcccchHHHHHHH
Q 001718 654 SSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVN 727 (1021)
Q Consensus 654 ~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~g-v~~~dIgIITPY~aQ~~~L~~ 727 (1021)
.......+ ...++.++... ....|+..|...|..++..| ++++||+||++.+.|...|+.
T Consensus 302 -~~l~~~~~-~g~~v~~~~~~------------~~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~~l~~ 362 (726)
T TIGR01073 302 -KNLWTENS-SGDKITYYEAD------------TERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEE 362 (726)
T ss_pred -cccccCCC-CCcceEEEeCC------------CHHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHHHHHH
Confidence 00000000 11122222111 12468999999999998876 689999999877665544433
No 15
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.97 E-value=3.5e-30 Score=316.10 Aligned_cols=238 Identities=19% Similarity=0.215 Sum_probs=132.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-CCe---EE
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GLK---VV 462 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~---~~~rILV~ApSN~AvDeL~eRL~~~-gl~---iv 462 (1021)
.||++|++||... .+..+|.|+||||||+|++.+|.+|+.. .+.+||++||||+||++|.+||... +.. -+
T Consensus 2 ~Ln~~Q~~av~~~--~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~~~v 79 (672)
T PRK10919 2 RLNPGQQQAVEFV--TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARGL 79 (672)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccccCc
Confidence 5999999999875 7888999999999999999999999974 3568999999999999999999753 211 01
Q ss_pred Eeccc---cc----c-----ccCCcchhhh-------HHHHHhhccchhHHHHHHH----HHhhhhhccCChhH------
Q 001718 463 RLCAK---SR----E-----AVSSPVEHLT-------LHYQVRHLDTSEKSELHKL----QQLKDEQGELSSSD------ 513 (1021)
Q Consensus 463 Rlg~~---sr----e-----~i~~~~~~l~-------l~~~i~~l~~~~~~~l~kl----~~lk~~~~~ls~~~------ 513 (1021)
.++.- .. . .+......+. +...+..+.......+..+ ...+.. .+...+
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 11110 00 0 0000000000 0000000000000001111 111110 000000
Q ss_pred ---HH----HHHHHHHH-HHHHHhhccceeeeccccc-CCCCc---ccCCCCEEEEECCCCCCchhh-hh-hhhccCceE
Q 001718 514 ---EK----KYKALKRA-TEREISQSADVICCTCVGA-GDPRL---ANFRFRQVLIDESTQATEPEC-LI-PLVLGAKQV 579 (1021)
Q Consensus 514 ---~k----~~~~l~~~-~~~~iL~~a~VI~~T~~~a-~~~~L---~~~~Fd~VIIDEAsQ~se~e~-Li-pL~~~~krl 579 (1021)
.. .|+.+... .+...++..|++..+.... ..+.+ ...+|++|+|||+||++..+. |+ .|.....++
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 00 11111111 1122333444443322111 11111 123799999999999999774 23 332335689
Q ss_pred EEeCCccCCCceeecHHHHHhcchH---HHHHHHHHc--CCcceEeeEeeccCCCCCCccccccccC
Q 001718 580 VLVGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEG 641 (1021)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g 641 (1021)
++|||++| .+|+|.. .+|.++... +...+.|++|||++++|++++|.++-.+
T Consensus 238 ~~VGD~~Q----------sIY~frGA~~~~~~~f~~~~~~~~~~~L~~NyRs~~~I~~~an~li~~n 294 (672)
T PRK10919 238 TVVGDDDQ----------SIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANN 294 (672)
T ss_pred EEEcCCcc----------cccccCCCChHHHHHHHHhCCCCcEEECCCCCCCcHHHHHHHHHHHhhC
Confidence 99999999 4555543 344444332 3456899999999999999999987543
No 16
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.96 E-value=2.3e-29 Score=302.62 Aligned_cols=153 Identities=25% Similarity=0.323 Sum_probs=102.7
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001718 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1021)
Q Consensus 391 LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~---~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~ 467 (1021)
+.+.|+.|+..++.+++++|+|+||||||||+..++..+.+.. ..+|+++|||++||.+|.+++.....++ .-
T Consensus 153 ~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~---~~- 228 (615)
T PRK10875 153 EVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQL---PL- 228 (615)
T ss_pred CCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhcc---cc-
Confidence 4589999999999999999999999999999999998887642 3479999999999999999886431110 00
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCc
Q 001718 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1021)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1021)
...++........+++++.........+ ++ ..-
T Consensus 229 --------------~~~~~~~~~~~a~TiHrlLg~~~~~~~~------~~---------------------------~~~ 261 (615)
T PRK10875 229 --------------TDEQKKRIPEEASTLHRLLGAQPGSQRL------RY---------------------------HAG 261 (615)
T ss_pred --------------chhhhhcCCCchHHHHHHhCcCCCccch------hh---------------------------ccc
Confidence 0000000011134455544332111000 00 011
Q ss_pred ccCCCCEEEEECCCCCCchhh--hhhhhccCceEEEeCCccCCCceeec
Q 001718 548 ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMC 594 (1021)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~se~e~--LipL~~~~krlILVGD~~QLpPvv~s 594 (1021)
....+|+||||||||++.+.+ |+.......|+|||||++|||||-..
T Consensus 262 ~~l~~dvlIvDEaSMvd~~lm~~ll~al~~~~rlIlvGD~~QL~sV~~G 310 (615)
T PRK10875 262 NPLHLDVLVVDEASMVDLPMMARLIDALPPHARVIFLGDRDQLASVEAG 310 (615)
T ss_pred cCCCCCeEEEChHhcccHHHHHHHHHhcccCCEEEEecchhhcCCCCCC
Confidence 123689999999999997543 33333456799999999999999654
No 17
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.96 E-value=4.2e-29 Score=304.73 Aligned_cols=365 Identities=19% Similarity=0.235 Sum_probs=199.7
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhc-C---CeE
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISAT-G---LKV 461 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~---~~rILV~ApSN~AvDeL~eRL~~~-g---l~i 461 (1021)
..||++|++||... .+..+|.|+||||||+|+++++.+|+... +.+||++|||++||++|.+||... + +.+
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 56689999999999999999999999763 458999999999999999999752 2 211
Q ss_pred EEeccccc----------cccC-----Ccch-hhhHHHHHhhccc----------------------hh-----------
Q 001718 462 VRLCAKSR----------EAVS-----SPVE-HLTLHYQVRHLDT----------------------SE----------- 492 (1021)
Q Consensus 462 vRlg~~sr----------e~i~-----~~~~-~l~l~~~i~~l~~----------------------~~----------- 492 (1021)
-.+.+-.. ..+. .... .+........... ..
T Consensus 273 ~TFHSlal~Il~~~~~~~p~~s~~~~d~~~~~~~l~~~~~~~~~~~~~~~k~~~~wl~~~~~~~~~~~~~~~~~~~~~~l 352 (684)
T PRK11054 273 RTFHALALHIIQQGSKKVPVISKLENDSKARHALLIAEWRKQCSEKKAQAKGWRQWLTEELQWDVPEGNFWDDEKLQRRL 352 (684)
T ss_pred EeHHHHHHHHHHHhhhcCCCcCccccchHHHHHHHHHHHHHHhhhcccchhhhhhcchHHhhhcccchhhhhhhhHHHHH
Confidence 11111000 0000 0000 0000000000000 00
Q ss_pred HHHHHHHHHhhhhhccC--------Chh----HHHHHH---HHHHHHHH-----HHhhccceeeecccccCCCCcccCCC
Q 001718 493 KSELHKLQQLKDEQGEL--------SSS----DEKKYK---ALKRATER-----EISQSADVICCTCVGAGDPRLANFRF 552 (1021)
Q Consensus 493 ~~~l~kl~~lk~~~~~l--------s~~----~~k~~~---~l~~~~~~-----~iL~~a~VI~~T~~~a~~~~L~~~~F 552 (1021)
...+.++..+....+.. ... ..++++ .+....+. ..++..|++........... ...+|
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 00011110010000000 000 000011 11111111 12222233221111111111 11259
Q ss_pred CEEEEECCCCCCchhh--hhhhhc--cCceEEEeCCccCCCceeecHHHHHhcch---HHHHHHHHHc-C-CcceEeeEe
Q 001718 553 RQVLIDESTQATEPEC--LIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLA---QSLFERLVLL-G-LKPIRLQVQ 623 (1021)
Q Consensus 553 d~VIIDEAsQ~se~e~--LipL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~~-g-~~~i~L~~q 623 (1021)
++|+|||+|+++..+. +-.+.. ...++++|||+.|. +|+|. ..++..+... + ...+.|+++
T Consensus 432 ~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~Qs----------IY~frGa~~~~~~~f~~~f~~~~~~~L~~n 501 (684)
T PRK11054 432 KHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQA----------IYRFSGADLSLTTAFHERFGEGDRCHLDTT 501 (684)
T ss_pred cEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCcc----------ccccCCCChHHHHHHHhhcCCCeEEEeCCC
Confidence 9999999999998663 223322 23589999999993 33332 3344443322 2 345789999
Q ss_pred eccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHH
Q 001718 624 YRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFL 703 (1021)
Q Consensus 624 YRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll 703 (1021)
||++++|.+++|.++-.+.-+ . ... +. .......|.+..... .+.+.+...+..+.
T Consensus 502 YRs~~~I~~~An~~i~~n~~~----~-~k~---l~-s~~~g~~p~v~~~~~---------------~~~~~il~~l~~~~ 557 (684)
T PRK11054 502 YRFNSRIGEVANRFIQQNPHQ----L-KKP---LN-SLTKGDKKAVTLLPE---------------DQLEALLDKLSGYA 557 (684)
T ss_pred CCCCHHHHHHHHHHHHhCccc----c-CCc---cc-ccCCCCCceEEEeCC---------------HHHHHHHHHHHHhh
Confidence 999999999999876432111 0 000 00 001112333332210 23444444444443
Q ss_pred HcCCCCCcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEccccCCC--C-----------
Q 001718 704 RSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEH--Q----------- 770 (1021)
Q Consensus 704 ~~gv~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~Vrsn~~--~----------- 770 (1021)
. +.++|+||++|+.+...+.+.+... + ....|.+.|+|++||+|||+|||..+..... .
T Consensus 558 ~---~~~~I~IL~R~~~~~~~~l~~~~~~--~---~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~ 629 (684)
T PRK11054 558 K---PDERILLLARYHHLRPALLDKAATR--W---PKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEA 629 (684)
T ss_pred c---CCCcEEEEEechhhHHHHHHHHHhh--c---ccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhc
Confidence 2 4579999999998876554443321 1 1237999999999999999999987754320 0
Q ss_pred ------CcCCCCCcCceeeechhhccceEEEecc
Q 001718 771 ------GIGFLNDPRRLNVALTRARYGIVILGNP 798 (1021)
Q Consensus 771 ------~iGFl~d~RrLnVALTRAK~~LiIVGn~ 798 (1021)
.....+++|+|||||||||+.|+|+.+.
T Consensus 630 ~~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~ 663 (684)
T PRK11054 630 LLPPPEDFPDAEERRLLYVALTRAKHRVWLLFNK 663 (684)
T ss_pred ccccccccccHHHHHHHHHHhhhhhcEEEEEEcC
Confidence 0012346899999999999999999873
No 18
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=99.96 E-value=1.6e-29 Score=303.55 Aligned_cols=346 Identities=20% Similarity=0.241 Sum_probs=186.4
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCC----CcEEEEcCcHHHHHHHHHHHHhcCCeEEEecccc
Q 001718 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ----GQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (1021)
Q Consensus 393 ~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~----~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~s 468 (1021)
+.|+.||..++.+++++|+|+||||||||+..++..|.+..+ .+|+++|||++||++|.+.+.....++ ...
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l---~~~- 223 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNL---AAA- 223 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhccc---ccc-
Confidence 789999999999999999999999999999999988876532 479999999999999999886532111 000
Q ss_pred ccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCcc
Q 001718 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (1021)
Q Consensus 469 re~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~ 548 (1021)
.+ ....+ .....+++++......... +. ...-.
T Consensus 224 ~~-------------~~~~~-~~~a~TiHrlLg~~~~~~~--------~~-------------------------~~~~~ 256 (586)
T TIGR01447 224 EA-------------LIAAL-PSEAVTIHRLLGIKPDTKR--------FR-------------------------HHERN 256 (586)
T ss_pred hh-------------hhhcc-ccccchhhhhhcccCCcch--------hh-------------------------hcccC
Confidence 00 00000 0112334444322211000 00 00011
Q ss_pred cCCCCEEEEECCCCCCchhh--hhhhhccCceEEEeCCccCCCceeecHHHHH------hcchHHHHHHHH-----H---
Q 001718 549 NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAAR------AGLAQSLFERLV-----L--- 612 (1021)
Q Consensus 549 ~~~Fd~VIIDEAsQ~se~e~--LipL~~~~krlILVGD~~QLpPvv~s~~a~~------~gl~~SLFeRL~-----~--- 612 (1021)
...+|+||||||||++...+ |+.......|+|||||++|||||-....... .++.......+. .
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 23689999999999998543 3333345679999999999999964321110 000000000000 0
Q ss_pred -cCCc--ceEeeEeeccCC--CCCCccccccccCcccccccccccccCCCCCCCCC-CC---------------------
Q 001718 613 -LGLK--PIRLQVQYRMHP--SLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPV-PN--------------------- 665 (1021)
Q Consensus 613 -~g~~--~i~L~~qYRm~p--~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~-~~--------------------- 665 (1021)
...+ .++|+++||... .|..++..+. .|.......... ......+.+.. ..
T Consensus 337 ~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I~-~g~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 414 (586)
T TIGR01447 337 RNPLSDNVCFLKTSHRFGKDSGIGQLAKAIN-SGDIEAVLNNLR-SGQLIEFEFLNSKEDAIERLKNLFVKYRTFLQKLA 414 (586)
T ss_pred cCCCCCcEEEeceeecCCCCccHHHHHHHHH-cCChhHHHHHhc-cCCCCceEecCCHHHHHHHHHHHHHHHHHHHHhhh
Confidence 0022 679999999965 5877765542 332211000000 00000000000 00
Q ss_pred ---CCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHH-------------------------cCCCCCcEEEEcc
Q 001718 666 ---RPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR-------------------------SGVVPSQIGVITP 717 (1021)
Q Consensus 666 ---~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~-------------------------~gv~~~dIgIITP 717 (1021)
.+...+.....-.. ...-+.-..-+..+-+.++.++. .|+.++|||+|.+
T Consensus 415 ~~~~~~~~l~~~~~~qv--L~~~r~G~~Gv~~LN~~lq~~l~~~~~~~~~~~~~~Gd~Vm~t~Nd~~~gl~NGdiG~i~~ 492 (586)
T TIGR01447 415 ALSDIKEILETFDRLRL--LTALRDGPFGVLGLNRRIEQELQEKYFDPDEEGWYIGRPIMVTENDYTLGLFNGDIGVLLR 492 (586)
T ss_pred cccchhhhhcccccEEE--ECeeeCCcHhHHHHHHHHHHHhCcccCCCCCceeecCCeEEEeecCcccCcCCCCeEEEEE
Confidence 00000000000000 00000001112223333333321 2567889999986
Q ss_pred cchHHHHHHHHHHh-cc--chhhhc---cCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCCcCceeeechhhccc
Q 001718 718 YEGQRAYIVNYMSR-NG--ALRQQL---YKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYG 791 (1021)
Q Consensus 718 Y~aQ~~~L~~~L~~-~~--~~~~~~---~~~V~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTRAK~~ 791 (1021)
.... +.-.+.. .+ .+.... .+-....|||++||+|||.||+.+..... -+.+++++||||||||+.
T Consensus 493 ~~~~---~~v~f~~~~g~~~~~~~~l~~~~~ayA~TvHKSQGsef~~Vi~~l~~~~~-----~~l~r~llYTaiTRAk~~ 564 (586)
T TIGR01447 493 DPDG---LTVWFHFADGSKAVLPSRLPNYETAFAMTVHKSQGSEFDHVILILPNGNS-----PVLTRELLYTGITRAKDQ 564 (586)
T ss_pred eCCc---EEEEEEcCCCeEEechHHcCccceEEEEEeeHhcCCcCCeEEEECCCCCC-----cccccceeEEEeeehhCe
Confidence 4321 1111100 00 111111 23345789999999999999998875432 256789999999999999
Q ss_pred eEEEeccccc
Q 001718 792 IVILGNPKVL 801 (1021)
Q Consensus 792 LiIVGn~~~L 801 (1021)
|+|+|+.+.|
T Consensus 565 l~i~~~~~~l 574 (586)
T TIGR01447 565 LSVWSDKETL 574 (586)
T ss_pred EEEEECHHHH
Confidence 9999987654
No 19
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.95 E-value=5.2e-28 Score=286.56 Aligned_cols=417 Identities=29% Similarity=0.395 Sum_probs=290.2
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCe---EEEec
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK---VVRLC 465 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~gl~---ivRlg 465 (1021)
..|+.|.+||.+-.+.+++.+.||||||||.+++.++..+..+ +..+.|+++.||.|...+-+++.+..++ +.|++
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 4689999999999999999999999999999999999888776 5668999999999999999999875443 34444
Q ss_pred ccccccc-CC-----------cchhhhHHHHHhhccchh------------------HHHHHHHHHhhhh----------
Q 001718 466 AKSREAV-SS-----------PVEHLTLHYQVRHLDTSE------------------KSELHKLQQLKDE---------- 505 (1021)
Q Consensus 466 ~~sre~i-~~-----------~~~~l~l~~~i~~l~~~~------------------~~~l~kl~~lk~~---------- 505 (1021)
+...+.- +. ....+.+.+.++++..+. ......+.+....
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 2211100 00 001111112222111100 0000000000000
Q ss_pred ------------hccCCh-------------hHHHHHHHHHHH---H----------------HHHHhhccceeeecccc
Q 001718 506 ------------QGELSS-------------SDEKKYKALKRA---T----------------EREISQSADVICCTCVG 541 (1021)
Q Consensus 506 ------------~~~ls~-------------~~~k~~~~l~~~---~----------------~~~iL~~a~VI~~T~~~ 541 (1021)
.++.+. ..+..|+.+... + ...+.+.+.+|.+||..
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 000000 011222222211 1 11244788999999998
Q ss_pred cCCCC----cccCCCCEEEEECCCCCCchhhhhhhhcc--------CceEEEeCCccCCCceeecHH-HHHhcchHHHHH
Q 001718 542 AGDPR----LANFRFRQVLIDESTQATEPECLIPLVLG--------AKQVVLVGDHCQLGPVIMCKK-AARAGLAQSLFE 608 (1021)
Q Consensus 542 a~~~~----L~~~~Fd~VIIDEAsQ~se~e~LipL~~~--------~krlILVGD~~QLpPvv~s~~-a~~~gl~~SLFe 608 (1021)
++..+ -..++||-+++.|++|+.|.+..+|+... -+++|++|||.|+||++.... .......+|+|.
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 87654 23468999999999999999999988753 268999999999999996543 334466789999
Q ss_pred HHHHcCCcceEeeEeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEe---CCceeecccCCC
Q 001718 609 RLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQ---MGQEEISASGTS 685 (1021)
Q Consensus 609 RL~~~g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~---~g~ee~~~~~~S 685 (1021)
|+...+.+.+.|+.|+|..+.|+++.+..+-.-..-.++....+.. ........+..|+++ .|..|......-
T Consensus 1058 r~vRl~ip~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f~----~aNagf~~~~qlinv~Df~g~gEt~p~p~f 1133 (1320)
T KOG1806|consen 1058 RLVRLGVPIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPRFQ----YANAGFAYEFQFINVPDFKGSGETEPSPGF 1133 (1320)
T ss_pred cceecccceecchhhhhHHHHHHHHHHhhhcccccCcCCccchhhh----ccccCceeeEEEecchhhccccccCCCccc
Confidence 9999999999999999999999999876643222222222211110 000011134444443 455566566667
Q ss_pred ccCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCccccEEEEEccc
Q 001718 686 YLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVR 765 (1021)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~DvVIlS~Vr 765 (1021)
+.|..||+.++.+..++...|++.+.|-|+|.|++|+..|++.+.+...-..-...--.|.|||.+||...|+||+|+|+
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 88999999999999999999999999999999999999999999876544333344567999999999999999999999
Q ss_pred cCCCCCcCCCCCcCceeeechhhccceEEEeccccccC----ChhHHHHHHH
Q 001718 766 SNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK----QPLWNGLLTH 813 (1021)
Q Consensus 766 sn~~~~iGFl~d~RrLnVALTRAK~~LiIVGn~~~Ls~----~~~W~~ll~~ 813 (1021)
+.. +|.+.|.||++||++||+.+|++++....+.+ .+.|+.|.++
T Consensus 1214 tr~---~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~ 1262 (1320)
T KOG1806|consen 1214 TRE---VGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKR 1262 (1320)
T ss_pred hhh---hhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhC
Confidence 864 68899999999999999999999999876654 5677766544
No 20
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.95 E-value=1.5e-27 Score=294.25 Aligned_cols=298 Identities=16% Similarity=0.122 Sum_probs=156.0
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-CC---eEE
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GL---KVV 462 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~---~~~rILV~ApSN~AvDeL~eRL~~~-gl---~iv 462 (1021)
.||+.|++||... .+..+|.|+||||||+|++.+|.+|+.. .+.+||++||||+|+.+|.+||.+. +. .-+
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 4899999999875 6789999999999999999999999964 4468999999999999999999753 11 111
Q ss_pred Eeccccc-------c-----ccCCcchh-------hhHHHHHhhccchhHHHHHHHHHhhhhh--ccCChhH--------
Q 001718 463 RLCAKSR-------E-----AVSSPVEH-------LTLHYQVRHLDTSEKSELHKLQQLKDEQ--GELSSSD-------- 513 (1021)
Q Consensus 463 Rlg~~sr-------e-----~i~~~~~~-------l~l~~~i~~l~~~~~~~l~kl~~lk~~~--~~ls~~~-------- 513 (1021)
.++.-.+ + .+...... ..+...+..........+..+..+.... ..++..+
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 00000000 0000000000000000011111100000 0011000
Q ss_pred -----HHHHHHHHHHHHH-HHhhccceeeecccccC-CCCcc---cCCCCEEEEECCCCCCchhh--hhhhhccCceEEE
Q 001718 514 -----EKKYKALKRATER-EISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVL 581 (1021)
Q Consensus 514 -----~k~~~~l~~~~~~-~iL~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQ~se~e~--LipL~~~~krlIL 581 (1021)
...|..+...... ..++..|++........ .+.+. ..+|++|+|||+|+++..+. +..|.....++++
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 0111111111111 13333344332222111 11121 23799999999999998663 3333333468999
Q ss_pred eCCccCCCceeecHHHHHhcch---HHHHHHHHHc--CCcceEeeEeeccCCCCCCccccccccCcccccccccccccCC
Q 001718 582 VGDHCQLGPVIMCKKAARAGLA---QSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSG 656 (1021)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~~--g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~ 656 (1021)
|||++| .+|+|. ...|.++... +...+.|.+|||++++|+++++.+|-.+.-. ..+.
T Consensus 239 vGD~~Q----------sIY~frga~~~~~~~~~~~~~~~~~~~L~~NyRs~~~Il~~~n~l~~~~~~~-----~~~~--- 300 (664)
T TIGR01074 239 VGDDDQ----------SIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHV-----FEKK--- 300 (664)
T ss_pred EcCCcc----------cccCCCCCCHHHHHHHHHhCCCCeEEECCCCCCChHHHHHHHHHHHhcCccc-----cccc---
Confidence 999999 444443 2333333321 3355789999999999999999876432210 0000
Q ss_pred CCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHH-HHcCCCCCcEEEEcccch
Q 001718 657 IDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF-LRSGVVPSQIGVITPYEG 720 (1021)
Q Consensus 657 ~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~L-l~~gv~~~dIgIITPY~a 720 (1021)
.....+ .+.++.++... ....|+..|+..|..+ +..|++.+||+||++.+.
T Consensus 301 ~~~~~~-~g~~v~~~~~~------------~~~~Ea~~ia~~I~~~~~~~~~~~~diAVL~R~~~ 352 (664)
T TIGR01074 301 LFSELG-YGEKIKVIECN------------NEEHEAERIAGEIIAHKLVNKTQYKDYAILYRGNH 352 (664)
T ss_pred ccccCC-CCCceEEEeCC------------CHHHHHHHHHHHHHHHHHcCCCCcccEEEEEecCc
Confidence 000001 11122222111 1246777777766532 334788889999876543
No 21
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=99.94 E-value=8.9e-27 Score=287.07 Aligned_cols=299 Identities=22% Similarity=0.259 Sum_probs=183.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~ 467 (1021)
..||+.|++||+.++.+++++|+|+||||||+++..++..+...+ ..+|++||||++||+.|.+.+...
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 479999999999999999999999999999999999888776654 258999999999999887753210
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCc
Q 001718 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1021)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1021)
..++|..+..... . ... . . .-
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 1223322211100 0 000 0 0 00
Q ss_pred ccCCCCEEEEECCCCCCchhh--hhhhhccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcC-CcceEeeEee
Q 001718 548 ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIRLQVQY 624 (1021)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~se~e~--LipL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g-~~~i~L~~qY 624 (1021)
.....++||||||+|++...+ |+.......++|||||+.||||+-. ...|..++..+ .+.++|+++|
T Consensus 413 ~~~~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~----------G~v~~dl~~~~~~~~~~L~~i~ 482 (720)
T TIGR01448 413 DPIDCDLLIVDESSMMDTWLALSLLAALPDHARLLLVGDTDQLPSVGP----------GQVLKDLILSQAIPVTRLTKVY 482 (720)
T ss_pred ccccCCEEEEeccccCCHHHHHHHHHhCCCCCEEEEECccccccCCCC----------CchHHHHHhcCCCCEEEeCeee
Confidence 013689999999999997542 2222234579999999999999952 24566666554 6778999999
Q ss_pred ccCC--CCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHH
Q 001718 625 RMHP--SLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF 702 (1021)
Q Consensus 625 Rm~p--~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~L 702 (1021)
|... .|..++..+- .|.+.. .. ++. +... + .++.+ .....+.+++..+
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 4666655442 222210 00 000 0000 0 00111 1112233333333
Q ss_pred H----HcCCCCCcEEEEcccch---HHHHHHHHHHhccc-----------------------------------------
Q 001718 703 L----RSGVVPSQIGVITPYEG---QRAYIVNYMSRNGA----------------------------------------- 734 (1021)
Q Consensus 703 l----~~gv~~~dIgIITPY~a---Q~~~L~~~L~~~~~----------------------------------------- 734 (1021)
+ ..++...++-||+|.+. -+..|.+.++....
T Consensus 533 ~~~~~~~~~~~~d~qVL~p~~~g~~Gv~~lN~~lq~~lnp~~~~~~~~~~~~~~~~~GDkVm~~~N~~~~~v~NGdiG~I 612 (720)
T TIGR01448 533 VGMARVGGIPGADIQVLAPMYKGPLGIDALNQHLQALLNPYQKGQGGIEIAEGEYRKGDRVMQTKNDYNNEIFNGDLGMI 612 (720)
T ss_pred HHHHHhcCCChhHeeEeCccccCccCHHHHHHHHHHHhCccCCCCceeecCCceecCCCEEEEeeecchhccccCCeeEE
Confidence 2 23455667777777532 22233333221100
Q ss_pred ------------------------hhhhccCCeE---EeecccCCCccccEEEEEccccCCCCCcCCCCCcCceeeechh
Q 001718 735 ------------------------LRQQLYKEIE---VASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTR 787 (1021)
Q Consensus 735 ------------------------~~~~~~~~V~---V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTR 787 (1021)
+.......++ ..|||++||+|+|.||+.+..+. ..+.+++++|||+||
T Consensus 613 ~~i~~~~~~~~~~i~v~f~g~~v~~~~~~~~~l~lAYAiTvHKsQGSe~~~Vii~l~~~~-----~~~l~r~llYTAiTR 687 (720)
T TIGR01448 613 VKIEGAKQGKKDQVVVDFDGNEVELTRAELFNLTLAYATSIHKSQGSEFPTVILPIHTAH-----MRMLYRNLLYTALTR 687 (720)
T ss_pred EeccccccCCCceEEEEECCeEEEEcHHHhhhhhhhheeeehhccCccCCEEEEECCccc-----chhhhhchheeeeee
Confidence 0000000011 34999999999999999876553 236789999999999
Q ss_pred hccceEEEeccccc
Q 001718 788 ARYGIVILGNPKVL 801 (1021)
Q Consensus 788 AK~~LiIVGn~~~L 801 (1021)
||+.|+|+|+.+.|
T Consensus 688 Ak~~l~lvg~~~a~ 701 (720)
T TIGR01448 688 AKKRVILVGSAEAF 701 (720)
T ss_pred eceEEEEEECHHHH
Confidence 99999999998765
No 22
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.93 E-value=3.8e-25 Score=272.61 Aligned_cols=310 Identities=19% Similarity=0.164 Sum_probs=178.2
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhcCCe-E---E
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLK-V---V 462 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~---~~rILV~ApSN~AvDeL~eRL~~~gl~-i---v 462 (1021)
.||++|++||... .+..+|.++||||||+|++++|.+|+... +.+||++||||+||.+|.+|+.+.... . +
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~~~~ 79 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAAEGL 79 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccccCc
Confidence 6999999999987 88999999999999999999999999873 457999999999999999999875321 0 1
Q ss_pred Eeccc---c-------cccc--CCcchh---hhHHHHHhh-------ccch--hHHHHH-HHHHhhhhhc---cCC----
Q 001718 463 RLCAK---S-------REAV--SSPVEH---LTLHYQVRH-------LDTS--EKSELH-KLQQLKDEQG---ELS---- 510 (1021)
Q Consensus 463 Rlg~~---s-------re~i--~~~~~~---l~l~~~i~~-------l~~~--~~~~l~-kl~~lk~~~~---~ls---- 510 (1021)
.++.- . .+.+ ...... ...+..++. ++.. ....+. .+...+.... ...
T Consensus 80 ~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (655)
T COG0210 80 TVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASALLL 159 (655)
T ss_pred EEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhhhhh
Confidence 11100 0 0000 000000 000000100 0000 000000 0111110000 000
Q ss_pred ----hhHHH----HHHHHHHHHH-HHHhhccceeeecccccCCC-C-c--ccCCCCEEEEECCCCCCchhh--hhhhhcc
Q 001718 511 ----SSDEK----KYKALKRATE-REISQSADVICCTCVGAGDP-R-L--ANFRFRQVLIDESTQATEPEC--LIPLVLG 575 (1021)
Q Consensus 511 ----~~~~k----~~~~l~~~~~-~~iL~~a~VI~~T~~~a~~~-~-L--~~~~Fd~VIIDEAsQ~se~e~--LipL~~~ 575 (1021)
....+ .|....+... ...++..+.+.-++...... . + ...+|++|+|||+|++...+. +..+...
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 11333334443333322211 1 1 134899999999999998664 3333333
Q ss_pred CceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHH---cC--CcceEeeEeeccCCCCCCccccccccCccccccccc
Q 001718 576 AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL---LG--LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTIN 650 (1021)
Q Consensus 576 ~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~---~g--~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~ 650 (1021)
...+++|||++| .+|+|..+-.+.+.. .. .+.+.|+.|||+.+.|+.++|.++-.+.-..
T Consensus 240 ~~~l~~VGD~dQ----------sIY~frGA~~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r~----- 304 (655)
T COG0210 240 AANLFVVGDDDQ----------SIYGFRGADPENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKRQ----- 304 (655)
T ss_pred CCCEEEEcCCcc----------ccceeCCCChHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCccC-----
Confidence 468999999999 555665444443322 22 3578999999999999999999875222110
Q ss_pred ccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHcC-CCCCcEEEEcccchHHHHHHHHH
Q 001718 651 ERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYM 729 (1021)
Q Consensus 651 ~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~g-v~~~dIgIITPY~aQ~~~L~~~L 729 (1021)
.+.+. .+ ..+..+............||..|...+..+...+ ...+||+|+...+.|...+++.+
T Consensus 305 ---~k~l~-~~-----------~~~~~~~~~~~~~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s~~~e~~l 369 (655)
T COG0210 305 ---AKTLR-TE-----------VEGSGEKVVLLLANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQSRLIEEAL 369 (655)
T ss_pred ---CCcce-ec-----------cCCCCCCceEEeCCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcchHHHHHHH
Confidence 00000 00 0111111111223445789999999999999988 89999999999999888888777
Q ss_pred Hh
Q 001718 730 SR 731 (1021)
Q Consensus 730 ~~ 731 (1021)
..
T Consensus 370 ~~ 371 (655)
T COG0210 370 RA 371 (655)
T ss_pred HH
Confidence 64
No 23
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=99.91 E-value=2.9e-23 Score=256.82 Aligned_cols=299 Identities=19% Similarity=0.164 Sum_probs=178.9
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001718 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~ 467 (1021)
..||+.|++||..++. .++++|+|+||||||+++..++..+...+ .+|++||||++|++.|.+... +..
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 58999999999999999999877665555 489999999999999986421 110
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCc
Q 001718 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1021)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1021)
.+++..+..+. . ...
T Consensus 421 -----------~Ti~~~~~~~~--------------~----------------------------------------~~~ 435 (744)
T TIGR02768 421 -----------RTLASLEYAWA--------------N----------------------------------------GRD 435 (744)
T ss_pred -----------eeHHHHHhhhc--------------c----------------------------------------Ccc
Confidence 11211100000 0 000
Q ss_pred ccCCCCEEEEECCCCCCchhh--hhhhh-ccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcCCcceEeeEee
Q 001718 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1021)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~se~e~--LipL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qY 624 (1021)
.....++||||||+|+....+ |+... ....++|||||++|||||... ..|..|.. ....+.|+..|
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 012689999999999987542 33322 245689999999999999643 34555543 35678999999
Q ss_pred ccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHH-HHHHHHHHHHHH
Q 001718 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTE-AANVEKIVTTFL 703 (1021)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~E-A~~V~~iV~~Ll 703 (1021)
|....-..-+...+..|........... ...+.+ . .+..+ ...++......+
T Consensus 505 RQ~~~~~~~aa~~i~~G~~~~~l~~~~~------------~~~i~~--~-------------~~~~~~~~~i~~~~~~~~ 557 (744)
T TIGR02768 505 RQREAWARQASLELARGDVEKALAAYRD------------HGHITI--H-------------DTREEAIEQVVADWKQDL 557 (744)
T ss_pred ecCCHHHHHHHHHHHcCCHHHHHHHHhh------------CCCEee--c-------------CCHHHHHHHHHHHHHHhh
Confidence 9865432223333333332211000000 000000 0 00111 111222111111
Q ss_pred HcCCCCCcE-EEEcccchHHHHHHHHHHhc----cch-------------------------------------------
Q 001718 704 RSGVVPSQI-GVITPYEGQRAYIVNYMSRN----GAL------------------------------------------- 735 (1021)
Q Consensus 704 ~~gv~~~dI-gIITPY~aQ~~~L~~~L~~~----~~~------------------------------------------- 735 (1021)
.. ..+.++ .||+|.+..+..|...++.. +.+
T Consensus 558 ~~-~~~~~~~lIla~tn~~v~~LN~~ir~~L~~~g~l~~~~~~~~~~g~~~~~~GDrV~~~~N~~~~gv~NGd~g~V~~i 636 (744)
T TIGR02768 558 RE-ANPAGSQIMLAHTRKDVRALNEAAREALIERGELGESILFQTARGERKFAAGDRIVFLENNRDLGVKNGMLGTVEEI 636 (744)
T ss_pred hh-cCcccceEEEcCchHhHHHHHHHHHHHHHhcCccCcCceeeccCCCceecCCCEEEEEecccccCCcCCCEEEEEEe
Confidence 11 123344 57777777666655544321 100
Q ss_pred -----------------hhhccCCe---EEeecccCCCccccEEEEEccccCCCCCcCCCCCcCceeeechhhccceEEE
Q 001718 736 -----------------RQQLYKEI---EVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVIL 795 (1021)
Q Consensus 736 -----------------~~~~~~~V---~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTRAK~~LiIV 795 (1021)
....+..+ ...|||++||+|+|.||+.. ..+.+++++||||||||+.++|+
T Consensus 637 ~~~~i~v~~~~G~~v~~~~~~~~~l~laYA~TvHKsQGst~~~viv~~---------~~~l~r~llYvAiTRar~~~~l~ 707 (744)
T TIGR02768 637 EDGRLVVQLDSGELVIIPQAEYDALDHGYATTIHKSQGVTVDRAFVLA---------SKSMDRHLAYVAMTRHRESVQLY 707 (744)
T ss_pred cCCeEEEEECCCCEEEECHHHhCccCceEEeccccccCCccCcEEEec---------CCccccchhhhhhhcccceeEEE
Confidence 00000011 14499999999999999962 12467899999999999999999
Q ss_pred eccccccCChhHHHH
Q 001718 796 GNPKVLSKQPLWNGL 810 (1021)
Q Consensus 796 Gn~~~Ls~~~~W~~l 810 (1021)
|+...+....-|..-
T Consensus 708 ~~~~~~~~~~~l~~~ 722 (744)
T TIGR02768 708 AGKEDFTDRGALVKT 722 (744)
T ss_pred EchhhccChHHHHHH
Confidence 998887655444433
No 24
>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=99.90 E-value=1.9e-23 Score=271.08 Aligned_cols=65 Identities=22% Similarity=0.285 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~--~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
++|++|++||..- +...||.|+||||||+|+++++..++..+ ..+||++||||+|+.+|++||.+
T Consensus 1 ~~t~~Q~~ai~~~--~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~ 67 (1232)
T TIGR02785 1 QWTDEQWQAIYTR--GQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEE 67 (1232)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHH
Confidence 3689999999853 66789999999999999999998877653 24799999999999999999865
No 25
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.90 E-value=2e-23 Score=268.15 Aligned_cols=170 Identities=17% Similarity=0.174 Sum_probs=100.2
Q ss_pred CCCCEEEEECCCCCCchhh--hhhhhccCc--eEEEeCCccCCCceeecHHHHHhcchH---HHHHHHHHcCCcceEeeE
Q 001718 550 FRFRQVLIDESTQATEPEC--LIPLVLGAK--QVVLVGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLLGLKPIRLQV 622 (1021)
Q Consensus 550 ~~Fd~VIIDEAsQ~se~e~--LipL~~~~k--rlILVGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~g~~~i~L~~ 622 (1021)
.+|++|+|||+||++..+. +..+..... .+++|||++| ++|+|+. ..|.++.......+.|.+
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ----------SIY~FRGAD~~~~~~~~~~~~~~~~L~~ 364 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ----------AIYSFRGADIFTYLQAKSKADARYTLGT 364 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCcc----------ccccCCCCCHHHHHHHHHhcCcEEECCC
Confidence 3899999999999998763 333332232 7999999999 5666643 334333332235689999
Q ss_pred eeccCCCCCCccccccccCcccc--cc---cccc-cccCCCCCCCCC-CCCCeEEEEeCCceeecccCCCccCHHHHHHH
Q 001718 623 QYRMHPSLSEFPSNSFYEGTLQN--GV---TINE-RQSSGIDFPWPV-PNRPMFFYVQMGQEEISASGTSYLNRTEAANV 695 (1021)
Q Consensus 623 qYRm~p~I~~f~s~~FY~g~L~~--~~---~~~~-r~~~~~~~~~p~-~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V 695 (1021)
|||+++.|++++|.+|-...-.. .. .+.. +........... ...++.++....... ........+|..+
T Consensus 365 NyRS~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~~a~~~ 440 (1087)
T TIGR00609 365 NWRSTPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE----GVDDYRQTIAQKC 440 (1087)
T ss_pred CCCCcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc----ccchHHHHHHHHH
Confidence 99999999999999985421110 00 0000 000000000001 113444443322110 0011123455666
Q ss_pred HHHHHHHHHc---------------CCCCCcEEEEcccchHHHHHHHHHHhcc
Q 001718 696 EKIVTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1021)
Q Consensus 696 ~~iV~~Ll~~---------------gv~~~dIgIITPY~aQ~~~L~~~L~~~~ 733 (1021)
...|.+++.. +++++||+||++.+.|...|++.|.+.+
T Consensus 441 a~~I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~~G 493 (1087)
T TIGR00609 441 AREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKKAQ 493 (1087)
T ss_pred HHHHHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHHCC
Confidence 6666666532 4678999999999999988888887654
No 26
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.89 E-value=1.5e-23 Score=269.70 Aligned_cols=170 Identities=19% Similarity=0.246 Sum_probs=107.5
Q ss_pred CCCCEEEEECCCCCCchhh--hhhhhcc----CceEEEeCCccCCCceeecHHHHHhcch---HHHHHHHHH--cCCcce
Q 001718 550 FRFRQVLIDESTQATEPEC--LIPLVLG----AKQVVLVGDHCQLGPVIMCKKAARAGLA---QSLFERLVL--LGLKPI 618 (1021)
Q Consensus 550 ~~Fd~VIIDEAsQ~se~e~--LipL~~~----~krlILVGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~--~g~~~i 618 (1021)
.+|++|+|||+||++..+. +-.+... ...++||||+|| ++|.|+ ..+|..... .....+
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ----------SIY~FRgAD~~~f~~a~~~~~~~~~~ 446 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ----------SIYRFRGADIFTFLEAASSEKAFARI 446 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchH----------HhhhhcCCChHHHHHHhhccccCcee
Confidence 4799999999999998663 3344333 248999999999 667664 456666666 455678
Q ss_pred EeeEeeccCCCCCCccccccccC------cccccccccc--c-ccCCCCCCCCCCCCCeE-EEEeCC--ceeecccCCCc
Q 001718 619 RLQVQYRMHPSLSEFPSNSFYEG------TLQNGVTINE--R-QSSGIDFPWPVPNRPMF-FYVQMG--QEEISASGTSY 686 (1021)
Q Consensus 619 ~L~~qYRm~p~I~~f~s~~FY~g------~L~~~~~~~~--r-~~~~~~~~~p~~~~p~~-f~~~~g--~ee~~~~~~S~ 686 (1021)
.|.+|||+.++|+++.|.+|-.- .......... + ........|+ .|.. ++.... ..+........
T Consensus 447 ~L~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~e~~~~~~~~~~~~~~ 523 (1139)
T COG1074 447 TLETNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGEP---LPALKFWEEEDDWTAPENEEDERE 523 (1139)
T ss_pred ecccccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCccc---chhhhhhcCcccccCCCCchhHHH
Confidence 99999999999999999999632 1111110000 0 0111111111 1221 111110 00000001123
Q ss_pred cCHHHHHHHHHHHHHHHH--------cCCCCCcEEEEcccchHHHHHHHHHHhc
Q 001718 687 LNRTEAANVEKIVTTFLR--------SGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1021)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~--------~gv~~~dIgIITPY~aQ~~~L~~~L~~~ 732 (1021)
....+|..|...++.+.. ..+.++||+||++.+.+...|+++|++.
T Consensus 524 ~~~~~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~~ 577 (1139)
T COG1074 524 IADLEARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKKA 577 (1139)
T ss_pred HHHHHHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHhc
Confidence 446677778888888774 4588999999999999999999999876
No 27
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.89 E-value=4.1e-22 Score=249.81 Aligned_cols=168 Identities=23% Similarity=0.254 Sum_probs=114.2
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001718 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~ 467 (1021)
..||+.|++||..++. +++++|+|+|||||||++..++..+...+ .+|+.+|||++||..|.+.. |+..
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 3799999999998764 78999999999999999998887665555 49999999999999987642 2111
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCc
Q 001718 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1021)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1021)
.+++..+..+.. +...+
T Consensus 450 -----------~TIas~ll~~~~----------------------------------------------------~~~~l 466 (1102)
T PRK13826 450 -----------RTLSSWELRWNQ----------------------------------------------------GRDQL 466 (1102)
T ss_pred -----------eeHHHHHhhhcc----------------------------------------------------CccCC
Confidence 122211100000 00001
Q ss_pred ccCCCCEEEEECCCCCCchhh--hhhhh-ccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcCCcceEeeEee
Q 001718 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1021)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~se~e~--LipL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qY 624 (1021)
..-++||||||+|+....+ |+... ....+||||||+.||+||-. ...|..|.. ......|++.|
T Consensus 467 --~~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~a----------G~~f~~l~~-~i~~a~LteI~ 533 (1102)
T PRK13826 467 --DNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEA----------GAAFRAIAD-RIGYAELETIY 533 (1102)
T ss_pred --CCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCC----------CcHHHHHHh-hcCEEEeeeee
Confidence 1357999999999987653 33333 24579999999999999963 245555554 45678999999
Q ss_pred ccCCCCCCccccccccCc
Q 001718 625 RMHPSLSEFPSNSFYEGT 642 (1021)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~ 642 (1021)
|...+-..-++..+..|.
T Consensus 534 RQ~~~~~r~Aa~~i~~G~ 551 (1102)
T PRK13826 534 RQREQWMRDASLDLARGN 551 (1102)
T ss_pred ecCChHHHHHHHHHHcCC
Confidence 987653233334444444
No 28
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.89 E-value=3.5e-22 Score=249.64 Aligned_cols=169 Identities=20% Similarity=0.181 Sum_probs=112.4
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001718 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~ 467 (1021)
..||+.|++||..++. .++++|+|+|||||||++..++..+...+ .+|++||||++||.+|.+.. ++.
T Consensus 345 ~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e~~G-~~V~~~ApTGkAA~~L~e~t---Gi~------- 413 (988)
T PRK13889 345 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAAG-YEVRGAALSGIAAENLEGGS---GIA------- 413 (988)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEecCcHHHHHHHhhcc---Ccc-------
Confidence 3699999999999987 67999999999999999876655544444 48999999999999887521 110
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCc
Q 001718 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1021)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1021)
-.+++..+..+. . + ..
T Consensus 414 ----------a~TI~sll~~~~--------------~--------------------------------------~--~~ 429 (988)
T PRK13889 414 ----------SRTIASLEHGWG--------------Q--------------------------------------G--RD 429 (988)
T ss_pred ----------hhhHHHHHhhhc--------------c--------------------------------------c--cc
Confidence 112221110000 0 0 00
Q ss_pred ccCCCCEEEEECCCCCCchhh--hhhhh-ccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcCCcceEeeEee
Q 001718 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1021)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~se~e~--LipL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qY 624 (1021)
.-...++||||||+|+....+ |+... ....+||||||++||+||-. ...|..|.. ....+.|++.+
T Consensus 430 ~l~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~a----------G~~f~~L~~-~~~~a~LteI~ 498 (988)
T PRK13889 430 LLTSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEA----------GAAFRSIHE-RHGGAEIGEVR 498 (988)
T ss_pred ccccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCC----------CchHHHHHH-hcCeEEeceee
Confidence 012578999999999997543 22222 34579999999999999952 245555543 24568999999
Q ss_pred ccCCCCCCccccccccCcc
Q 001718 625 RMHPSLSEFPSNSFYEGTL 643 (1021)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L 643 (1021)
|.......-+...+..|+.
T Consensus 499 RQ~~~~~r~aa~~i~~G~~ 517 (988)
T PRK13889 499 RQREDWQRDATRDLATGRT 517 (988)
T ss_pred cCCCHHHHHHHHHHHcCCc
Confidence 9876544334444444443
No 29
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.88 E-value=5.1e-22 Score=251.73 Aligned_cols=153 Identities=18% Similarity=0.229 Sum_probs=104.0
Q ss_pred CCCCEEEEECCCCCCchhh--hhhhhc----c-----CceEEEeCCccCCCceeecHHHHHhcchH---HHHHHHHHc-C
Q 001718 550 FRFRQVLIDESTQATEPEC--LIPLVL----G-----AKQVVLVGDHCQLGPVIMCKKAARAGLAQ---SLFERLVLL-G 614 (1021)
Q Consensus 550 ~~Fd~VIIDEAsQ~se~e~--LipL~~----~-----~krlILVGD~~QLpPvv~s~~a~~~gl~~---SLFeRL~~~-g 614 (1021)
.+|++|+|||+||++..+. +.+|.. + ...+++|||++| ++|+|.. .+|.++... +
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ----------SIY~FRGA~~~~f~~~~~~~~ 396 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ----------SIYRFRGGKKELFDKVSKDFK 396 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh----------hhhhhcCCChHHHHHHHHHhh
Confidence 4799999999999998663 444431 1 357999999999 6666643 577776543 2
Q ss_pred CcceEeeEeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHH
Q 001718 615 LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAAN 694 (1021)
Q Consensus 615 ~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~ 694 (1021)
...+.|.+||||++.|++++|.+|-... ... .. . . . ........+.++.. . .....+++.
T Consensus 397 ~~~~~L~~NyRS~~~Iv~~~N~~f~~~~-~~~-~~--~-~---~-~~~~~~g~v~i~~~-~----------~~~~~~a~~ 456 (910)
T PRK13909 397 QKVDNLDTNYRSAPLIVDFVNEVFKKKY-KNY-KT--Q-Y---A-EQHKSGGYVEVVEV-A----------DESEELLEQ 456 (910)
T ss_pred hhhcccccCCCCChHHHHHHHHHHHHHH-Hhh-hh--h-h---c-ccccCCCcEEEEEC-C----------CccHHHHHH
Confidence 2457899999999999999999985421 000 00 0 0 0 00001112222211 0 112346788
Q ss_pred HHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHHHhc
Q 001718 695 VEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (1021)
Q Consensus 695 V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L~~~ 732 (1021)
|++.|..+++.|+.++||+||++.+.|...+.+.|...
T Consensus 457 ia~~I~~l~~~g~~~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 457 LLQEIQFLLEKGIDPDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHHHHHHcCCCcCCEEEEEecCccHHHHHHHHHhc
Confidence 99999999999999999999999999998888888776
No 30
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.87 E-value=7.4e-22 Score=254.39 Aligned_cols=170 Identities=16% Similarity=0.207 Sum_probs=101.1
Q ss_pred CCCCEEEEECCCCCCchhh--hhhhhc--cCceEEEeCCccCCCceeecHHHHHhcchHHH---HHHHHHcCCcceEeeE
Q 001718 550 FRFRQVLIDESTQATEPEC--LIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSL---FERLVLLGLKPIRLQV 622 (1021)
Q Consensus 550 ~~Fd~VIIDEAsQ~se~e~--LipL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SL---FeRL~~~g~~~i~L~~ 622 (1021)
.+|++|+|||+||++..+. +..|.. ....+++|||++| .+|+|+..- |-.........+.|++
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ----------sIY~FRGAd~~~~l~~~~~~~~~~~L~~ 445 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQ----------AIYAFRGADIFTYMKARSEVSAHYTLDT 445 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc----------ccccCCCCCchHHHHHHhccCCeeECCC
Confidence 3899999999999998663 333332 1347999999999 555554322 1111111234579999
Q ss_pred eeccCCCCCCccccccccCccc---cccc---ccc-cccCCCCCCCC-CCCCCeEEEEeCCceeecccCCCccCHHHHHH
Q 001718 623 QYRMHPSLSEFPSNSFYEGTLQ---NGVT---INE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAAN 694 (1021)
Q Consensus 623 qYRm~p~I~~f~s~~FY~g~L~---~~~~---~~~-r~~~~~~~~~p-~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~ 694 (1021)
||||++.|++++|.+|....-. .... +.. .......+... ....++.++...+... ........||+.
T Consensus 446 NyRS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~eA~~ 521 (1181)
T PRK10876 446 NWRSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLMEGEGV----GVGDYQQTMAQQ 521 (1181)
T ss_pred CcCcCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeecCCCcc----CcchHHHHHHHH
Confidence 9999999999999998653210 0000 000 00000000000 0112333333322111 111233567888
Q ss_pred HHHHHHHHHHc---------------CCCCCcEEEEcccchHHHHHHHHHHhcc
Q 001718 695 VEKIVTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1021)
Q Consensus 695 V~~iV~~Ll~~---------------gv~~~dIgIITPY~aQ~~~L~~~L~~~~ 733 (1021)
|...|.+++.. ++.++||+||++.+.|...|++.|.+.+
T Consensus 522 iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~~g 575 (1181)
T PRK10876 522 CAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTLLA 575 (1181)
T ss_pred HHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHhCC
Confidence 88888888753 3678999999999999988888876543
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=99.85 E-value=1.1e-20 Score=245.47 Aligned_cols=168 Identities=14% Similarity=0.189 Sum_probs=97.4
Q ss_pred CCCCEEEEECCCCCCchhh--hhhhhcc-----------CceEEEeCCccCCCceeecHHHHHhcch---HHHHHHHHHc
Q 001718 550 FRFRQVLIDESTQATEPEC--LIPLVLG-----------AKQVVLVGDHCQLGPVIMCKKAARAGLA---QSLFERLVLL 613 (1021)
Q Consensus 550 ~~Fd~VIIDEAsQ~se~e~--LipL~~~-----------~krlILVGD~~QLpPvv~s~~a~~~gl~---~SLFeRL~~~ 613 (1021)
.+|++|+|||+||++..+. +.+|... .+.+++|||++| ++|+|. ..+|.++...
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ----------SIY~FRGAd~~~f~~~~~~ 459 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ----------SIYSFQGADPDRFAEERRE 459 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc----------cCccccCCCHHHHHHHHHH
Confidence 4899999999999998663 4444321 357999999999 555654 3455543221
Q ss_pred ----------CCcceEeeEeeccCCCCCCccccccccCccccccccc--ccccCCCCCCCCCCCCCeEEEEeCCce---e
Q 001718 614 ----------GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTIN--ERQSSGIDFPWPVPNRPMFFYVQMGQE---E 678 (1021)
Q Consensus 614 ----------g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~--~r~~~~~~~~~p~~~~p~~f~~~~g~e---e 678 (1021)
....+.|++|||+++.|+++.|.+|-......+.... ........ ......+.++.....+ +
T Consensus 460 ~~~~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~~~~~~~~~~~~---~~~~g~v~l~~~~~~~~~~~ 536 (1141)
T TIGR02784 460 FNRKVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDLVVHEAIR---SDLPGEVELWDLISPEEGED 536 (1141)
T ss_pred HHHhhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCCcchhhcccccc---cCCCCceEEEeccCcccccc
Confidence 1245789999999999999999999653211110000 00000000 0000122222111000 0
Q ss_pred ecc-----c--CCCccCHHHHHHHHHHHHHHHHcC----------CCCCcEEEEcccchH-HHHHHHHHH
Q 001718 679 ISA-----S--GTSYLNRTEAANVEKIVTTFLRSG----------VVPSQIGVITPYEGQ-RAYIVNYMS 730 (1021)
Q Consensus 679 ~~~-----~--~~S~~N~~EA~~V~~iV~~Ll~~g----------v~~~dIgIITPY~aQ-~~~L~~~L~ 730 (1021)
... . ........||+.|.+.|..++..| +.++||+||++.+.+ ...|.+.|.
T Consensus 537 ~~~~~~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~~~~~i~~aL~ 606 (1141)
T TIGR02784 537 PEDWTAPVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDAFVSALIRALK 606 (1141)
T ss_pred ccccccccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCchhHHHHHHHHH
Confidence 000 0 001112258899999999998776 578999999988775 345555444
No 32
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.79 E-value=1.6e-19 Score=190.14 Aligned_cols=174 Identities=28% Similarity=0.361 Sum_probs=110.6
Q ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001718 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~--~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~ 467 (1021)
.||++|++||..++.+ ++++|+||||||||+++..++..+...+ .+|+++||||+|+++|.+++. ++.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT~~Aa~~L~~~~~---~~a------ 70 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPTNKAAKELREKTG---IEA------ 70 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHHT---S-E------
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCcHHHHHHHHHhhC---cch------
Confidence 4899999999999864 5899999999999999999887777765 599999999999999999753 111
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCc
Q 001718 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (1021)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (1021)
.+++..+..... .. .....
T Consensus 71 -----------~Ti~~~l~~~~~---------------~~-----------------------------------~~~~~ 89 (196)
T PF13604_consen 71 -----------QTIHSFLYRIPN---------------GD-----------------------------------DEGRP 89 (196)
T ss_dssp -----------EEHHHHTTEECC---------------EE-----------------------------------CCSSC
T ss_pred -----------hhHHHHHhcCCc---------------cc-----------------------------------ccccc
Confidence 122222221111 00 00000
Q ss_pred ccCCCCEEEEECCCCCCchhh--hhhhhc-cCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcCCcceEeeEee
Q 001718 548 ANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (1021)
Q Consensus 548 ~~~~Fd~VIIDEAsQ~se~e~--LipL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qY 624 (1021)
...+.++||||||+|++...+ ++.+.. ...++|||||++||+|+. ..+.|..+.......+.|++.+
T Consensus 90 ~~~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~----------~g~~~~~l~~~~~~~~~L~~i~ 159 (196)
T PF13604_consen 90 ELPKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVG----------AGSPFADLQESGGITVELTEIR 159 (196)
T ss_dssp C-TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCS----------TTCHHHHHCGCSTTEEEE---S
T ss_pred cCCcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCc----------CCcHHHHHHhcCCCeEEeChhh
Confidence 023578999999999997654 233322 246899999999999995 3456777776665589999999
Q ss_pred ccCCCCCCccccccccCccc
Q 001718 625 RMHPSLSEFPSNSFYEGTLQ 644 (1021)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L~ 644 (1021)
|....-..-+...+.+|...
T Consensus 160 Rq~~~~~~~~~~~~~~g~~~ 179 (196)
T PF13604_consen 160 RQKDPELREAAKAIREGDAE 179 (196)
T ss_dssp CCCCTHHHHHHHHHCTT---
T ss_pred cCCChHHHHHHHHHHcCCCc
Confidence 99744433445555555443
No 33
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.78 E-value=3e-18 Score=223.31 Aligned_cols=173 Identities=20% Similarity=0.268 Sum_probs=118.0
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHHH---cCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001718 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAK---QGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~--~~l~LIqGPPGTGKTtTla~iI~~L~k---~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivR 463 (1021)
..||+.|++||..++. .++++|+|+|||||||++..++..+.. ....+|+.||||++||.+|.+ .|++
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e----~Gi~--- 1038 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS----AGVD--- 1038 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh----cCcc---
Confidence 4699999999999997 469999999999999999888766543 233479999999999998865 2321
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccC
Q 001718 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1021)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (1021)
-.++|..+..... . ..
T Consensus 1039 --------------A~TI~s~L~~~~~------------~--------------------------------------~~ 1054 (1747)
T PRK13709 1039 --------------AQTLASFLHDTQL------------Q--------------------------------------QR 1054 (1747)
T ss_pred --------------hhhHHHHhccccc------------c--------------------------------------cc
Confidence 1223322211000 0 00
Q ss_pred CCCcccCCCCEEEEECCCCCCchhh--hhhhhc-cCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHc-CCcceE
Q 001718 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (1021)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~se~e~--LipL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~~i~ 619 (1021)
.........++||||||+|+....+ |+-++. ...++|||||.+||+||- ....|..|+.. +.+...
T Consensus 1055 ~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~----------aG~~f~~l~~~~~i~~~~ 1124 (1747)
T PRK13709 1055 SGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIA----------PGQPFRLMQTRSAADVAI 1124 (1747)
T ss_pred cccCCCCCCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCC----------CChHHHHHHHhCCCCeEE
Confidence 0001112468999999999997543 333332 346999999999999995 34678888774 577889
Q ss_pred eeEeeccCCCCCCccccccccCcc
Q 001718 620 LQVQYRMHPSLSEFPSNSFYEGTL 643 (1021)
Q Consensus 620 L~~qYRm~p~I~~f~s~~FY~g~L 643 (1021)
|++.+|..+.+. -+...+..|+.
T Consensus 1125 L~eI~RQ~~~lr-~Av~~~~~g~~ 1147 (1747)
T PRK13709 1125 MKEIVRQTPELR-EAVYSLINRDV 1147 (1747)
T ss_pred eCeEEcCcHHHH-HHHHHHHccCH
Confidence 999999987333 33344444433
No 34
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.78 E-value=3.8e-18 Score=219.52 Aligned_cols=166 Identities=22% Similarity=0.296 Sum_probs=116.8
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHH---HcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001718 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA---KQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~--~~l~LIqGPPGTGKTtTla~iI~~L~---k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivR 463 (1021)
..||+.|++||..++. .++++|+|+|||||||++..++..+. +....+|+.+|||++||.+|.+. +++
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 58999999999999999877765443 33445899999999999999652 221
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccC
Q 001718 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1021)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (1021)
-.+++..+..... +. ...
T Consensus 907 --------------A~TIasfL~~~~~--------------------------~~----------------------~~~ 924 (1623)
T PRK14712 907 --------------AQTLASFLHDTQL--------------------------QQ----------------------RSG 924 (1623)
T ss_pred --------------HhhHHHHhccccc--------------------------hh----------------------hcc
Confidence 1223322211000 00 000
Q ss_pred CCCcccCCCCEEEEECCCCCCchhh--hhhhhc-cCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHc-CCcceE
Q 001718 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (1021)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~se~e~--LipL~~-~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~~i~ 619 (1021)
.......++||||||+|+....+ |+.+.. ...++|||||++||+||- ..+.|+.|+.. +.+...
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 00112468999999999998553 333332 347999999999999995 55788888876 578899
Q ss_pred eeEeeccCCCCCCccc
Q 001718 620 LQVQYRMHPSLSEFPS 635 (1021)
Q Consensus 620 L~~qYRm~p~I~~f~s 635 (1021)
|++.+|..+++...+.
T Consensus 993 L~eI~RQ~~elr~AV~ 1008 (1623)
T PRK14712 993 MKEIVRQTPELREAVY 1008 (1623)
T ss_pred eCeeecCCHHHHHHHH
Confidence 9999999877655543
No 35
>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=99.70 E-value=1.6e-16 Score=212.59 Aligned_cols=171 Identities=23% Similarity=0.274 Sum_probs=112.6
Q ss_pred CCCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHH---HHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 001718 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVY---HMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~--~~l~LIqGPPGTGKTtTla~iI~---~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivR 463 (1021)
..||+.|++||..++. ..+++|+|+||||||+++..++. .+.+....+|+.+|||++||++|.+ .|++
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~----~g~~--- 1090 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKS----AGVQ--- 1090 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHh----cCCc---
Confidence 4699999999999886 47999999999999999965443 3334444589999999999999965 2221
Q ss_pred eccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccC
Q 001718 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (1021)
Q Consensus 464 lg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (1021)
-.+++..+..... +
T Consensus 1091 --------------a~Ti~s~l~~~~~--------------------------~-------------------------- 1104 (1960)
T TIGR02760 1091 --------------AQTLDSFLTDISL--------------------------Y-------------------------- 1104 (1960)
T ss_pred --------------hHhHHHHhcCccc--------------------------c--------------------------
Confidence 1122222110000 0
Q ss_pred CCCcccCCCCEEEEECCCCCCchhh--hhhhh-ccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcC-CcceE
Q 001718 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIR 619 (1021)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQ~se~e~--LipL~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g-~~~i~ 619 (1021)
...-...+.++||||||+|+...++ |+.+. ....++|||||++||+|+- ....|+-++..+ .+.+.
T Consensus 1105 ~~~~~~~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~----------aG~~f~~~~~~~~~~~~~ 1174 (1960)
T TIGR02760 1105 RNSGGDFRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLA----------AGKPFELAITFDIIDTAI 1174 (1960)
T ss_pred cccCCCCcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCC----------CCcCHHHHHhcCCCCeEE
Confidence 0000012568999999999998553 33332 3447999999999999984 224566666554 77889
Q ss_pred eeEeeccC-CCCCCccccccccCc
Q 001718 620 LQVQYRMH-PSLSEFPSNSFYEGT 642 (1021)
Q Consensus 620 L~~qYRm~-p~I~~f~s~~FY~g~ 642 (1021)
|++.+|.. ...+.-+...+-.+.
T Consensus 1175 L~~I~RQ~~~~~l~~a~~~~~~~~ 1198 (1960)
T TIGR02760 1175 MKEIVRQNNSAELKAAHNSLDKRS 1198 (1960)
T ss_pred eeeEecCCCCHHHHHHHHHHhcCc
Confidence 99999984 233333334433443
No 36
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.70 E-value=7.4e-17 Score=185.84 Aligned_cols=207 Identities=21% Similarity=0.260 Sum_probs=138.1
Q ss_pred CCCCEEEEECCCCCCchhhhhhhh--ccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHc----CCcceEeeEe
Q 001718 550 FRFRQVLIDESTQATEPECLIPLV--LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL----GLKPIRLQVQ 623 (1021)
Q Consensus 550 ~~Fd~VIIDEAsQ~se~e~LipL~--~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~----g~~~i~L~~q 623 (1021)
.++.++||||||+.+..+. ..+. ..+..+.+|||-.|- +.... . ..+..+|+... ....+.|..+
T Consensus 527 ~~~kh~vIDeaqdys~~q~-~~~r~l~~~as~tivgd~gq~---i~~~~-~----e~~~~e~~~~~fed~~~e~v~l~~s 597 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQF-TDNRTLAERASMTIVGDYGQV---IYDEA-Q----ELSPMERMDVFFEDPSFEYVGLIAS 597 (747)
T ss_pred ccccceeechhhhcchhhh-HHHhhhhhhccceEeccCCce---ehhhh-c----ccCHHHHHHHHHhCCCchhhhhhhh
Confidence 4689999999999997663 2222 245789999999992 21110 0 12233333221 2345789999
Q ss_pred eccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHH
Q 001718 624 YRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFL 703 (1021)
Q Consensus 624 YRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll 703 (1021)
||++.+|.+|++.+.-+ ...... .......|... .+-.|..-.+.+..++.+|.
T Consensus 598 yrSt~eI~efan~~l~d-----~~~~~p--------~~rsge~p~~i-------------~~~~ne~l~qr~~~ii~~mk 651 (747)
T COG3973 598 YRSTAEIDEFANSLLPD-----RFRIHP--------LTRSGEKPAVI-------------MSVANEELVQRNPDIIPRMK 651 (747)
T ss_pred hcChHHHHHHHHHhccC-----CCccch--------hhcCCCCceee-------------eccchHHHHHhhHHHHHHHH
Confidence 99999999999887532 100000 00111233332 23445566677778888887
Q ss_pred HcCCCCCcEEEEcccchHHHHHHHHHHhccchh------hhccCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCC
Q 001718 704 RSGVVPSQIGVITPYEGQRAYIVNYMSRNGALR------QQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLND 777 (1021)
Q Consensus 704 ~~gv~~~dIgIITPY~aQ~~~L~~~L~~~~~~~------~~~~~~V~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d 777 (1021)
+.|. +.|+||++...|..++...|+...... ........|.-|+-.||+|||.||+.-.. +-. .-..+
T Consensus 652 k~~~--etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~e---~te~~ 725 (747)
T COG3973 652 KRGS--ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IVE---ETEQD 725 (747)
T ss_pred hcCC--CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hhc---ccccc
Confidence 7654 679999999999999999988654332 22334578899999999999999986543 211 11367
Q ss_pred cCceeeechhhccceEEEec
Q 001718 778 PRRLNVALTRARYGIVILGN 797 (1021)
Q Consensus 778 ~RrLnVALTRAK~~LiIVGn 797 (1021)
.|.||||+|||-+.|+|+|-
T Consensus 726 ~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 726 LRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred hhhHHHHHHHHHHHHHHhhc
Confidence 89999999999999999874
No 37
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=99.66 E-value=1.8e-16 Score=170.37 Aligned_cols=168 Identities=22% Similarity=0.203 Sum_probs=95.3
Q ss_pred CCCEEEEECCCCCCchhhhh-hhhccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcCCcceEeeEeeccCCC
Q 001718 551 RFRQVLIDESTQATEPECLI-PLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPS 629 (1021)
Q Consensus 551 ~Fd~VIIDEAsQ~se~e~Li-pL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~qYRm~p~ 629 (1021)
.++++||||++++..-.++. ......+.++++||+.|.+...+........+ .........+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHF--------ISDISHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceeccc--------ccceeeeecceeEeecccc
Confidence 58999999999998644333 22234578999999999776643211111111 1001233567888999998
Q ss_pred CCCccccccc-cCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHcCCC
Q 001718 630 LSEFPSNSFY-EGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVV 708 (1021)
Q Consensus 630 I~~f~s~~FY-~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~ 708 (1021)
+..+.+...+ ........ .. .+... -.+.+
T Consensus 134 ~~~~~~~~~~~~~~~~~~~-------------------~~-~~~~~-----------------------------~~~~~ 164 (234)
T PF01443_consen 134 RFDIISALVYTEDHVESSV-------------------EF-RVETD-----------------------------PSGVD 164 (234)
T ss_pred cceeeecccccCCceeecc-------------------cc-ccccc-----------------------------CcccC
Confidence 8888766611 11110000 00 00000 00010
Q ss_pred CCcEEEEcccchHHHHHHHHHHhccchhhhccCCe-EEeecccCCCccccEEEEEccccCCCCCcCCC-CCcCceeeech
Q 001718 709 PSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI-EVASVDSFQGREKDYIILSCVRSNEHQGIGFL-NDPRRLNVALT 786 (1021)
Q Consensus 709 ~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V-~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl-~d~RrLnVALT 786 (1021)
..+.+++.... +.+.+ .. .+.|+|++||+|+|.|++........ ... .+++++|||||
T Consensus 165 -~~~~~~~~~~~----~~~~~------------~~~~~~T~~e~qG~tf~~V~l~~~~~~~~---~~~~~~~~~~~VALT 224 (234)
T PF01443_consen 165 -KVIVYLTFTQA----EKEQL------------GSDRVFTVHESQGLTFDNVTLVLLSDTDN---ELYSESRNHLYVALT 224 (234)
T ss_pred -cccchhhHHHH----HHHHc------------CCCceechHHcceEEeCCEEEEECCCccc---ccccCCcccEEEEcc
Confidence 11122221111 11111 12 58999999999999998876644321 222 36999999999
Q ss_pred hhccceEEE
Q 001718 787 RARYGIVIL 795 (1021)
Q Consensus 787 RAK~~LiIV 795 (1021)
|||+.|+|+
T Consensus 225 R~~~~l~i~ 233 (234)
T PF01443_consen 225 RHTKSLVIL 233 (234)
T ss_pred ccccEEEEE
Confidence 999999986
No 38
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=99.59 E-value=9.5e-16 Score=170.90 Aligned_cols=64 Identities=25% Similarity=0.330 Sum_probs=56.4
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHh
Q 001718 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 391 LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~---~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
||++|+++|.. ..+..+|.|+||||||+|+++++.+|+... +.+||++||||+|+++|.+||..
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHH
Confidence 79999999998 588999999999999999999999998864 56899999999999999999876
No 39
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=99.55 E-value=1.5e-13 Score=184.52 Aligned_cols=167 Identities=19% Similarity=0.209 Sum_probs=113.8
Q ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 001718 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~--~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~ 467 (1021)
.||+.|++||..++.. .+.+|+|+||||||+++..++..+-..+ .+|+++|||++|+..|.+.+...
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G-~~V~~lAPTgrAA~~L~e~~g~~---------- 497 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQG-YEIQIITAGSLSAQELRQKIPRL---------- 497 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhcC-CeEEEEeCCHHHHHHHHHHhcch----------
Confidence 6999999999999874 7999999999999999999887665555 49999999999999998854311
Q ss_pred cccccCCcchhhhHHHHHhhccchh-HHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCC
Q 001718 468 SREAVSSPVEHLTLHYQVRHLDTSE-KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (1021)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~-~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~ 546 (1021)
-.+++.++..+.... ...+.. .+ ...
T Consensus 498 ----------A~Ti~~~l~~l~~~~~~~tv~~-----------------------------fl--------------~~~ 524 (1960)
T TIGR02760 498 ----------ASTFITWVKNLFNDDQDHTVQG-----------------------------LL--------------DKS 524 (1960)
T ss_pred ----------hhhHHHHHHhhcccccchhHHH-----------------------------hh--------------ccc
Confidence 122332222211100 000000 00 000
Q ss_pred cccCCCCEEEEECCCCCCchhhhhhh--h-ccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHcCCcceEeeEe
Q 001718 547 LANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQ 623 (1021)
Q Consensus 547 L~~~~Fd~VIIDEAsQ~se~e~LipL--~-~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~i~L~~q 623 (1021)
..-..-++||||||+|++..++...+ . ....+||||||+.||+++- ..+.|.-|...+.+.+.|+..
T Consensus 525 ~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~----------aG~~f~~L~~~gv~t~~l~~i 594 (1960)
T TIGR02760 525 SPFSNKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMS----------AGSAIDLLKEGGVTTYAWVDT 594 (1960)
T ss_pred CCCCCCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccc----------cchHHHHHHHCCCcEEEeecc
Confidence 00125789999999999986643333 2 2457999999999999985 346677777778888888776
Q ss_pred eccCCCC
Q 001718 624 YRMHPSL 630 (1021)
Q Consensus 624 YRm~p~I 630 (1021)
-|....|
T Consensus 595 ~rq~~~v 601 (1960)
T TIGR02760 595 KQQKASV 601 (1960)
T ss_pred cccCcce
Confidence 6654443
No 40
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.54 E-value=1.3e-14 Score=180.35 Aligned_cols=133 Identities=28% Similarity=0.331 Sum_probs=94.1
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecccc
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~s 468 (1021)
..++++|.+|+..++.++.++|.|+||||||+++..++..+.... ..+++.++|.+|+..|.+.-...
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 478999999999999999999999999999999988887555443 46999999999999888742110
Q ss_pred ccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCcc
Q 001718 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (1021)
Q Consensus 469 re~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~ 548 (1021)
-.++|. +..+..... ....
T Consensus 386 ---------a~ti~~---------------~~~~~~~~~-------------------------------------~~~~ 404 (696)
T COG0507 386 ---------ARTIHR---------------LLGLWEKTG-------------------------------------NNEE 404 (696)
T ss_pred ---------hhHHHH---------------HHhccccCC-------------------------------------CCCC
Confidence 112222 111111000 0112
Q ss_pred cCCCCEEEEECCCCCCchhhhhhh---hccCceEEEeCCccCCCceeecH
Q 001718 549 NFRFRQVLIDESTQATEPECLIPL---VLGAKQVVLVGDHCQLGPVIMCK 595 (1021)
Q Consensus 549 ~~~Fd~VIIDEAsQ~se~e~LipL---~~~~krlILVGD~~QLpPvv~s~ 595 (1021)
....|.+||||++++.. ....-+ .....++|+|||..||+++....
T Consensus 405 ~~~~d~~iiDe~~ml~~-~~~~~l~~~i~~~a~~i~vGD~~ql~~v~~g~ 453 (696)
T COG0507 405 PLDGDLLIIDEASMLDT-SLAFGLLSAIGKLAKVILVGDVDQLPSVGAGA 453 (696)
T ss_pred ccccceeEEehhhhHHH-HHhhhhhcccccCCeEEEeCCHHhcCCCCCCc
Confidence 23679999999999988 332222 12457999999999999997654
No 41
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=99.49 E-value=5.3e-14 Score=161.33 Aligned_cols=164 Identities=21% Similarity=0.277 Sum_probs=103.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH--HHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCcchhhhHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM--AKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHY 483 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L--~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~~sre~i~~~~~~l~l~~ 483 (1021)
.+++|+|.||||||.++..++..| ...+ .++++++++..-++.|.+.+....... ..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~-~~~~~l~~n~~l~~~l~~~l~~~~~~~---------~~----------- 60 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEEG-KKVLYLCGNHPLRNKLREQLAKKYNPK---------LK----------- 60 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccccC-CceEEEEecchHHHHHHHHHhhhcccc---------hh-----------
Confidence 468999999999999999999998 3333 488999999998888888776542000 00
Q ss_pred HHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCCcccCCCCEEEEECCCCC
Q 001718 484 QVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQA 563 (1021)
Q Consensus 484 ~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQ~ 563 (1021)
...+.... . .+.... ........||+||||||+.+
T Consensus 61 ---------~~~~~~~~------------------~--------~i~~~~----------~~~~~~~~~DviivDEAqrl 95 (352)
T PF09848_consen 61 ---------KSDFRKPT------------------S--------FINNYS----------ESDKEKNKYDVIIVDEAQRL 95 (352)
T ss_pred ---------hhhhhhhH------------------H--------HHhhcc----------cccccCCcCCEEEEehhHhh
Confidence 00000000 0 000000 01123347999999999998
Q ss_pred Cc----------hhhhhhhhccCceEEEeCCccCCCceeecHHHHHhcchHHHHHHHHHc-CCcc---eEeeEeecc--C
Q 001718 564 TE----------PECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKP---IRLQVQYRM--H 627 (1021)
Q Consensus 564 se----------~e~LipL~~~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~~---i~L~~qYRm--~ 627 (1021)
.. ...|.-+...++.+|++-|+.| ++.... -.....++.+... +... +.|+.|||| .
T Consensus 96 ~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q---~i~~~e----~~~~~~l~~~~~~~~~~~~~~~~L~~q~R~~~~ 168 (352)
T PF09848_consen 96 RTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQ---SIRPSE----IGTLENLEEIAENLGIEVRHFFELKTQFRCHGS 168 (352)
T ss_pred hhccccccccccHHHHHHHHhcCCEEEEEEcccc---Eeeccc----CCCHHHHHHHHHhcCCccccCcCcCcceecCCC
Confidence 87 2345555555778898999999 222111 0123334444333 3322 489999999 8
Q ss_pred CCCCCccccccccCc
Q 001718 628 PSLSEFPSNSFYEGT 642 (1021)
Q Consensus 628 p~I~~f~s~~FY~g~ 642 (1021)
+++.+|+.++++...
T Consensus 169 ~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 169 KEYIDWIDNLLDNKN 183 (352)
T ss_pred HHHHHHHHHHHhccc
Confidence 999999998886543
No 42
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.46 E-value=1.1e-13 Score=156.52 Aligned_cols=365 Identities=15% Similarity=0.101 Sum_probs=195.6
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC---------
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG--------- 458 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~g--------- 458 (1021)
.+|+..|++|+-... .+.-.|+|-+|+|||.++++.+++|... +..+|+++.+|...+..|+.++.+..
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 578889988765432 3445899999999999999999988765 66799999999999999988876531
Q ss_pred --CeEEEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceee
Q 001718 459 --LKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIC 536 (1021)
Q Consensus 459 --l~ivRlg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~ 536 (1021)
-..++.+.... ..+. ++. .......+++.. ++.... .++.. -++++..+.
T Consensus 240 W~~~l~~h~wgG~--t~~g--~y~--------------~~~~~~~~~~~~--fsg~g~-~F~~a----C~eli~~~~--- 291 (660)
T COG3972 240 WGTKLFCHNWGGL--TKEG--FYG--------------MYRYICHYYEIP--FSGFGN-GFDAA----CKELIADIN--- 291 (660)
T ss_pred ccceEEEeccCCC--CCCc--chH--------------HHHHHhcccccc--cCCCCc-chHHH----HHHHHHhhh---
Confidence 11111110000 0000 000 000000000000 000000 01111 111221111
Q ss_pred ecccccCCCCcccCCCCEEEEECCCCCCc--hhhhhhhhccCceEEEeCCccCC-CceeecHHHHHhcchHHHHHH--HH
Q 001718 537 CTCVGAGDPRLANFRFRQVLIDESTQATE--PECLIPLVLGAKQVVLVGDHCQL-GPVIMCKKAARAGLAQSLFER--LV 611 (1021)
Q Consensus 537 ~T~~~a~~~~L~~~~Fd~VIIDEAsQ~se--~e~LipL~~~~krlILVGD~~QL-pPvv~s~~a~~~gl~~SLFeR--L~ 611 (1021)
.+.-+|+|+|||+|+... .++..-+....|++|.++|.-|- .-+-+-..+...+-...---| |.
T Consensus 292 -----------~~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg~P~V~l~ 360 (660)
T COG3972 292 -----------NKKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDGEPRVNLA 360 (660)
T ss_pred -----------ccccccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCCCcccccc
Confidence 123599999999999875 22222233457899999999993 111111111111110000000 00
Q ss_pred HcCCcceEeeEeeccCCCCCCccccc---cccCcccc----------cccccccccC---CCCCCCCCCCCCeEEEEeCC
Q 001718 612 LLGLKPIRLQVQYRMHPSLSEFPSNS---FYEGTLQN----------GVTINERQSS---GIDFPWPVPNRPMFFYVQMG 675 (1021)
Q Consensus 612 ~~g~~~i~L~~qYRm~p~I~~f~s~~---FY~g~L~~----------~~~~~~r~~~---~~~~~~p~~~~p~~f~~~~g 675 (1021)
.....-+.|.+.||..|..+-++-.+ .|.|..+- +-.+..-.+. .+...-+....|.++-....
T Consensus 361 radr~DiVL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~ 440 (660)
T COG3972 361 RADRNDIVLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHK 440 (660)
T ss_pred cCccccchHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCC
Confidence 00112367999999988776654443 13322110 0000000000 00000011122333221111
Q ss_pred ceeecccCCCccCHHHHHHHHHHHHHHHHcCCCCCcEEEEcccch----HHHHHHHHHHhccch------------hhhc
Q 001718 676 QEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEG----QRAYIVNYMSRNGAL------------RQQL 739 (1021)
Q Consensus 676 ~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~dIgIITPY~a----Q~~~L~~~L~~~~~~------------~~~~ 739 (1021)
.+....-..+-.-..|+.+|+.-|..+.+.++..+||.||.+... -...|.+-|...+.- ....
T Consensus 441 p~~i~~fi~fd~~~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~ 520 (660)
T COG3972 441 PTAIHLFIGFDNGPDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQ 520 (660)
T ss_pred hhhhheeeccCCcchhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCccccccccc
Confidence 111111111222367889998888888888999999999987543 333444444433210 0111
Q ss_pred cCCeEEeecccCCCccccEEEEEccccCCCCCcCCCCCcCceeeechhhccceEEEe
Q 001718 740 YKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILG 796 (1021)
Q Consensus 740 ~~~V~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTRAK~~LiIVG 796 (1021)
...|.+++|-.+||.|+.+|+...+..-. .|....++-+++|+||.|.-+-|+|
T Consensus 521 dgkvtis~IyrAKGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~g 574 (660)
T COG3972 521 DGKVTISRIYRAKGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVG 574 (660)
T ss_pred CceEEeeeehhccCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhc
Confidence 23699999999999999999997775432 4556667799999999999998888
No 43
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=99.31 E-value=9.4e-13 Score=148.40 Aligned_cols=96 Identities=20% Similarity=0.295 Sum_probs=61.1
Q ss_pred eEeeEeeccCCCCCCcccccccc-----CcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHH
Q 001718 618 IRLQVQYRMHPSLSEFPSNSFYE-----GTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEA 692 (1021)
Q Consensus 618 i~L~~qYRm~p~I~~f~s~~FY~-----g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA 692 (1021)
+.|++|||+++.|++++|.+|-. ..-........ .......++.++.. .....|+
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 00000012222222 1235688
Q ss_pred HHHHHHHHHHHHcCCCCCcEEEEcccchHHHHHHHHHHhcc
Q 001718 693 ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (1021)
Q Consensus 693 ~~V~~iV~~Ll~~gv~~~dIgIITPY~aQ~~~L~~~L~~~~ 733 (1021)
+.|.+.|..+...+++++||+||++.+.+...|.+.|...+
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 99999999998889999999999999999999988887654
No 44
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=99.30 E-value=1.9e-12 Score=149.12 Aligned_cols=60 Identities=32% Similarity=0.482 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHh------cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHH
Q 001718 390 ELNASQVFAVKSVL------QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQL 450 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al------~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL 450 (1021)
.||++|++++..++ ......|.|++|||||+++.+++..+...+ ..|++||+|..||.+|
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~-~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRG-KKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcccc-ceEEEecchHHHHHhc
Confidence 48999999988883 355788999999999999999998765543 4899999999999887
No 45
>PF13245 AAA_19: Part of AAA domain
Probab=99.24 E-value=1.5e-11 Score=109.92 Aligned_cols=58 Identities=43% Similarity=0.644 Sum_probs=51.1
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHH
Q 001718 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKI 454 (1021)
Q Consensus 397 ~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~---~~~rILV~ApSN~AvDeL~eRL 454 (1021)
+||..++. +++++|+||||||||+|++.++..++.. +..+||+++|||.|+|+|.+|+
T Consensus 1 ~av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 1 EAVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CHHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 36776776 8899999999999999999999999864 2458999999999999999999
No 46
>PRK10536 hypothetical protein; Provisional
Probab=98.92 E-value=5.2e-09 Score=113.63 Aligned_cols=58 Identities=22% Similarity=0.287 Sum_probs=45.0
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCc
Q 001718 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPS 443 (1021)
Q Consensus 386 ~~~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~ApS 443 (1021)
..+..+|..|..++..+....+++|.||+|||||+++..+...++..+ ..+|+++-|+
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~ 113 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPV 113 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCC
Confidence 345679999999999888888999999999999999998888655333 3345554433
No 47
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=98.92 E-value=1.5e-09 Score=114.75 Aligned_cols=56 Identities=29% Similarity=0.579 Sum_probs=41.5
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCC-CcEEEEcCcH
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSN 444 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~-~rILV~ApSN 444 (1021)
..+|..|+.++..++..+++++.||+|||||.++++...+++..+. .+|+++-|+-
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v 59 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPV 59 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S-
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCC
Confidence 3579999999999999999999999999999999998888887744 4666665544
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=98.86 E-value=3.5e-08 Score=129.58 Aligned_cols=160 Identities=12% Similarity=0.052 Sum_probs=87.1
Q ss_pred CCCEEEEECCCCCCchhh--hhhhhccCceEEEeCCccCCCceeecHH-HHHhcchHHHHHHHHHcCCcceEeeEeeccC
Q 001718 551 RFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKK-AARAGLAQSLFERLVLLGLKPIRLQVQYRMH 627 (1021)
Q Consensus 551 ~Fd~VIIDEAsQ~se~e~--LipL~~~~krlILVGD~~QLpPvv~s~~-a~~~gl~~SLFeRL~~~g~~~i~L~~qYRm~ 627 (1021)
+..+|+|||+++++..+. +-.|...++++++|||.+|.. .... ...+.+....+.++.. +.++.+||..
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 467999999999998663 444445578999999999951 0000 0112233344444443 2233455554
Q ss_pred CCCCCccccccccC-cccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHHHHHc-
Q 001718 628 PSLSEFPSNSFYEG-TLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS- 705 (1021)
Q Consensus 628 p~I~~f~s~~FY~g-~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~- 705 (1021)
+.|....+.....+ .+. ...................++.++... .-..|++.|...|.++++.
T Consensus 268 ~~i~~~~~~~~~~~~~l~---~Lek~l~~~~~~~~~~~~~~I~i~~~~------------~~~~Eae~va~~I~~l~~~~ 332 (1158)
T TIGR02773 268 EPIFLNEYRPNKKNKELA---HLEKQFDARPFNAYIEEDGSISIFEAN------------NRRAEVEGVARQILRLTRDK 332 (1158)
T ss_pred cccccccccCCCCCHHHH---HHHHHHhhCCCCCCCCCCCCeEEEEcC------------CHHHHHHHHHHHHHHHHHcC
Confidence 44432111110000 000 000000000000001111222222221 1257999999999999876
Q ss_pred CCCCCcEEEEccc-chHHHHHHHHHHhcc
Q 001718 706 GVVPSQIGVITPY-EGQRAYIVNYMSRNG 733 (1021)
Q Consensus 706 gv~~~dIgIITPY-~aQ~~~L~~~L~~~~ 733 (1021)
|+.++||+||++. +.+...|...|.+.+
T Consensus 333 g~~~~DIAVL~R~~~~y~~~i~~~f~~~~ 361 (1158)
T TIGR02773 333 QYRYQDIAILTRDLEDYAKLVEAVFSDYE 361 (1158)
T ss_pred CCChhheEEEeCCHHHHHHHHHHHHHhCC
Confidence 8999999999999 899999999887643
No 49
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.72 E-value=8.7e-08 Score=98.17 Aligned_cols=69 Identities=26% Similarity=0.371 Sum_probs=60.1
Q ss_pred CCCCHHHHHHHHHHhcC-CcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~-~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+++.|.+++..++.. ...+|.||+|||||+++...+..++... ..++|+++||+.++.++..++...
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHH
Confidence 46899999999999987 8999999999999998888777766653 458999999999999999888764
No 50
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.65 E-value=6.5e-09 Score=126.93 Aligned_cols=391 Identities=24% Similarity=0.286 Sum_probs=237.7
Q ss_pred CCCCCHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH-Hhc---C
Q 001718 388 LPELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI-SAT---G 458 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~-----~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL-~~~---g 458 (1021)
...+|..|..|+..... ....|++|+ |+|||.+++.-+..+......+++++.+++.|++...... ++. +
T Consensus 118 ~~~~~~~~~~~l~~~~~~~l~e~~P~L~~G~-~~~~~~~~~~~~~~~~~~~~~k~~~~l~~~~~~~~~ir~y~~~~v~~~ 196 (775)
T KOG1804|consen 118 EPRLNALQKGALLAITVPLLRELPPSLLIGP-GTGETLELAQAVKSLLQQEEAKILILLHSESAADIYIREYLHPYVEEG 196 (775)
T ss_pred chhhhhhhcccccceeccccccCCcccccCC-ccccceeecchhhcccccccccceEeechhHHHHHHHHHhhccccccc
Confidence 34677777777665432 456888998 9999999988887777666679999999999976544333 221 1
Q ss_pred CeE---EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhcccee
Q 001718 459 LKV---VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVI 535 (1021)
Q Consensus 459 l~i---vRlg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI 535 (1021)
.+. .|.....+....... -+.+...+-... ..+ ..-....+++ .+|+
T Consensus 197 ~~~~~~~r~~~~~r~l~~~~p------------------vv~~~~~if~~~--------~~~---~~pq~~~~~~-Hrv~ 246 (775)
T KOG1804|consen 197 LPEATPLRVYSRKRPLAQVNP------------------VVLQYCFIFDSH--------ITF---RRPQVEDLFK-HRVV 246 (775)
T ss_pred ccccccccceeecccccccCC------------------ceeeeeeeccch--------hhh---ccchhhhhcc-ccee
Confidence 111 022111111000000 000000000000 000 0000112233 6677
Q ss_pred eecccccC---CCCcccCCCCEEEEECCCCCCchhhhhhhhc--cCceEEEeCCccCCCceeecHHHHHhcchHHHHHHH
Q 001718 536 CCTCVGAG---DPRLANFRFRQVLIDESTQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERL 610 (1021)
Q Consensus 536 ~~T~~~a~---~~~L~~~~Fd~VIIDEAsQ~se~e~LipL~~--~~krlILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL 610 (1021)
+.|..... ...+....|.+++.|||.++.+.+.+.|+.+ ..++++|.||+.||-|.+.+.......+. .+..++
T Consensus 247 ~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~~~~~~ 325 (775)
T KOG1804|consen 247 VVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQALH-LLLCRL 325 (775)
T ss_pred EeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhhhh-hccccc
Confidence 66665433 2234445689999999999999999999765 45799999999999998766544433332 222222
Q ss_pred HHc----CCcceEeeEeeccCCCCCCccccccccCcccccccccccccCCCCCCCCCCCCCeEEEEeCCceeecccCCCc
Q 001718 611 VLL----GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSY 686 (1021)
Q Consensus 611 ~~~----g~~~i~L~~qYRm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~~~S~ 686 (1021)
... +...+-.+.|||.+-.|..|.+..||...........+ .+......|..|....+..........+
T Consensus 326 ~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k-------~~~~rl~~p~~~~~~~~~~~~~~~~~~~ 398 (775)
T KOG1804|consen 326 PEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGK-------QPAHRLHYPLTFSTARGEDVRAKSSTAW 398 (775)
T ss_pred ccccccccCCCcCCccchHHHHHHHHhcchHHHhhcccccccccc-------cccccccccccccccccccccccchhHH
Confidence 211 22335689999999999999999999754332211111 1112224577777777766666667788
Q ss_pred cCHHHHHHHHHHHHHHHHcC-----C-CCCcEEEEcccchHHHHHHHHHHhccchhhhccCCeEEeecccCCCcccc---
Q 001718 687 LNRTEAANVEKIVTTFLRSG-----V-VPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKD--- 757 (1021)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~g-----v-~~~dIgIITPY~aQ~~~L~~~L~~~~~~~~~~~~~V~V~TVdsfQG~E~D--- 757 (1021)
+|..|...++.-+..+.+.. + .-..+|++++|..|+..++..|.+.+....+ -.---+|..+-
T Consensus 399 ~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stE--------pe~lv~i~~~~~~~ 470 (775)
T KOG1804|consen 399 YNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTE--------PELLVPGKQFRQPF 470 (775)
T ss_pred hhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecccccccC--------ccccccccccccee
Confidence 88888888888887776432 1 2346899999999998888877443211100 00001111111
Q ss_pred EEEEEccc--------cCCCCCcCCCCCcCceeeechhhccceEEEeccccccC----ChhHHHHHHHHHhcCceecCCC
Q 001718 758 YIILSCVR--------SNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSK----QPLWNGLLTHYKEHECLVEGPL 825 (1021)
Q Consensus 758 vVIlS~Vr--------sn~~~~iGFl~d~RrLnVALTRAK~~LiIVGn~~~Ls~----~~~W~~ll~~~~~~~~l~~~~l 825 (1021)
.|+|++.. +......| .++.+++.|+|||-..+-.+|+.+.+.. ..+|.+.+..+-.+..++++.+
T Consensus 471 ~vvLsgdh~Qlgpv~~s~~A~~~g--l~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL 548 (775)
T KOG1804|consen 471 QVVLSGDHTQLGPVSKSARAEELG--LDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGEL 548 (775)
T ss_pred EEEEccCcccccccccchhhhhhc--ccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccce
Confidence 44444332 22122223 4588999999999999999999988765 5789999999999999888776
Q ss_pred cc
Q 001718 826 NN 827 (1021)
Q Consensus 826 ~~ 827 (1021)
..
T Consensus 549 ~~ 550 (775)
T KOG1804|consen 549 TA 550 (775)
T ss_pred ee
Confidence 43
No 51
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.57 E-value=1.9e-05 Score=94.24 Aligned_cols=70 Identities=21% Similarity=0.252 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHH-HHHHHcC-------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV-YHMAKQG-------QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI-~~L~k~~-------~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
+..+++-|.+||..++...-.|+++|.|||||.+...-+ ..+.... ..++|+++||...|.++.+.+...
T Consensus 21 ~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 21 YREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 347899999999999987779999999999998765443 3333221 126999999999999998887653
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=98.57 E-value=1.2e-08 Score=96.08 Aligned_cols=50 Identities=26% Similarity=0.195 Sum_probs=40.2
Q ss_pred CeEEeecccCCCccccEEEEEccccCCCCCcCCCCCcCceeeechhhccceEEE
Q 001718 742 EIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVIL 795 (1021)
Q Consensus 742 ~V~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iGFl~d~RrLnVALTRAK~~LiIV 795 (1021)
.+.+.|||++||+|||.||+....... .-...+|+|||||||||+.|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~----~~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSN----FDELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGS----GCGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCccc----CCchhhccEEeeHhHhhhhhCCC
Confidence 688999999999999999998876651 11355788999999999999997
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=98.51 E-value=5.3e-07 Score=86.81 Aligned_cols=51 Identities=31% Similarity=0.504 Sum_probs=44.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+|.||+|||||+++...+..+... ...++++++|++..++++.+++...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 46899999999999999999888765 4569999999999999999887664
No 54
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=98.48 E-value=1e-07 Score=115.61 Aligned_cols=65 Identities=31% Similarity=0.393 Sum_probs=52.5
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCC---CcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ---GQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~---~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.||.+|..++..- ....-+|.| ||+|||.++...+.+++..+. .-|++.|.||+|+|.+.+++..
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 5778887776642 155567777 999999999999999887643 3599999999999999999865
No 55
>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=98.37 E-value=4.3e-06 Score=84.88 Aligned_cols=66 Identities=23% Similarity=0.375 Sum_probs=55.9
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 392 N~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
++.|.+++..++.+.-++|.||+|+|||++....+...+... ..++++++|+...++++.+++...
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 349999999999999999988765
No 56
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.33 E-value=2.1e-05 Score=97.05 Aligned_cols=69 Identities=22% Similarity=0.238 Sum_probs=54.7
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHH-HHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY-HMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~-~L~k~-~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+.++++-|.+|+..++...-+|+++|.|||||.+...-+. .+... ...++||++||...+.++.+.+..
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 3478999999999999888899999999999987644333 33222 334899999999999999887654
No 57
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.32 E-value=0.0011 Score=81.46 Aligned_cols=70 Identities=17% Similarity=0.185 Sum_probs=56.0
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHH-HHHHHHHcC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~-iI~~L~k~~--------~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
+..+++-|.++|..++...-+++++|.|||||.+... ++..|++.. ..++|+++||...+.++.+.+...
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 3478999999999999988899999999999987644 344444321 248999999999999998887654
No 58
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=98.30 E-value=8.8e-06 Score=85.66 Aligned_cols=69 Identities=23% Similarity=0.220 Sum_probs=56.8
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtT-la~iI~~L~k~---~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+++.|++|+..++...-.+|.+|.|+|||.+ +..++..+... ...++++++||...+.++.+.+...
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 468999999999999888899999999999987 45555666554 3458999999999999988877654
No 59
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.23 E-value=6.7e-06 Score=99.10 Aligned_cols=69 Identities=22% Similarity=0.222 Sum_probs=60.3
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..|.+.|++||..++...-.++++|.|+|||.++..++..++.....++|+++||...++++.+++.+.
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 368899999999999887789999999999999887777666665559999999999999999998765
No 60
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=98.22 E-value=2.7e-05 Score=99.43 Aligned_cols=66 Identities=24% Similarity=0.293 Sum_probs=54.9
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~------~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
++++.|.+||..++.. .-.||+|+.|||||.+....+...+..+ .++++++||..-|.+..+.+.+
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g-~qvlvLvPT~~LA~Q~~~~f~~ 522 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG-KQVAVLVPTTLLAQQHFETFKE 522 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC-CeEEEEeCcHHHHHHHHHHHHH
Confidence 5899999999998863 2479999999999998876665555555 4899999999999999887765
No 61
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.15 E-value=1.2e-05 Score=95.06 Aligned_cols=69 Identities=25% Similarity=0.279 Sum_probs=54.7
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHH-HHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAI-VYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~i-I~~L~k~-----~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+++-|.+|+..++...-.++.+|.|||||.+.... +.+|... +..++|+++||...|.++.+.+...
T Consensus 22 ~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l 96 (434)
T PRK11192 22 TRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAREL 96 (434)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHH
Confidence 4678999999999998878999999999999875443 3444332 2348999999999999998876543
No 62
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.14 E-value=4.3e-05 Score=99.59 Aligned_cols=66 Identities=24% Similarity=0.292 Sum_probs=54.8
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~------~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.+++.|.+|+..++.. .-.||+|+.|||||.++...+...+..+ .++||++||..-|.++.+.+.+
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g-~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENH-KQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHH
Confidence 7899999999998864 3589999999999998776665555544 4899999999999998887764
No 63
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.11 E-value=3e-05 Score=96.60 Aligned_cols=73 Identities=30% Similarity=0.395 Sum_probs=61.4
Q ss_pred CCCCHHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-CCeEE
Q 001718 389 PELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GLKVV 462 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~---~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~-gl~iv 462 (1021)
..|++.|++|+..++. ....|++|+.|||||.+...++...+..+. ++|+++||..-++++.+++.+. +.++.
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~-~vLvLvPt~~L~~Q~~~~l~~~fg~~v~ 219 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGK-QALVLVPEIALTPQMLARFRARFGAPVA 219 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCC-eEEEEeCcHHHHHHHHHHHHHHhCCCEE
Confidence 4699999999999886 367999999999999998888877776654 8999999999999999999763 44443
No 64
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.03 E-value=5.1e-05 Score=90.55 Aligned_cols=70 Identities=23% Similarity=0.246 Sum_probs=54.7
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~--~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
...+++-|.+|+..++...-.++++|.|||||.+...-+...+.. ...++|+++||...++++.+.+...
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 346899999999999998889999999999997654333333322 2337999999999999998877643
No 65
>PTZ00424 helicase 45; Provisional
Probab=98.02 E-value=2.9e-05 Score=90.62 Aligned_cols=70 Identities=24% Similarity=0.265 Sum_probs=56.3
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~--~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
...+++.|.+|+..++...-.+|++|.|||||.+....+...+.. ...++|+++||...+.++.+.+...
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 347899999999999988788999999999998766555444443 3458999999999999888776554
No 66
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=98.02 E-value=1.2e-05 Score=80.06 Aligned_cols=53 Identities=28% Similarity=0.426 Sum_probs=42.8
Q ss_pred CCcEEEECCCCCcHHH-HHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 405 RPISLIQGPPGTGKTV-TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTt-Tla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
..+.+|.=.||+|||+ ++.+++.+-++.+. |+||++||...++++.+.|....
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 68888888887765 99999999999999999997654
No 67
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.97 E-value=5.8e-05 Score=94.29 Aligned_cols=67 Identities=30% Similarity=0.391 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHHhcC------CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~------~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
+|++.|++|+..++.. .-.||+||.|||||.+....+...+..+. ++|+++||...|.++.+++.+.
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~-q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGY-QAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEEeccHHHHHHHHHHHHHH
Confidence 6999999999998763 25799999999999988777766665544 8999999999999999887654
No 68
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.96 E-value=5.9e-05 Score=93.48 Aligned_cols=67 Identities=30% Similarity=0.413 Sum_probs=55.2
Q ss_pred CCCHHHHHHHHHHhcC---C---cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQR---P---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~---~---l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
.|++.|++|+..++.. + ..||+||.|||||.+....+...+..+. ++|+++||...|.++.+.+.+.
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~-qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGY-QVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCC-cEEEECCHHHHHHHHHHHHHHH
Confidence 6999999999998763 2 3699999999999987666655555554 8999999999999998887653
No 69
>PRK02362 ski2-like helicase; Provisional
Probab=97.94 E-value=2.1e-05 Score=99.27 Aligned_cols=69 Identities=22% Similarity=0.262 Sum_probs=55.8
Q ss_pred CCCCCHHHHHHHHH-HhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 388 LPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~-al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
+.+|++.|.+|+.. .+...-.+|.+|.|+|||.+....+...+.. ..++|+++|+..-+++..+++.+.
T Consensus 21 ~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~-~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 21 IEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-GGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHHHHh
Confidence 45799999999998 4567789999999999999876544443333 458999999999999999888754
No 70
>PRK00254 ski2-like helicase; Provisional
Probab=97.90 E-value=4.3e-05 Score=96.19 Aligned_cols=68 Identities=22% Similarity=0.347 Sum_probs=55.3
Q ss_pred CCCCCHHHHHHHHH-HhcCCcEEEECCCCCcHHHHHH-HHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 388 LPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~-al~~~l~LIqGPPGTGKTtTla-~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
..+||+-|.+|+.. .+.+.-.+|.+|.|||||.+.. .++..+... ..++++++|+..-+++..+++..
T Consensus 21 ~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~-~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 21 IEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE-GGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc-CCeEEEEeChHHHHHHHHHHHHH
Confidence 45799999999986 5667789999999999999874 444455443 45999999999999999988764
No 71
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.86 E-value=8.1e-05 Score=87.88 Aligned_cols=69 Identities=20% Similarity=0.186 Sum_probs=54.1
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHH-HHHHHHc--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAI-VYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~i-I~~L~k~--------~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+..+++-|.+|+..++...-.++++|.|||||.+.... +..+... ...++||++||...|.++.+.+..
T Consensus 28 ~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~ 105 (423)
T PRK04837 28 FHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEP 105 (423)
T ss_pred CCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHH
Confidence 45789999999999999888999999999999875433 3344332 124799999999999998776543
No 72
>PRK01172 ski2-like helicase; Provisional
Probab=97.85 E-value=8.1e-05 Score=93.06 Aligned_cols=66 Identities=20% Similarity=0.263 Sum_probs=55.0
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+|++.|.+|+..++.+...+|.+|.|||||.+....+...+..+ .++++++|+..-|++..+.+.+
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
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.83 E-value=6.8e-05 Score=84.20 Aligned_cols=56 Identities=25% Similarity=0.363 Sum_probs=39.6
Q ss_pred CCCCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHHH-HHHHHHHc-CCCcEEEEcCc
Q 001718 388 LPELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAA-IVYHMAKQ-GQGQVLVCAPS 443 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~--~l~LIqGPPGTGKTtTla~-iI~~L~k~-~~~rILV~ApS 443 (1021)
+...|.+|+-|+...+.. +++-+.|.+|||||-.+.+ -+.+-..+ ...+|+|.=|+
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 5677889999999987533 33333333 44467665543
No 74
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=97.83 E-value=3.5e-05 Score=78.88 Aligned_cols=63 Identities=25% Similarity=0.483 Sum_probs=55.7
Q ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-------~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+|.+.|.+|+..++. .+..+|.+|+|||||.++..++..+.. ++++++|+...++++.+.+..
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~ 72 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDD 72 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHH
Confidence 578999999999884 578999999999999999998888876 999999999999999998854
No 75
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.81 E-value=7.4e-05 Score=88.77 Aligned_cols=65 Identities=29% Similarity=0.385 Sum_probs=57.6
Q ss_pred CCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~----~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..|.+-|.+|++.... ..-.+|.-|+|+|||.+.+.++..+.. ++||++|+...+++..+++...
T Consensus 35 ~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~----~~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 35 FELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKR----STLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred CCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcC----CEEEEECcHHHHHHHHHHHHHh
Confidence 4799999999999988 788999999999999999999887633 5999999999999999887654
No 76
>PTZ00110 helicase; Provisional
Probab=97.74 E-value=0.00031 Score=85.72 Aligned_cols=70 Identities=24% Similarity=0.237 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHc------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTl-a~iI~~L~k~------~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
+.++++-|.+|+..++...-.++.+|.|||||.+. .-++.++..+ ....+||++||...|.++.+.+.+.
T Consensus 150 ~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 150 FTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 45789999999999998888899999999999864 2334444432 1236999999999999998887664
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=0.00024 Score=89.43 Aligned_cols=71 Identities=11% Similarity=0.118 Sum_probs=58.5
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHH-HHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~-iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
...|++-|.+|+..++...-++|..|.|||||....- ++..+.+.+..++|+++||...+.++.+++.+.+
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 3478999999999999988899999999999987543 3444555455689999999999999999887653
No 78
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.70 E-value=0.00015 Score=81.45 Aligned_cols=55 Identities=22% Similarity=0.309 Sum_probs=46.6
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcC
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~Ap 442 (1021)
+.-.++.|..-++++....+.+=.||+|||||...+......+..+ -.+||++=|
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 4457999999999999999999999999999999988877776664 357888877
No 79
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.69 E-value=0.00016 Score=94.02 Aligned_cols=69 Identities=25% Similarity=0.264 Sum_probs=57.8
Q ss_pred CCCHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-----~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
.|-+-|.+||..+.. .+-.||+.+.|||||.|++.++..|++.+ ..+||++++++.-+++..+.+...+
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 34689999999999999999998888763 4599999999999999998877653
No 80
>PRK13766 Hef nuclease; Provisional
Probab=97.68 E-value=0.00026 Score=89.94 Aligned_cols=67 Identities=27% Similarity=0.351 Sum_probs=55.7
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
++-+-|++++..++.+ -.||..|.|+|||.+...++..++.....+||+++||...+++..+.+.+.
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 679999999999998887777776655669999999999998888877653
No 81
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.63 E-value=0.0003 Score=84.36 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=55.7
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHH-HHHHHHHHcC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla-~iI~~L~k~~--------~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
+..+++-|.+|+..++...-.+|.+|.|||||.+.. -++..+++.. ..++|+++||...+.++.+.+...
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 347899999999999988888999999999997643 3445555432 347999999999999988877653
No 82
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=97.60 E-value=0.00024 Score=93.11 Aligned_cols=67 Identities=34% Similarity=0.388 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
.+.+-|+.++..++...-+++++|.|||||..+.-++..+...+ .++|+++||..-|.++.+++...
T Consensus 78 ~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~l~~~~~l~~~g-~~vLIL~PTreLa~Qi~~~l~~l 144 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAKKG-KRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEeCHHHHHHHHHHHHHHH
Confidence 57899999999999988889999999999986655555554443 58999999999999999988764
No 83
>PRK08181 transposase; Validated
Probab=97.57 E-value=0.00062 Score=75.59 Aligned_cols=53 Identities=32% Similarity=0.468 Sum_probs=42.5
Q ss_pred CCCCCHHHHHHHHHHh----cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 388 LPELNASQVFAVKSVL----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al----~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
.+.++..|..++..+- .....+|.||||||||+.+..+...+++.+. +|+.+.
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 4678999999987652 2456899999999999999999988887754 676665
No 84
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.57 E-value=0.00041 Score=91.89 Aligned_cols=64 Identities=22% Similarity=0.273 Sum_probs=51.2
Q ss_pred CCCCHHHHHHHHHHhcC--CcEEEECCCC-CcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001718 389 PELNASQVFAVKSVLQR--PISLIQGPPG-TGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~--~l~LIqGPPG-TGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eR 453 (1021)
..++..|..||..++.. ++.+|.|..| ||||+++..++..+-.++ .+|.++||++.|+..|.+.
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G-~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQG-REVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHhCC-cEEEEEeCCHHHHHHHHhc
Confidence 35788999999999974 4666666666 999999997776555545 4999999999999988763
No 85
>PRK09401 reverse gyrase; Reviewed
Probab=97.57 E-value=0.00038 Score=91.18 Aligned_cols=68 Identities=25% Similarity=0.282 Sum_probs=56.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
++++-|+.++..++...-++|++|.|||||..+..++..+... ..++|+++||..-|.++.+++...+
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 5789999999999998889999999999997655544444443 4589999999999999999987653
No 86
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.55 E-value=0.00029 Score=88.48 Aligned_cols=77 Identities=27% Similarity=0.343 Sum_probs=62.6
Q ss_pred CCCCCHHHHHHHHHHhcC-CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH---hcCCeEEE
Q 001718 388 LPELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS---ATGLKVVR 463 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~-~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~---~~gl~ivR 463 (1021)
..+|.+.|+.||...+-. ...||..|-|+|||-++...|..-+..+..+++.++|++.-|.+..+++. ..|+++.-
T Consensus 29 ~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~ 108 (766)
T COG1204 29 IDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGI 108 (766)
T ss_pred hHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEE
Confidence 347889999999987764 88999999999999998766655555555699999999999999999887 56776643
Q ss_pred e
Q 001718 464 L 464 (1021)
Q Consensus 464 l 464 (1021)
.
T Consensus 109 ~ 109 (766)
T COG1204 109 S 109 (766)
T ss_pred e
Confidence 3
No 87
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.54 E-value=0.00067 Score=84.16 Aligned_cols=65 Identities=18% Similarity=0.268 Sum_probs=54.6
Q ss_pred CCCCHHHHHHHHHHhcCC---cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQRP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~---l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..|=+-|++||...+.++ -.+|.-|+|+|||.+...++..+ ..++||++||...+++..+.+.+.
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l----~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV----KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh----CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 357789999999988543 57999999999999998877665 348999999999999999988764
No 88
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.52 E-value=0.00088 Score=83.09 Aligned_cols=75 Identities=17% Similarity=0.243 Sum_probs=54.4
Q ss_pred CCCCCCCCCCC-HHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHH----------HHH---c-CCCcEEEEcCcHHH
Q 001718 382 RFGAPGLPELN-ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYH----------MAK---Q-GQGQVLVCAPSNVA 446 (1021)
Q Consensus 382 ~~~~~~~~~LN-~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~----------L~k---~-~~~rILV~ApSN~A 446 (1021)
.|..-.+..|- +-|.+++..++.+...+++|+.|||||+.+-..+.+ +.+ . ...+|+|++||..+
T Consensus 155 ~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreL 234 (675)
T PHA02653 155 PFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVAL 234 (675)
T ss_pred ccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHH
Confidence 34433344444 468888888888999999999999999986544432 111 1 23489999999999
Q ss_pred HHHHHHHHHh
Q 001718 447 VDQLAEKISA 456 (1021)
Q Consensus 447 vDeL~eRL~~ 456 (1021)
|.++.+++.+
T Consensus 235 a~qi~~~i~~ 244 (675)
T PHA02653 235 VRLHSITLLK 244 (675)
T ss_pred HHHHHHHHHH
Confidence 9999888764
No 89
>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=97.52 E-value=0.0011 Score=79.45 Aligned_cols=74 Identities=20% Similarity=0.299 Sum_probs=58.0
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEec
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg 465 (1021)
+..+.+-|.+||..++...-.+|.+|.|||||.+- .+-.+.. ....||++|+..-+.+..+++...++++.-+.
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 45789999999999999888999999999999643 2222222 34799999999999888888888777655443
No 90
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.50 E-value=0.00071 Score=82.12 Aligned_cols=68 Identities=18% Similarity=0.209 Sum_probs=53.1
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHc--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTl-a~iI~~L~k~--------~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
..+++-|.+|+..++...-.++.+|.|||||.+- .-++.++... ...++|+++||...|.++.+.+..
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 91
>PRK06526 transposase; Provisional
Probab=97.48 E-value=0.00067 Score=74.79 Aligned_cols=51 Identities=24% Similarity=0.404 Sum_probs=37.8
Q ss_pred CCCCCHHHHHHHHHH---hcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEE
Q 001718 388 LPELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~a---l~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV 439 (1021)
.+.++..|...+... -.....+|.||||||||+++..+...+.+.+. +|++
T Consensus 78 ~~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~-~v~f 131 (254)
T PRK06526 78 QRSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGH-RVLF 131 (254)
T ss_pred CCCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCC-chhh
Confidence 356788776654332 12456899999999999999999988887665 6655
No 92
>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=97.47 E-value=0.0011 Score=81.40 Aligned_cols=58 Identities=16% Similarity=0.340 Sum_probs=41.5
Q ss_pred HHHHHhc-CCcEEEECCCCCcHHHHHHH-HHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001718 398 AVKSVLQ-RPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 398 AV~~al~-~~l~LIqGPPGTGKTtTla~-iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
+|..++. ....+|.+|.|||||..-.. .+.++......+|+|+++|..-++++.+.+.
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 56889999999999965433 3334433345699999999999999987554
No 93
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.44 E-value=0.0016 Score=73.15 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=46.0
Q ss_pred CHHHHHHHHH---Hhc-CCcEEEECCCCCcHHHHHHHHH-HHHHHcCCC----cEEEEcCcHHHHHHHHHHHHh
Q 001718 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 392 N~sQ~~AV~~---al~-~~l~LIqGPPGTGKTtTla~iI-~~L~k~~~~----rILV~ApSN~AvDeL~eRL~~ 456 (1021)
-+.|.+.++. .+. ++..+|.+|.|||||..+...+ .++...+.. +|++++.|+.-.+.....+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 5788884444 333 6789999999999997765544 444444432 899999999887776665544
No 94
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.44 E-value=0.0016 Score=73.15 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=46.0
Q ss_pred CHHHHHHHHH---Hhc-CCcEEEECCCCCcHHHHHHHHH-HHHHHcCCC----cEEEEcCcHHHHHHHHHHHHh
Q 001718 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 392 N~sQ~~AV~~---al~-~~l~LIqGPPGTGKTtTla~iI-~~L~k~~~~----rILV~ApSN~AvDeL~eRL~~ 456 (1021)
-+.|.+.++. .+. ++..+|.+|.|||||..+...+ .++...+.. +|++++.|+.-.+.....+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 5788884444 333 6789999999999997765544 444444432 899999999887776665544
No 95
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.42 E-value=0.00014 Score=70.90 Aligned_cols=50 Identities=28% Similarity=0.496 Sum_probs=30.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKI 454 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~-----~~~rILV~ApSN~AvDeL~eRL 454 (1021)
+.+.+|.|+||+|||+++..++..+... ...-+.+.++.......+.+.|
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 58 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEI 58 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHH
Confidence 5678999999999999999999887653 2212444444433344454444
No 96
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=97.42 E-value=0.00081 Score=83.93 Aligned_cols=68 Identities=21% Similarity=0.140 Sum_probs=56.3
Q ss_pred CCHHHHHHHHHHhc----------CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 391 LNASQVFAVKSVLQ----------RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 391 LN~sQ~~AV~~al~----------~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
.-..|..||+.++. .+-.||+-+.|||||.|++.++..|++. ...+||+++++..-++++.+.+...+
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 34689999988753 2468999999999999999999888754 44589999999999999999887654
No 97
>PRK14974 cell division protein FtsY; Provisional
Probab=97.41 E-value=0.0015 Score=74.73 Aligned_cols=56 Identities=36% Similarity=0.542 Sum_probs=41.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc-Cc--HHHHHHHHHHHHhcCCeEE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A-pS--N~AvDeL~eRL~~~gl~iv 462 (1021)
.+.++.|+||+|||||++.++.+|...+. +|++++ .+ ..|++++.......+++++
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~g~-~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~ 199 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKNGF-SVVIAAGDTFRAGAIEQLEEHAERLGVKVI 199 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEecCCcCcHHHHHHHHHHHHHcCCcee
Confidence 36789999999999999999988876554 665554 33 5677788776666666554
No 98
>PRK04296 thymidine kinase; Provisional
Probab=97.38 E-value=0.00037 Score=73.43 Aligned_cols=36 Identities=28% Similarity=0.504 Sum_probs=30.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
.+.+|.||||+|||+.+..++..+...+. +|++..+
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~-~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERGM-KVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcCC-eEEEEec
Confidence 36899999999999999999988877654 8888743
No 99
>PRK14701 reverse gyrase; Provisional
Probab=97.38 E-value=0.0012 Score=88.58 Aligned_cols=67 Identities=28% Similarity=0.340 Sum_probs=54.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
++++-|++++..++...-+++++|.|||||.+..-++..+...+ .++||++||..-+.++.+++...
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~g-~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALKG-KKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhcC-CeEEEEECHHHHHHHHHHHHHHH
Confidence 47899999999999988899999999999995444433333333 48999999999999999988764
No 100
>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=97.36 E-value=2.4e-05 Score=81.15 Aligned_cols=46 Identities=26% Similarity=0.364 Sum_probs=31.6
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001718 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL 454 (1021)
+|+|+.|.|||+++-..+.+++..+..+|+||||+..++..+.+.+
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~ 46 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFA 46 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHH
Confidence 5899999999999998888888777679999999999999988754
No 101
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=97.35 E-value=0.0022 Score=79.14 Aligned_cols=73 Identities=21% Similarity=0.296 Sum_probs=58.1
Q ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001718 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRl 464 (1021)
...+++-|.+||..++...-++|..|.|+|||.+.. +-.|+. ...++|++|+..-+.+..+++...++.+..+
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 347899999999999988889999999999998753 222332 3478999999999888888888887765544
No 102
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.34 E-value=0.00079 Score=75.01 Aligned_cols=76 Identities=20% Similarity=0.216 Sum_probs=62.9
Q ss_pred CCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc--CCeEEE
Q 001718 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT--GLKVVR 463 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~----~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~--gl~ivR 463 (1021)
.|++-|+.|-..++. ..-.|||+..|+|||.++-..|.+.++++. +|.+.+|--.-+-+|..||... +.+|.-
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 688999988777664 567999999999999999999998888876 9999999999999999999864 344544
Q ss_pred ecc
Q 001718 464 LCA 466 (1021)
Q Consensus 464 lg~ 466 (1021)
+..
T Consensus 176 Lyg 178 (441)
T COG4098 176 LYG 178 (441)
T ss_pred Eec
Confidence 443
No 103
>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=97.34 E-value=0.001 Score=80.39 Aligned_cols=48 Identities=25% Similarity=0.360 Sum_probs=42.3
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
||+||.|+|||.+...++...+..+. ++|+++|+..-+.++.+++.+.
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 68999999999999888887777655 8999999999999999999763
No 104
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.33 E-value=0.0012 Score=84.93 Aligned_cols=67 Identities=18% Similarity=0.315 Sum_probs=54.0
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHH-HHHHHHHc-------CCCcEEEEcCcHHHHHHHHHHHH
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-------GQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~-iI~~L~k~-------~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
..|++-|.+|+..++...-+||++|.|||||.+... ++..|... ...++|+++|+...+.++.+++.
T Consensus 31 ~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 368999999999999888999999999999987643 44455432 12369999999999998888765
No 105
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.31 E-value=0.00099 Score=84.55 Aligned_cols=61 Identities=18% Similarity=0.385 Sum_probs=45.1
Q ss_pred HHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 395 QVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 395 Q~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.+..|..++. ++.++|+|++|||||+.+...+..-.. ...+|+|+.||..||.++++++.+
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 678999999999999988654332111 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=97.29 E-value=0.0011 Score=84.13 Aligned_cols=61 Identities=20% Similarity=0.456 Sum_probs=47.0
Q ss_pred HHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 395 Q~~AV~~al-~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.+..|..++ .++.++|+|++|||||+.+...+..... ...+|+|+.|+..||.++++|+.+
T Consensus 6 ~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 6 VLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG-IGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc-cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 344455555 3788999999999999988766554332 234899999999999999999864
No 107
>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=97.25 E-value=0.0015 Score=82.10 Aligned_cols=65 Identities=15% Similarity=0.279 Sum_probs=47.9
Q ss_pred CHHHHHHHHHHhc----CCcEEEECCCCCcHHHHH-HHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHh
Q 001718 392 NASQVFAVKSVLQ----RPISLIQGPPGTGKTVTS-AAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 392 N~sQ~~AV~~al~----~~l~LIqGPPGTGKTtTl-a~iI~~L~k~~-~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
=+.|++.+..+.. ....+|.+|.|||||..+ ...+.++...+ ..+|..|+.|+.-..++.+-|.+
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 3688877766543 678999999999999654 44455444333 25899999999988877777665
No 108
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.24 E-value=0.0028 Score=78.39 Aligned_cols=70 Identities=20% Similarity=0.307 Sum_probs=56.0
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEE
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVV 462 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~iv 462 (1021)
..+.+.|.+|+..++...-.+|.+|.|+|||.+- .+-.|.. ...+||++|+..-+.+..+++...++...
T Consensus 24 ~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y--~lpal~~--~g~tlVisPl~sL~~dqv~~l~~~gi~~~ 93 (607)
T PRK11057 24 QQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCY--QIPALVL--DGLTLVVSPLISLMKDQVDQLLANGVAAA 93 (607)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHH--HHHHHHc--CCCEEEEecHHHHHHHHHHHHHHcCCcEE
Confidence 4688999999999999888899999999999653 2333333 24799999999999988888887776543
No 109
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.23 E-value=0.0012 Score=82.34 Aligned_cols=68 Identities=24% Similarity=0.320 Sum_probs=60.7
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
++-..|+-=.+..+.+.-+-|.+|.|+||||........+...++ +++++-||...|.+..+||.+..
T Consensus 82 ~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kgk-r~yii~PT~~Lv~Q~~~kl~~~~ 149 (1187)
T COG1110 82 RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKGK-RVYIIVPTTTLVRQVYERLKKFA 149 (1187)
T ss_pred CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcCC-eEEEEecCHHHHHHHHHHHHHHH
Confidence 345689999999999888899999999999999999888888884 99999999999999999998753
No 110
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=97.20 E-value=0.0024 Score=67.73 Aligned_cols=57 Identities=28% Similarity=0.390 Sum_probs=41.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH--HHHHHHHHHHHhcCCeEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVVR 463 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN--~AvDeL~eRL~~~gl~ivR 463 (1021)
+.++.||.|+|||||++.+++++..++.+--|+++-|. .|+++|..-....++++..
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~ 61 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYV 61 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEE
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccch
Confidence 56889999999999999999999888543344555444 6778887766556665543
No 111
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.18 E-value=0.0017 Score=80.49 Aligned_cols=68 Identities=32% Similarity=0.395 Sum_probs=60.7
Q ss_pred CCCCCHHHHHHHHHHhcC----CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 388 LPELNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~~----~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
-..||..|..|+..+... ..+|+.|.+|+|||-+-..+|...+++++ .+|++.|--.-..++.+|+..
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~Gk-qvLvLVPEI~Ltpq~~~rf~~ 267 (730)
T COG1198 196 WLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGK-QVLVLVPEIALTPQLLARFKA 267 (730)
T ss_pred ccccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCC-EEEEEeccccchHHHHHHHHH
Confidence 458999999999998765 67999999999999999999999999886 999999988888888888765
No 112
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.16 E-value=0.0011 Score=81.28 Aligned_cols=68 Identities=31% Similarity=0.358 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-----~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
.+-.-|..||..+.. ++-.||.=.+|||||+|+.++|..|.+.+ .+|||.+|-.|..+++-.+.....
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 455689999988753 34488888899999999999999999884 458999999999999988776543
No 113
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.15 E-value=0.0021 Score=80.21 Aligned_cols=69 Identities=23% Similarity=0.319 Sum_probs=58.7
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~---------~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
...||.-|-++...+.. +...||.+|-|+|||.+..-.|.+++++ +.-||..+||+.+.|.+|.++..+
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 34799999999999886 6789999999999999987777777774 445899999999999999887654
No 114
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.14 E-value=0.0035 Score=84.41 Aligned_cols=62 Identities=23% Similarity=0.298 Sum_probs=46.5
Q ss_pred CCHHHHHHHHHHhcC--CcEEEECCCCC-cHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001718 391 LNASQVFAVKSVLQR--PISLIQGPPGT-GKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1021)
Q Consensus 391 LN~sQ~~AV~~al~~--~l~LIqGPPGT-GKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eR 453 (1021)
.+..|.+|+..+++. .+.+|+|+.|. |+++++..++. ++.....+|.++|||++|+..|.+.
T Consensus 414 ~~~~~~~av~~~~q~~~~~~il~g~~G~aG~g~~l~~l~~-~a~~~G~~V~glAPt~~a~~~L~~~ 478 (1747)
T PRK13709 414 RTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVM-MAREQGREVQILAADRRSQMNLKQD 478 (1747)
T ss_pred cchhhhHHHHHHhcccCcEEEEEcCCcchHHHHHHHHHHH-HHHhCCcEEEEEeCcHHHHHHHHHh
Confidence 456889999998874 58889988884 66655555554 4444445999999999999988764
No 115
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.12 E-value=0.004 Score=67.85 Aligned_cols=52 Identities=17% Similarity=0.182 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 390 ELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~---~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
.-|.....++..... .+..+|+||||||||+++..+...+.+.+. +++.+..
T Consensus 27 ~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~-~v~y~~~ 81 (235)
T PRK08084 27 GDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGR-AVGYVPL 81 (235)
T ss_pred CccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCC-eEEEEEH
Confidence 457777777776543 357899999999999999988877766543 6666554
No 116
>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=97.10 E-value=0.0021 Score=74.04 Aligned_cols=50 Identities=22% Similarity=0.413 Sum_probs=41.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHH-cCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k-~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
++|.+|.|+|||.+....+...+. ....+|++++|+...++++.+++...
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 117
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.10 E-value=0.0016 Score=79.78 Aligned_cols=72 Identities=29% Similarity=0.288 Sum_probs=60.2
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 386 ~~~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
|..-.|=.-|.+.++.|| ...+||..|-|+|||.+++.+++...+. ++.||+++|||.--|.+-..++...+
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 334467889999999999 8889999999999999999988766655 66799999999998887777666554
No 118
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.06 E-value=0.00011 Score=90.00 Aligned_cols=53 Identities=19% Similarity=0.243 Sum_probs=40.0
Q ss_pred eEEeecccCCCccccEEEEEccccCCCCCcC------------CC-CCcCceeeechhhccceEEE
Q 001718 743 IEVASVDSFQGREKDYIILSCVRSNEHQGIG------------FL-NDPRRLNVALTRARYGIVIL 795 (1021)
Q Consensus 743 V~V~TVdsfQG~E~DvVIlS~Vrsn~~~~iG------------Fl-~d~RrLnVALTRAK~~LiIV 795 (1021)
+.++|+|.++|.|||.|-+.+.+.......- +. .+++.+|||+||||+++|..
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 7789999999999999999876654321111 11 24688999999999987765
No 119
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.04 E-value=0.0037 Score=79.72 Aligned_cols=62 Identities=27% Similarity=0.372 Sum_probs=45.3
Q ss_pred CCCHHHHH---HHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001718 390 ELNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1021)
Q Consensus 390 ~LN~sQ~~---AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eR 453 (1021)
+.-+.|.+ +|..++. ....+|++++|||||..-. +-.+......+|+|.|+|..-++++..+
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 5678899999999997532 2223332345899999999999999543
No 120
>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=97.03 E-value=0.001 Score=73.85 Aligned_cols=62 Identities=27% Similarity=0.333 Sum_probs=40.1
Q ss_pred HHHHHHHHhc-------------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCC----cEEEEcCcHHHHHHHHHHHHhc
Q 001718 395 QVFAVKSVLQ-------------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG----QVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 395 Q~~AV~~al~-------------~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~----rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
|++||...+. .+-.||.=.+|+|||.++..++..|...... ++||++|+ ..+.+-.+.+.+.
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 6777766532 2346777799999999999999888776432 49999999 5555555555543
No 121
>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=96.98 E-value=0.0015 Score=80.70 Aligned_cols=55 Identities=29% Similarity=0.409 Sum_probs=49.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl 459 (1021)
+++.+|.+|=|||||+.+...+...++....+||++++-+.-+.+|.+|+...++
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 7889999999999999988877777766677999999999999999999987765
No 122
>PF13173 AAA_14: AAA domain
Probab=96.93 E-value=0.0034 Score=61.61 Aligned_cols=41 Identities=22% Similarity=0.320 Sum_probs=31.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~Av 447 (1021)
+++.+|.||.|+||||++..++..+. ...+++.+.......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRD 42 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHH
Confidence 56889999999999999999988776 334666666544433
No 123
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=96.87 E-value=0.0054 Score=74.82 Aligned_cols=45 Identities=24% Similarity=0.484 Sum_probs=39.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
...+|.|-+|||||+.+..+...+ +.+|+++|..||.||-.+|..
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 458999999999999998888766 788999999999999888763
No 124
>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=96.87 E-value=0.0039 Score=80.13 Aligned_cols=62 Identities=31% Similarity=0.318 Sum_probs=44.3
Q ss_pred CCHHHHH---HHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001718 391 LNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1021)
Q Consensus 391 LN~sQ~~---AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eR 453 (1021)
..+.|.+ +|..++. +...+|.+|.|||||..-..-+..++. ...+|+|.|+|..-.+++.++
T Consensus 246 ~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 246 YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-TEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHHHHH
Confidence 4578886 4555554 567889999999999764333323333 345999999999988888664
No 125
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.82 E-value=0.0078 Score=77.98 Aligned_cols=62 Identities=26% Similarity=0.253 Sum_probs=44.9
Q ss_pred CHHHHH---HHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001718 392 NASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1021)
Q Consensus 392 N~sQ~~---AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eR 453 (1021)
-+.|.+ +|..++. +...+|.+|.|||||..-.--+..++.....+|+|.|+|..--++|.++
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 5678899999999997432222223344456999999999999998775
No 126
>PRK12377 putative replication protein; Provisional
Probab=96.82 E-value=0.0052 Score=67.52 Aligned_cols=49 Identities=31% Similarity=0.439 Sum_probs=36.5
Q ss_pred CHHHHHHHHHHhc--------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 392 NASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 392 N~sQ~~AV~~al~--------~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
++.|+.|+..+.. ....+|+||||||||+++.+++..+.+.+. .|++++
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~-~v~~i~ 136 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGR-SVIVVT 136 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CeEEEE
Confidence 4667666654431 246799999999999999999999987654 665554
No 127
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.77 E-value=0.0062 Score=70.59 Aligned_cols=55 Identities=24% Similarity=0.310 Sum_probs=37.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcH---HHHHHHHHHHHhcCC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSN---VAVDQLAEKISATGL 459 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN---~AvDeL~eRL~~~gl 459 (1021)
..++++.||+|+|||||++.++..++.. +..+|.+++.-. .|+++|..-....++
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv 195 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGV 195 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCC
Confidence 4588999999999999999999887654 445776665322 255555543333333
No 128
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=96.75 E-value=0.012 Score=68.32 Aligned_cols=59 Identities=22% Similarity=0.385 Sum_probs=46.1
Q ss_pred HHHHHHHHhcCC--cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 395 QVFAVKSVLQRP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 395 Q~~AV~~al~~~--l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
|.+|++.+.... .++|.+|+|+|||.+....+. . ...+.++++|++..+++..+++.+.
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 889999988744 689999999999986543322 2 2347899999999999988887654
No 129
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.74 E-value=0.01 Score=72.18 Aligned_cols=66 Identities=29% Similarity=0.439 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHHhc---CC---cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQ---RP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~---~~---l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+|+..|+++|+.++. ++ .-||||-=|||||.+++-.+...+..+. ++.++|||-.-|.+-.+.+.+
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 3689999999999998888877787776 999999999999887777654
No 130
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=96.73 E-value=0.0046 Score=59.84 Aligned_cols=55 Identities=29% Similarity=0.445 Sum_probs=38.9
Q ss_pred HHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001718 393 ASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1021)
Q Consensus 393 ~sQ~~AV~~al~---~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD 448 (1021)
+.+..++...+. ....+|.||||||||+++..++..+...+ .+++.+..+.....
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 445556665553 46799999999999998888888776443 46777766555443
No 131
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.69 E-value=0.0082 Score=67.31 Aligned_cols=36 Identities=28% Similarity=0.472 Sum_probs=29.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcC
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~Ap 442 (1021)
+.+|.||.|+|||||++.++.++... +..+|.+++.
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 67899999999999999999988876 4347766653
No 132
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.68 E-value=0.0081 Score=70.08 Aligned_cols=56 Identities=21% Similarity=0.241 Sum_probs=37.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc---CCCcEE-EEcCc--HHHHHHHHHHHHhcCCeE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVL-VCAPS--NVAVDQLAEKISATGLKV 461 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~---~~~rIL-V~ApS--N~AvDeL~eRL~~~gl~i 461 (1021)
.+.++.||.|+|||||++.++.++... ...+|+ +.+-| ..|++++.......++++
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv 236 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPV 236 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcce
Confidence 468899999999999999999877643 223555 44445 556666555444445443
No 133
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=96.64 E-value=0.0087 Score=70.17 Aligned_cols=121 Identities=23% Similarity=0.264 Sum_probs=82.9
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-CC---eEEEeccc
Q 001718 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GL---KVVRLCAK 467 (1021)
Q Consensus 392 N~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~-gl---~ivRlg~~ 467 (1021)
-.-|...+..++.. .+||.=|-|=|||.+++.++...+...+++||++|||.-.|.+=++.+.+. ++ +++.+
T Consensus 17 R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~l--- 92 (542)
T COG1111 17 RLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAAL--- 92 (542)
T ss_pred HHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeee---
Confidence 35687877777755 789999999999999998887555554449999999999998877776542 21 11111
Q ss_pred cccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCCCC-
Q 001718 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR- 546 (1021)
Q Consensus 468 sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~- 546 (1021)
.++..... ..+....++|+++|.....+..
T Consensus 93 --------------------------------------tGev~p~~-----------R~~~w~~~kVfvaTPQvveNDl~ 123 (542)
T COG1111 93 --------------------------------------TGEVRPEE-----------REELWAKKKVFVATPQVVENDLK 123 (542)
T ss_pred --------------------------------------cCCCChHH-----------HHHHHhhCCEEEeccHHHHhHHh
Confidence 11222111 1234456889999987655443
Q ss_pred ---cccCCCCEEEEECCCCCCc
Q 001718 547 ---LANFRFRQVLIDESTQATE 565 (1021)
Q Consensus 547 ---L~~~~Fd~VIIDEAsQ~se 565 (1021)
+.-..+.+||+|||-.++-
T Consensus 124 ~Grid~~dv~~lifDEAHRAvG 145 (542)
T COG1111 124 AGRIDLDDVSLLIFDEAHRAVG 145 (542)
T ss_pred cCccChHHceEEEechhhhccC
Confidence 3334799999999998875
No 134
>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=96.64 E-value=0.003 Score=65.44 Aligned_cols=52 Identities=27% Similarity=0.422 Sum_probs=40.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
.+||.||||||||+++..+++..++.+. ++++++.. ...+++.+++...+++
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~-~v~~~s~e-~~~~~~~~~~~~~g~~ 52 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARGE-PGLYVTLE-ESPEELIENAESLGWD 52 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCCC-cEEEEECC-CCHHHHHHHHHHcCCC
Confidence 3689999999999999999998887765 88888765 4566777777665543
No 135
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.64 E-value=0.011 Score=70.12 Aligned_cols=53 Identities=30% Similarity=0.403 Sum_probs=35.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE-cCcH--HHHHHHHHHHHhcCCe
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC-APSN--VAVDQLAEKISATGLK 460 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~-ApSN--~AvDeL~eRL~~~gl~ 460 (1021)
+.++.|++|+|||||++.++.+|.+.+. +|+++ +.+. .|.+++..-....++.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~g~-kV~lV~~D~~R~aa~eQL~~la~~~gvp 152 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKKGL-KVGLVAADTYRPAAYDQLKQLAEKIGVP 152 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEecCCCCCHHHHHHHHHHHHHcCCc
Confidence 5788999999999999999998877665 55554 4433 3455555433333433
No 136
>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=96.64 E-value=0.0062 Score=79.83 Aligned_cols=62 Identities=19% Similarity=0.396 Sum_probs=46.5
Q ss_pred HHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 395 Q~~AV~~al-~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.++.|..++ .+++++|.|++||||||.+-.++...-.....+|+++-|-..||..+++|+.+
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 47899999999999999876555433222234788889999999999999875
No 137
>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=96.63 E-value=0.007 Score=76.27 Aligned_cols=67 Identities=18% Similarity=0.136 Sum_probs=48.9
Q ss_pred CCHHHHHHHHHHhcCC-cEEEECCCCCcHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 391 LNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 391 LN~sQ~~AV~~al~~~-l~LIqGPPGTGKTtTla~iI~~L~k~--~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
.++-|.+++..++... ..+++.|.|||||.+++.-+..+... ...++++++||..-|+++.+.+.+.
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 68889999999998664222212111 2335666889999999999887664
No 138
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.63 E-value=0.0073 Score=66.25 Aligned_cols=50 Identities=30% Similarity=0.392 Sum_probs=39.2
Q ss_pred CCHHHHHHHHHHhc------C--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 391 LNASQVFAVKSVLQ------R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 391 LN~sQ~~AV~~al~------~--~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
.++.|+.|+..+.. . ..+++.|+||||||+++..++.+|.+.+. +|++++
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 46899999999999999999999988765 777774
No 139
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=96.61 E-value=0.03 Score=68.03 Aligned_cols=69 Identities=26% Similarity=0.272 Sum_probs=53.4
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHH--cCCCc-EEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAK--QGQGQ-VLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTl-a~iI~~L~k--~~~~r-ILV~ApSN~AvDeL~eRL~~~ 457 (1021)
...++-|..||-.++...-.+++++.|||||..- .-++..+.. ..... .||++||...|.++.+-+...
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 4568999999999999888999999999997542 344555442 22222 899999999999999877653
No 140
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=96.60 E-value=0.025 Score=71.23 Aligned_cols=59 Identities=24% Similarity=0.348 Sum_probs=43.7
Q ss_pred HHHHH---HHHHHhcC------CcEEEECCCCCcHHHHHHHHHH--HHHHcCCCcEEEEcCcHHHHHHHHHH
Q 001718 393 ASQVF---AVKSVLQR------PISLIQGPPGTGKTVTSAAIVY--HMAKQGQGQVLVCAPSNVAVDQLAEK 453 (1021)
Q Consensus 393 ~sQ~~---AV~~al~~------~l~LIqGPPGTGKTtTla~iI~--~L~k~~~~rILV~ApSN~AvDeL~eR 453 (1021)
+.|.+ +|..++.. ...+|.+|.|||||.- +++- .++....++|+|-|.|..--++|.+|
T Consensus 28 ~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTla--YLlPai~~A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 28 AGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLS--YLLAGIPIARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred HHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHH--HHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhh
Confidence 57776 77777765 6789999999999963 3332 22333445999999999999999766
No 141
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=96.58 E-value=0.019 Score=63.11 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHh---c--CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 392 NASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 392 N~sQ~~AV~~al---~--~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
++.+++|+.... . .++.+|.||+|+|||+++..++..+
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l 67 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRL 67 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhc
Confidence 455666666542 2 4478999999999999988876554
No 142
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.54 E-value=0.018 Score=68.10 Aligned_cols=48 Identities=31% Similarity=0.391 Sum_probs=33.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHH-HcCCCcEEEE-cCcHH--HHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVC-APSNV--AVDQLAEK 453 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~-k~~~~rILV~-ApSN~--AvDeL~eR 453 (1021)
.+.++.||+|+|||||++.++..+. ..+..+|+++ +.+.. |++++...
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~ 273 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTY 273 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHH
Confidence 4678899999999999999998887 4444466554 44433 44555443
No 143
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.53 E-value=0.014 Score=67.68 Aligned_cols=55 Identities=25% Similarity=0.430 Sum_probs=39.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEE-EEcCcHH--HHHHHHHHHHhcCCeE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL-VCAPSNV--AVDQLAEKISATGLKV 461 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rIL-V~ApSN~--AvDeL~eRL~~~gl~i 461 (1021)
...+|.||+|+||||+++.++..+..++. +|+ +.+-+.. |++++.......++.+
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~Gk-kVglI~aDt~RiaAvEQLk~yae~lgipv 299 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFEV 299 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCC-cEEEEecCCcchHHHHHHHHHhhhcCCcE
Confidence 46789999999999999999998887665 555 4454543 7777776544444443
No 144
>COG4889 Predicted helicase [General function prediction only]
Probab=96.51 E-value=0.014 Score=71.74 Aligned_cols=57 Identities=30% Similarity=0.293 Sum_probs=45.2
Q ss_pred CCCCHHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHH
Q 001718 389 PELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ 449 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~-----~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDe 449 (1021)
.++-+.|+.|+..++. .+=-||-+ +|||||.|...|...|.+ .+||.++||-...-+
T Consensus 160 kk~R~hQq~Aid~a~~~F~~n~RGkLIMA-cGTGKTfTsLkisEala~---~~iL~LvPSIsLLsQ 221 (1518)
T COG4889 160 KKPRPHQQTAIDAAKEGFSDNDRGKLIMA-CGTGKTFTSLKISEALAA---ARILFLVPSISLLSQ 221 (1518)
T ss_pred CCCChhHHHHHHHHHhhcccccCCcEEEe-cCCCccchHHHHHHHHhh---hheEeecchHHHHHH
Confidence 3678999999999874 22345555 699999999999888876 599999999876543
No 145
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.49 E-value=0.0055 Score=75.86 Aligned_cols=24 Identities=29% Similarity=0.379 Sum_probs=20.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
.+|+.||+|||||+++..+.+.|.
T Consensus 40 AyLFtGPpGvGKTTlAriLAKaLn 63 (830)
T PRK07003 40 AYLFTGTRGVGKTTLSRIFAKALN 63 (830)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 468999999999999888887765
No 146
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.46 E-value=0.0045 Score=80.94 Aligned_cols=62 Identities=18% Similarity=0.365 Sum_probs=44.6
Q ss_pred HHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 395 Q~~AV~~al-~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.++.|..++ .+++++|.|++||||||.+-.++..+-.....+|.++-|-..|+-++++|+.+
T Consensus 78 ~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~ 140 (1294)
T PRK11131 78 KKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAE 140 (1294)
T ss_pred HHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHH
Confidence 344455544 47899999999999999766554433211233677888999999999999875
No 147
>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=96.45 E-value=0.027 Score=66.38 Aligned_cols=55 Identities=27% Similarity=0.452 Sum_probs=37.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEE-EEcCcH--HHHHHHHHHHHhcCCeE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL-VCAPSN--VAVDQLAEKISATGLKV 461 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rIL-V~ApSN--~AvDeL~eRL~~~gl~i 461 (1021)
.+.++.|++|+|||||++.++.++.+.+. +|+ |.+-+. .|+++|..--...++.+
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~-kV~lV~~D~~R~aA~eQLk~~a~~~~vp~ 158 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGF-KPCLVCADTFRAGAFDQLKQNATKARIPF 158 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEcCcccchhHHHHHHHHhhccCCeE
Confidence 36789999999999999999998877665 555 555454 45666644333334443
No 148
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.37 E-value=0.022 Score=71.96 Aligned_cols=66 Identities=17% Similarity=0.202 Sum_probs=50.1
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+|.+.|.+++-.++...=.+.+.+.|||||.+.+.-+..-+..+. .++|++||..-|.+..+-+..
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 478999999988877655899999999999887654443222333 689999999988888776654
No 149
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.34 E-value=0.037 Score=71.28 Aligned_cols=72 Identities=25% Similarity=0.398 Sum_probs=52.5
Q ss_pred CCCCHHHHHHHHHHhcC--CcEEEECCCCCcHHHHHHHHHHHHHHcCC-CcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 389 PELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~--~l~LIqGPPGTGKTtTla~iI~~L~k~~~-~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
..|-+.|..++..++.. +-+||-=--|.|||-.+..++..++..+. .+|||++|+.-.-.-..|-..+.++.
T Consensus 151 ~~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW~~El~~kF~l~ 225 (956)
T PRK04914 151 ASLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQWLVEMLRRFNLR 225 (956)
T ss_pred CCCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHHHHHHHHHhCCC
Confidence 36889999999888763 35788889999999999888888776653 58999999865544333322334443
No 150
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.31 E-value=0.031 Score=69.06 Aligned_cols=71 Identities=24% Similarity=0.185 Sum_probs=54.3
Q ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh----cCCeEEEe
Q 001718 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA----TGLKVVRL 464 (1021)
Q Consensus 391 LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~----~gl~ivRl 464 (1021)
..+-|..++-.++... +.+...|+|||.+.+..++..+..+ ..++|+|||..-|.+..+-+.. .++++.-+
T Consensus 104 p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G-~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i 178 (656)
T PRK12898 104 HFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAG-LPVHVITVNDYLAERDAELMRPLYEALGLTVGCV 178 (656)
T ss_pred CChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcC-CeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEE
Confidence 4578999998888766 8899999999998876665544445 4899999999999888776654 35554433
No 151
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=96.29 E-value=0.029 Score=70.22 Aligned_cols=68 Identities=24% Similarity=0.261 Sum_probs=49.8
Q ss_pred CCCHHHHHHHHH---HhcC-CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKS---VLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~---al~~-~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..-+.|++.+.. ++.+ ...+|.+|-|||||.-....+.......+.+|++++.|+..-+++.++....
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 344677766544 4444 4599999999999987655554444444469999999999999999887543
No 152
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.26 E-value=0.0091 Score=71.05 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=21.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
..|+.||||||||+++..++..|..
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCc
Confidence 3699999999999998888877654
No 153
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.25 E-value=0.017 Score=72.51 Aligned_cols=68 Identities=19% Similarity=0.336 Sum_probs=56.6
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHcC-C-----CcEEEEcCcHHHHHHHHHHHHh
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQG-Q-----GQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTl-a~iI~~L~k~~-~-----~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.++++-|+.|+..+.....+||.+|-|||||-++ .-++..|++.+ . -.+|.++|=.+-...|..||..
T Consensus 21 ~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~ 95 (814)
T COG1201 21 TSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE 95 (814)
T ss_pred CCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 4789999999999999999999999999999876 44556677662 1 2589999999988888888864
No 154
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.24 E-value=0.0093 Score=72.96 Aligned_cols=25 Identities=28% Similarity=0.359 Sum_probs=21.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
..|++||+|||||+++..++..|.-
T Consensus 40 A~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 40 AYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4799999999999999888887754
No 155
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.22 E-value=0.01 Score=71.77 Aligned_cols=25 Identities=28% Similarity=0.353 Sum_probs=21.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
..|++||||||||+++..++..|.-
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 4699999999999998888877653
No 156
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.17 E-value=0.0094 Score=73.55 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=21.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
.|++||+|+|||+++..++..|.-
T Consensus 41 yLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 41 YLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred EEEECCCCCCHHHHHHHHHHhhhh
Confidence 689999999999999888877754
No 157
>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=96.06 E-value=0.016 Score=64.76 Aligned_cols=56 Identities=36% Similarity=0.500 Sum_probs=40.9
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc---CcHHHHHHHHHHHHhcCCeEE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA---PSNVAVDQLAEKISATGLKVV 462 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A---pSN~AvDeL~eRL~~~gl~iv 462 (1021)
.+.++.||+|+|||||++.++.++.+.+. +|++++ +...|.+++.......++.++
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 776665 344566777766666665554
No 158
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=96.06 E-value=0.025 Score=68.51 Aligned_cols=11 Identities=36% Similarity=0.428 Sum_probs=6.1
Q ss_pred CCcCceeeech
Q 001718 776 NDPRRLNVALT 786 (1021)
Q Consensus 776 ~d~RrLnVALT 786 (1021)
..+.||++-+|
T Consensus 447 ~yr~~l~id~~ 457 (1102)
T KOG1924|consen 447 KYRFRLDIDLT 457 (1102)
T ss_pred chhhcccCcHH
Confidence 34555666555
No 159
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.04 E-value=0.0051 Score=58.81 Aligned_cols=42 Identities=31% Similarity=0.563 Sum_probs=31.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~Av 447 (1021)
....+|.||||||||+++..++..+.... ..++.++.+....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~~~~~~~~ 43 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG-GGVIYIDGEDILE 43 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC-CCEEEECCEEccc
Confidence 35689999999999999999888775543 2466666655443
No 160
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=96.02 E-value=0.066 Score=64.01 Aligned_cols=36 Identities=22% Similarity=0.151 Sum_probs=27.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~A 441 (1021)
+..+|.|++|||||+++.++...+... +..+|+.++
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~ 178 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS 178 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 457899999999999998888777654 344666554
No 161
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.01 E-value=0.029 Score=71.02 Aligned_cols=64 Identities=17% Similarity=0.301 Sum_probs=50.2
Q ss_pred HHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 394 sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+..|..++. +.+++|.|++|+||||-+-..+...--...++|.++=|-..||-.+++|+.+.
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAee 117 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEE 117 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHH
Confidence 34455555554 88999999999999998877766554444568999999999999999999763
No 162
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=96.01 E-value=0.12 Score=63.59 Aligned_cols=64 Identities=16% Similarity=0.100 Sum_probs=53.0
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 393 ~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
-.+.+++-..+.+..+++..|=|.|||+++..++.+|+.....+|+++|+....+.++.+++..
T Consensus 175 ~~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~ 238 (752)
T PHA03333 175 LREIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVET 238 (752)
T ss_pred HHHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHH
Confidence 3566777777779999999999999999998777777663346999999999999999888754
No 163
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.00 E-value=0.0093 Score=75.18 Aligned_cols=25 Identities=24% Similarity=0.286 Sum_probs=21.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
.+|+.||||||||+++..++..|.-
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhccC
Confidence 4689999999999999888877753
No 164
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.00 E-value=0.061 Score=69.54 Aligned_cols=72 Identities=15% Similarity=0.197 Sum_probs=55.9
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRl 464 (1021)
..|.+-|++||..++...-+|+..|.|+|||.+-. +-.|+. + ..+||++|+...+..-..+|...+++...+
T Consensus 459 ~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQ--LPAL~~-~-GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L 530 (1195)
T PLN03137 459 HSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQ--LPALIC-P-GITLVISPLVSLIQDQIMNLLQANIPAASL 530 (1195)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHH--HHHHHc-C-CcEEEEeCHHHHHHHHHHHHHhCCCeEEEE
Confidence 47889999999999998889999999999996532 222222 2 479999999999876677777777765544
No 165
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=96.00 E-value=0.039 Score=65.76 Aligned_cols=35 Identities=23% Similarity=0.180 Sum_probs=28.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~A 441 (1021)
..+|.||||||||+++..+...+.+.. ..+|+.++
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~ 167 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT 167 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 589999999999999999988887753 34677665
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=95.92 E-value=0.013 Score=62.99 Aligned_cols=54 Identities=31% Similarity=0.582 Sum_probs=41.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
..++||.|+||||||+.+..+++.-+++ +. +++.++..... +++.+++...+.+
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge-~vlyvs~ee~~-~~l~~~~~s~g~d 73 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGE-KVLYVSFEEPP-EELIENMKSFGWD 73 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT---EEEEESSS-H-HHHHHHHHTTTS-
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC-cEEEEEecCCH-HHHHHHHHHcCCc
Confidence 5679999999999999999999887777 65 88888865444 7788888776653
No 167
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=95.91 E-value=0.043 Score=70.24 Aligned_cols=68 Identities=22% Similarity=0.329 Sum_probs=58.7
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtT-la~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
.|=..|.+|++.+.....+||+-|.|||||-. +.-|+.++++....+-|++-|||.-|..=++|+.+.
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 36678999999999888999999999999975 566778888888889999999999998877877654
No 168
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=95.91 E-value=0.0083 Score=66.60 Aligned_cols=27 Identities=44% Similarity=0.615 Sum_probs=23.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
-+..|.+||||||||+|+..+.++|.-
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 467999999999999999888887753
No 169
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.89 E-value=0.013 Score=71.88 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=20.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
.+|+.||+|||||+++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 468999999999999988887765
No 170
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.88 E-value=0.023 Score=65.38 Aligned_cols=40 Identities=18% Similarity=0.354 Sum_probs=30.3
Q ss_pred CEEEEECCCCCCchh--hhhhhhccCceEEEeCCccCCCceee
Q 001718 553 RQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIM 593 (1021)
Q Consensus 553 d~VIIDEAsQ~se~e--~LipL~~~~krlILVGD~~QLpPvv~ 593 (1021)
.+++|||....+-.+ .|+|.+- ...++|||-.-.=|....
T Consensus 106 tiLflDEIHRfnK~QQD~lLp~vE-~G~iilIGATTENPsF~l 147 (436)
T COG2256 106 TILFLDEIHRFNKAQQDALLPHVE-NGTIILIGATTENPSFEL 147 (436)
T ss_pred eEEEEehhhhcChhhhhhhhhhhc-CCeEEEEeccCCCCCeee
Confidence 468999988877754 5777754 578999999988766643
No 171
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=95.83 E-value=0.036 Score=69.41 Aligned_cols=64 Identities=17% Similarity=0.281 Sum_probs=44.6
Q ss_pred CCCHHHHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001718 390 ELNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al-~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
.|-+.|.+++.... ..+ .+++-+.|||||.|.+.-++..+..+ ..|+|+|||..-|.+..+.+.
T Consensus 68 glrpydVQlig~l~l~~G-~Iaem~TGeGKTLta~Lpa~l~aL~g-~~V~VVTpn~yLA~Rdae~m~ 132 (762)
T TIGR03714 68 GMFPYDVQVLGAIVLHQG-NIAEMKTGEGKTLTATMPLYLNALTG-KGAMLVTTNDYLAKRDAEEMG 132 (762)
T ss_pred CCCccHHHHHHHHHhcCC-ceeEecCCcchHHHHHHHHHHHhhcC-CceEEeCCCHHHHHHHHHHHH
Confidence 34555555555443 344 69999999999998765543333334 479999999998888777664
No 172
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=95.79 E-value=0.025 Score=59.12 Aligned_cols=45 Identities=31% Similarity=0.519 Sum_probs=33.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
..-.+|.|+||||||++++.++..+++.+. +|+.+. +.+|.++|.
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~-~v~f~~-----~~~L~~~l~ 91 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANEAIRKGY-SVLFIT-----ASDLLDELK 91 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEE-----HHHHHHHHH
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHHhccCCc-ceeEee-----cCceecccc
Confidence 345889999999999999999999998665 777776 344555554
No 173
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.78 E-value=0.065 Score=63.94 Aligned_cols=35 Identities=31% Similarity=0.475 Sum_probs=28.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
+..+|.||+|+|||+++..+...+...+ .+|+.+.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~-~~v~yi~ 176 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESG-GKILYVR 176 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcC-CCEEEee
Confidence 4578999999999999999988887654 4777665
No 174
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=95.75 E-value=0.072 Score=63.67 Aligned_cols=36 Identities=25% Similarity=0.230 Sum_probs=28.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~A 441 (1021)
+..+|.||||||||+++..+...+.+.. ..+|+.+.
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~ 185 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT 185 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 4578999999999999999998887763 33555554
No 175
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=95.74 E-value=0.022 Score=64.37 Aligned_cols=39 Identities=18% Similarity=0.301 Sum_probs=25.5
Q ss_pred CCEEEEECCCCCCchh--hhhhhhccCceEEEeCCccCCCce
Q 001718 552 FRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPV 591 (1021)
Q Consensus 552 Fd~VIIDEAsQ~se~e--~LipL~~~~krlILVGD~~QLpPv 591 (1021)
=.+++|||.-...-.+ +++|.+- +.-++|+|-.-.-|.+
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 3567889966655533 4667654 5678889987664443
No 176
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.74 E-value=0.017 Score=63.80 Aligned_cols=52 Identities=27% Similarity=0.310 Sum_probs=38.2
Q ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-------~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
..+..+++|+..+.. ..-.++.||||||||++++++...+++.+. +|++++.
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 344456666655532 446889999999999999999999995544 7777663
No 177
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.71 E-value=0.033 Score=67.37 Aligned_cols=26 Identities=35% Similarity=0.492 Sum_probs=21.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
..|+.||||||||+++..++..+...
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 35999999999999998888777643
No 178
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=95.69 E-value=0.05 Score=56.58 Aligned_cols=39 Identities=23% Similarity=0.301 Sum_probs=33.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN 444 (1021)
+++..|.+++|.|||+.+..++...+.++. +|+++=|-.
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~-~v~ivQFlK 43 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGK-KVGVIQFIK 43 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEEec
Confidence 578899999999999999999999888876 898885433
No 179
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.67 E-value=0.046 Score=65.78 Aligned_cols=37 Identities=30% Similarity=0.418 Sum_probs=29.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~A 441 (1021)
..+.+|.||.|+||||++..++..+...+ ..+|.+++
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 45788899999999999999998877653 34676554
No 180
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.67 E-value=0.027 Score=64.25 Aligned_cols=55 Identities=31% Similarity=0.453 Sum_probs=39.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc-Cc--HHHHHHHHHHHHhcCCeEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A-pS--N~AvDeL~eRL~~~gl~iv 462 (1021)
+.+|.||+|+|||||++.++..+...+. +|++++ .+ ..|++++.......++.++
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 6778999999999999999988876654 776654 44 3456777655555555544
No 181
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=95.67 E-value=0.0078 Score=73.38 Aligned_cols=58 Identities=22% Similarity=0.210 Sum_probs=45.3
Q ss_pred CCCCHHHHHHHHHH----hc--CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001718 389 PELNASQVFAVKSV----LQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~a----l~--~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD 448 (1021)
..||++|+.....+ .+ .+++. .|.+|||||++.-+++..+... ...++.+|.|+.|+-
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 46999999776632 22 34555 8999999999999999888777 448888899988874
No 182
>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=95.61 E-value=0.1 Score=53.61 Aligned_cols=59 Identities=15% Similarity=0.191 Sum_probs=42.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHH----HHHHHHHHHHhcCCeEEEecc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV----AVDQLAEKISATGLKVVRLCA 466 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~----AvDeL~eRL~~~gl~ivRlg~ 466 (1021)
.++..|..++|+|||+.+..+....+.++. +|+++=|-.. .-.++.+++ .++++.+++.
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 367789999999999999999988888876 8888544222 223445555 2677777654
No 183
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.61 E-value=0.034 Score=63.36 Aligned_cols=68 Identities=22% Similarity=0.168 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTl-a~iI~~L~k~~-~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+.-|++||=.++...-++..+--|||||-+- .=|+..|+.++ ....||+|||...|-+|.+-....
T Consensus 83 ~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~L 152 (476)
T KOG0330|consen 83 KPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEAL 152 (476)
T ss_pred CCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHh
Confidence 568899999999999999999999999999764 45667777763 347999999999999999887654
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=95.54 E-value=0.02 Score=63.62 Aligned_cols=50 Identities=22% Similarity=0.419 Sum_probs=38.5
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~--~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
.+.+.|.++++.++. .++++|.||+|+||||++..++..+.. ...+|+.+
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 467889998888775 578999999999999999988877643 22345443
No 185
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=95.51 E-value=0.019 Score=62.63 Aligned_cols=54 Identities=24% Similarity=0.400 Sum_probs=42.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
..++||.|+||||||+.+..+++.-++++. ++++++.. ...+++.+++...+.+
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 567999999999999999999887776654 88888854 4666788887766543
No 186
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.48 E-value=0.028 Score=69.60 Aligned_cols=26 Identities=35% Similarity=0.579 Sum_probs=22.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
+..|+.||||||||+++..++..|.-
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 187
>PRK08116 hypothetical protein; Validated
Probab=95.47 E-value=0.047 Score=60.80 Aligned_cols=34 Identities=32% Similarity=0.419 Sum_probs=28.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
..+|+|+||||||+++.+++..|.+++ .+|+++.
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 388999999999999999999998874 3676665
No 188
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=95.47 E-value=0.19 Score=64.85 Aligned_cols=73 Identities=23% Similarity=0.324 Sum_probs=56.7
Q ss_pred CCCHHHHHHHHHHhc---CC-c--EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH----HHHHHHHhcCC
Q 001718 390 ELNASQVFAVKSVLQ---RP-I--SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD----QLAEKISATGL 459 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~---~~-l--~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD----eL~eRL~~~gl 459 (1021)
+-+++|..||+.+.. ++ + -||+|--|=|||-++...+...+..+ ++|.|++||-.-|+ ++.+|+....+
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 678999999999864 22 2 59999999999999888777666656 59999999999986 45666666655
Q ss_pred eEEE
Q 001718 460 KVVR 463 (1021)
Q Consensus 460 ~ivR 463 (1021)
+|-.
T Consensus 673 ~I~~ 676 (1139)
T COG1197 673 RIEV 676 (1139)
T ss_pred eEEE
Confidence 5433
No 189
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.44 E-value=0.023 Score=69.98 Aligned_cols=25 Identities=28% Similarity=0.376 Sum_probs=21.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
.+|++||+|||||+++..++..|.-
T Consensus 40 a~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 40 AYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4699999999999999888877754
No 190
>PRK05973 replicative DNA helicase; Provisional
Probab=95.43 E-value=0.024 Score=61.95 Aligned_cols=53 Identities=19% Similarity=0.342 Sum_probs=43.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl 459 (1021)
..+++|.|+||+|||+.+..++...++++. ++++.+.--. .+++.+|+...++
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 7888776554 5788888877654
No 191
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.43 E-value=0.024 Score=70.17 Aligned_cols=26 Identities=23% Similarity=0.385 Sum_probs=21.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
..|+.||+|+|||+++..++..|.-.
T Consensus 40 a~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 40 AYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhccc
Confidence 47999999999999998888776543
No 192
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=95.39 E-value=0.03 Score=68.61 Aligned_cols=26 Identities=31% Similarity=0.415 Sum_probs=21.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
..+|+.||+|||||+++..++..+.-
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~c 64 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVNC 64 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 45788999999999998888876653
No 193
>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=95.36 E-value=0.038 Score=56.91 Aligned_cols=34 Identities=38% Similarity=0.630 Sum_probs=27.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
+.++.|+||+|||+++..++..+.+.+. +|+++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~-~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGK-KVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEE
Confidence 4688999999999999999988887754 665544
No 194
>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=95.34 E-value=0.02 Score=60.65 Aligned_cols=37 Identities=32% Similarity=0.562 Sum_probs=28.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
+++.+|.||+|+||||++..++..+......+|+.+-
T Consensus 1 ~GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 4688999999999999999888877655444565544
No 195
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=95.31 E-value=0.013 Score=56.70 Aligned_cols=22 Identities=45% Similarity=0.800 Sum_probs=19.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.||.||||||||+++..++..+
T Consensus 1 ill~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT
T ss_pred CEEECcCCCCeeHHHHHHHhhc
Confidence 4899999999999998888775
No 196
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.29 E-value=0.023 Score=69.85 Aligned_cols=25 Identities=24% Similarity=0.361 Sum_probs=21.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
...|+.||||||||+++..++..|.
T Consensus 38 HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 38 HAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhC
Confidence 3569999999999999888887764
No 197
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.27 E-value=0.047 Score=66.49 Aligned_cols=24 Identities=25% Similarity=0.397 Sum_probs=20.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
..|+.||||+|||+++..++..|.
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 198
>PRK06893 DNA replication initiation factor; Validated
Probab=95.27 E-value=0.07 Score=57.93 Aligned_cols=37 Identities=19% Similarity=0.235 Sum_probs=30.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
++..+|+||||||||+++..+...+.+++. +++.+..
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 456799999999999999999988887755 5655554
No 199
>PRK09183 transposase/IS protein; Provisional
Probab=95.24 E-value=0.04 Score=61.04 Aligned_cols=53 Identities=23% Similarity=0.344 Sum_probs=39.5
Q ss_pred CCCCCHHHHHHHHHH---hcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 388 LPELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~a---l~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
.+.+|..|...+... -.....+|.||||||||+++..+...+...+. +|+.+.
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 457888887777553 12456889999999999999999777666554 777664
No 200
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=95.24 E-value=0.048 Score=63.08 Aligned_cols=26 Identities=27% Similarity=0.523 Sum_probs=22.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
..||.||+|+|||+++..++..|+..
T Consensus 47 a~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 47 ALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred eEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 58999999999999999998888763
No 201
>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=95.24 E-value=0.029 Score=55.82 Aligned_cols=41 Identities=24% Similarity=0.462 Sum_probs=32.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD 448 (1021)
+++|.|+||||||+++..++..+...+. +|++........+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~-~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGG-KVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCC-EEEEEECCcchHH
Confidence 3689999999999999999988877544 7888777655443
No 202
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.22 E-value=0.029 Score=61.01 Aligned_cols=53 Identities=21% Similarity=0.389 Sum_probs=39.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl 459 (1021)
..+++|.|+||||||+++..++..+++.+. +++.+++... .+++.+.+...+.
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 7777775544 3555555554443
No 203
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.19 E-value=0.14 Score=64.65 Aligned_cols=62 Identities=19% Similarity=0.235 Sum_probs=43.4
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 392 N~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.+-|..+.-..+... +....-|+|||.+.+..++..+..+ ..|+|+|||..-|.+..+.+..
T Consensus 80 ~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~G-~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 80 YDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNALEG-KGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred chHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHHcC-CCeEEEeCCHHHHHHHHHHHHH
Confidence 345655554443333 8999999999998766554333334 4899999999999887777654
No 204
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.18 E-value=0.027 Score=62.60 Aligned_cols=34 Identities=35% Similarity=0.620 Sum_probs=29.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEE
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL 438 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rIL 438 (1021)
+++.||.||-|||||||++.+|.++-+.....||
T Consensus 125 ~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIl 158 (353)
T COG2805 125 RGLILVTGPTGSGKSTTLAAMIDYINKHKAKHIL 158 (353)
T ss_pred CceEEEeCCCCCcHHHHHHHHHHHHhccCCcceE
Confidence 7899999999999999999999998776554444
No 205
>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=95.16 E-value=0.31 Score=64.26 Aligned_cols=154 Identities=10% Similarity=0.018 Sum_probs=93.1
Q ss_pred CCCEEEEECCCCCCchh--hhhhhhccCceEEEeCCccCCCceeecHHHHHhc-ch---HHHHHHHHHcCCcceEeeEee
Q 001718 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAG-LA---QSLFERLVLLGLKPIRLQVQY 624 (1021)
Q Consensus 551 ~Fd~VIIDEAsQ~se~e--~LipL~~~~krlILVGD~~QLpPvv~s~~a~~~g-l~---~SLFeRL~~~g~~~i~L~~qY 624 (1021)
+-..|+|||+++.+..+ ++-.|...++++++++|.+|..+.. .. .... |. ..+.+-....+.+...+..+|
T Consensus 185 ~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~~~-~~--~~~~LF~~s~~~L~~la~~~~i~v~~~~~~~ 261 (1076)
T TIGR02774 185 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAYKS-SF--SEGNLYQASVKFLHDLAQKYQTKAEFISSTH 261 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCcccccc-CC--CcccchHHHHHHHHHHHHHcCCCcccCcccc
Confidence 56789999999999866 3445556788999999998854210 00 0000 11 222222223356666666889
Q ss_pred ccCCCCCCccccccccCcccccccccccccCCCCCCC--CCC-CCCeEEEEeCCceeecccCCCccCHHHHHHHHHHHHH
Q 001718 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW--PVP-NRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTT 701 (1021)
Q Consensus 625 Rm~p~I~~f~s~~FY~g~L~~~~~~~~r~~~~~~~~~--p~~-~~p~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~ 701 (1021)
|.+++|..+.+.++-..... . .++ ... ...+.++... .-..|++.|...|.+
T Consensus 262 R~~~~L~~Le~~~~~~~~~~-~------------~~~~~~~~~~~~I~i~~a~------------n~~~Eve~va~~I~~ 316 (1076)
T TIGR02774 262 ESKDSFDKLSRLLEASHDFS-E------------LALDLDDKDKDNLTIWSCL------------TQKEEVEHVARSIRQ 316 (1076)
T ss_pred ccCHHHHHHHHHHhhcccCC-c------------ccccCCCCCCCceEEEEcC------------CHHHHHHHHHHHHHH
Confidence 99888877765332110000 0 000 000 0112222111 125799999999999
Q ss_pred HHHcCCCCCcEEEEcccchH-HHHHHHHHHhc
Q 001718 702 FLRSGVVPSQIGVITPYEGQ-RAYIVNYMSRN 732 (1021)
Q Consensus 702 Ll~~gv~~~dIgIITPY~aQ-~~~L~~~L~~~ 732 (1021)
|++.|+.++||+|+++...+ ...|...+.+.
T Consensus 317 lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~~~ 348 (1076)
T TIGR02774 317 KLYEGYRYKDILVLLGDVDSYQLQLGKIFDQY 348 (1076)
T ss_pred HHHcCCChhheEEEcCCHHHHHHHHHHHHhhc
Confidence 99889999999999998776 66777766553
No 206
>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=95.15 E-value=0.034 Score=59.86 Aligned_cols=54 Identities=20% Similarity=0.334 Sum_probs=44.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
..+++|.|+||+|||+.+..+++..++++. +++.++... ..+++.+++...+..
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~-~~~y~s~e~-~~~~l~~~~~~~~~~ 69 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGE-KAMYISLEE-REERILGYAKSKGWD 69 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCC-eEEEEECCC-CHHHHHHHHHHcCCC
Confidence 557899999999999999999888777754 888888765 578888888776554
No 207
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.14 E-value=0.047 Score=61.75 Aligned_cols=58 Identities=28% Similarity=0.335 Sum_probs=44.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHH--HHHHHHHHHHhcCCeEEEe
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV--AVDQLAEKISATGLKVVRL 464 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~--AvDeL~eRL~~~gl~ivRl 464 (1021)
+.|+.|..|+|||||+..++++|.+++..-+|+.+-|=. |+++|..--.+.+.+++.-
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~ 200 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISG 200 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEcc
Confidence 468899999999999999999999888744555555544 5677777667778877753
No 208
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=95.13 E-value=0.096 Score=61.39 Aligned_cols=29 Identities=24% Similarity=0.267 Sum_probs=22.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHH-HHHcC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYH-MAKQG 433 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~-L~k~~ 433 (1021)
+-..++.||+|||||++..++-.+ .+..+
T Consensus 209 ~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 209 NYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred CCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 556889999999999999887665 44443
No 209
>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=95.12 E-value=0.03 Score=62.04 Aligned_cols=39 Identities=23% Similarity=0.319 Sum_probs=33.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN 444 (1021)
..+++|.|+||||||+.+..++.+.++++. +++.++.-.
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge-~vlyis~Ee 74 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGN-PVLFVTVES 74 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCC-cEEEEEecC
Confidence 568999999999999999999988887754 888888753
No 210
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=95.11 E-value=0.31 Score=57.73 Aligned_cols=79 Identities=20% Similarity=0.245 Sum_probs=56.7
Q ss_pred CCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHH-HHHHHHHHHHHHcC----------CCcEEEEcCcHHHHHHHHHHHH
Q 001718 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKT-VTSAAIVYHMAKQG----------QGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 387 ~~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKT-tTla~iI~~L~k~~----------~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
+...-++-|+.||=-.++++-.|-.+-.||||| -.+.-++.++...+ ...-+++|||...+.+|.+-..
T Consensus 264 ~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~ 343 (673)
T KOG0333|consen 264 GYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETN 343 (673)
T ss_pred CCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHH
Confidence 344567899999998888888888899999999 33444444444332 2367899999999999987655
Q ss_pred h----cCCeEEEec
Q 001718 456 A----TGLKVVRLC 465 (1021)
Q Consensus 456 ~----~gl~ivRlg 465 (1021)
+ .+++++++-
T Consensus 344 kf~~~lg~r~vsvi 357 (673)
T KOG0333|consen 344 KFGKPLGIRTVSVI 357 (673)
T ss_pred HhcccccceEEEEe
Confidence 4 355666653
No 211
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.10 E-value=0.043 Score=62.65 Aligned_cols=50 Identities=20% Similarity=0.401 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEE
Q 001718 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLV 439 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV 439 (1021)
.+++.|.+.+..++. +...||.|++||||||++.+++..+... +..+|++
T Consensus 128 ~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 477888888888776 5567899999999999999988877654 2335544
No 212
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.06 E-value=0.044 Score=62.51 Aligned_cols=53 Identities=26% Similarity=0.324 Sum_probs=39.8
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcC
Q 001718 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~Ap 442 (1021)
-+++.|.+.+..++. +...+|.|++||||||++..++..+... +..+|+++-.
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd 186 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIED 186 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcC
Confidence 367788888887765 6678999999999999999988776543 3346665443
No 213
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.03 E-value=0.076 Score=63.84 Aligned_cols=24 Identities=29% Similarity=0.436 Sum_probs=20.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
..|++||||||||+++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 37 SILLVGASGVGKTTCARIISLCLN 60 (491)
T ss_pred eEEEECCCCccHHHHHHHHHHHHc
Confidence 589999999999998877776654
No 214
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.00 E-value=0.016 Score=64.78 Aligned_cols=27 Identities=37% Similarity=0.679 Sum_probs=23.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
+++.|++||||||||+...+++..|.-
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLSI 203 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLSI 203 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhhee
Confidence 789999999999999998888877643
No 215
>PRK10867 signal recognition particle protein; Provisional
Probab=94.96 E-value=0.05 Score=64.50 Aligned_cols=55 Identities=29% Similarity=0.408 Sum_probs=39.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEE-EEcCcHH--HHHHHHHHHHhcCCeEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVL-VCAPSNV--AVDQLAEKISATGLKVV 462 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rIL-V~ApSN~--AvDeL~eRL~~~gl~iv 462 (1021)
+.++.|++|+|||||++.++.+|.+. +. +|+ |.+-+.. |++++.......+++++
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 57789999999999999999999887 55 554 5555554 34566554444555544
No 216
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=94.96 E-value=0.14 Score=62.36 Aligned_cols=18 Identities=6% Similarity=0.017 Sum_probs=8.5
Q ss_pred CCCCCCCCCCCCCCCCcc
Q 001718 979 ENSNSQPSVGGPLTQPGF 996 (1021)
Q Consensus 979 ~~~~~~~~~~~~~~~~~~ 996 (1021)
..|-+-+-+-.||--.-+
T Consensus 614 LkpKK~~k~e~~Mrr~nW 631 (1102)
T KOG1924|consen 614 LKPKKVYKPEVPMRRFNW 631 (1102)
T ss_pred CCccccCCCCCccccCCc
Confidence 335555555555544433
No 217
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=94.93 E-value=0.059 Score=62.05 Aligned_cols=27 Identities=22% Similarity=0.420 Sum_probs=23.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
+.+.+|.||||||||+++..++..|-.
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 467899999999999998888877654
No 218
>PRK04328 hypothetical protein; Provisional
Probab=94.90 E-value=0.04 Score=60.62 Aligned_cols=54 Identities=26% Similarity=0.447 Sum_probs=41.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
..++||.|+||||||+....+++.-++.+. ++++++...... .+.+++...+.+
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge-~~lyis~ee~~~-~i~~~~~~~g~d 76 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE-PGVYVALEEHPV-QVRRNMRQFGWD 76 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEEeeCCHH-HHHHHHHHcCCC
Confidence 567899999999999999999988777765 788888655444 477777666543
No 219
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.90 E-value=0.045 Score=59.36 Aligned_cols=55 Identities=31% Similarity=0.512 Sum_probs=43.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeE
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKV 461 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~i 461 (1021)
..+++|.|+||||||+.+..+++..++++. +++.++.... .+.+.+++...++.+
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~-~~~y~~~e~~-~~~~~~~~~~~g~~~ 79 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQGK-KVYVITTENT-SKSYLKQMESVKIDI 79 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCCC-EEEEEEcCCC-HHHHHHHHHHCCCCh
Confidence 567999999999999999999888777654 8888888754 467777777766543
No 220
>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=94.86 E-value=0.052 Score=61.42 Aligned_cols=52 Identities=25% Similarity=0.365 Sum_probs=39.5
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001718 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~A 441 (1021)
.+++.|.+.+..++. +...+|.||+||||||++..++..+.+. +..+|+++-
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 366777788877765 5678999999999999999988777654 244666654
No 221
>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=94.85 E-value=0.075 Score=65.37 Aligned_cols=48 Identities=25% Similarity=0.458 Sum_probs=41.6
Q ss_pred hcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 403 LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 403 l~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
|.-...||.|-+|+|||+-+..+...| .-||+.-|..|+.||..+|..
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 334568999999999999998887765 789999999999999999974
No 222
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=94.84 E-value=0.17 Score=62.13 Aligned_cols=36 Identities=25% Similarity=0.133 Sum_probs=28.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~A 441 (1021)
+..+|+|++|||||+++..+...+.+. ...+|+.+.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit 351 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS 351 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence 347999999999999999999887764 334666655
No 223
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=94.83 E-value=0.037 Score=56.84 Aligned_cols=41 Identities=24% Similarity=0.436 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhc------CCcEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001718 393 ASQVFAVKSVLQ------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1021)
Q Consensus 393 ~sQ~~AV~~al~------~~l~LIqGPPGTGKTtTla~iI~~L~k~~ 433 (1021)
++|.+.+...+. .+..+|.|++|+|||+++.++...+.+.+
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~ 52 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERG 52 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence 356666666661 46799999999999999999888887764
No 224
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=94.82 E-value=0.049 Score=69.53 Aligned_cols=78 Identities=21% Similarity=0.324 Sum_probs=60.4
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHc----------CCCcEEEEcCcHHHHHHHHH----H
Q 001718 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ----------GQGQVLVCAPSNVAVDQLAE----K 453 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~----------~~~rILV~ApSN~AvDeL~e----R 453 (1021)
..||..|-....+++. ....|+.||.|.|||-+++.-|.+-+.. ...+|..+||....|+++.. |
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 6789999999999999886655554443 23489999999999998866 5
Q ss_pred HHhcCCeEEEecc
Q 001718 454 ISATGLKVVRLCA 466 (1021)
Q Consensus 454 L~~~gl~ivRlg~ 466 (1021)
+...|++|..+..
T Consensus 388 la~~GI~V~ElTg 400 (1674)
T KOG0951|consen 388 LAPLGITVLELTG 400 (1674)
T ss_pred ccccCcEEEEecc
Confidence 6667777766543
No 225
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.80 E-value=0.06 Score=68.59 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=21.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
.+|+.||+|+|||+++..+++.|.
T Consensus 39 a~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 39 AYLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhC
Confidence 478999999999999988887775
No 226
>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=94.80 E-value=0.088 Score=56.35 Aligned_cols=50 Identities=18% Similarity=0.235 Sum_probs=34.8
Q ss_pred CCHHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 391 LNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 391 LN~sQ~~AV~~al~---~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
-|..-.++++..+. ....+|.||||||||+++..+...+...+. +++.+.
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~-~~~~i~ 73 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGK-SAIYLP 73 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCC-cEEEEe
Confidence 34555555655432 467899999999999999988887765543 555544
No 227
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.78 E-value=0.16 Score=58.23 Aligned_cols=56 Identities=30% Similarity=0.480 Sum_probs=44.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHH--HHHHHHHHHhcCCeE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVA--VDQLAEKISATGLKV 461 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~A--vDeL~eRL~~~gl~i 461 (1021)
.+.++.|--|+|||||+..+++++-+++.+.-||||.|=.| -|+|..--.+.++++
T Consensus 102 sVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ 159 (483)
T KOG0780|consen 102 SVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPF 159 (483)
T ss_pred cEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCee
Confidence 36778999999999999999999999988889999988764 577766555554444
No 228
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.75 E-value=0.045 Score=57.09 Aligned_cols=52 Identities=31% Similarity=0.520 Sum_probs=38.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~---------~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+++|.||||+|||+++..++..++.. ...+||.+..-+. ..++.+|+...
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~ 92 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRAL 92 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHH
Confidence 6789999999999999999999988852 3458999988777 55677777643
No 229
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.72 E-value=0.072 Score=62.94 Aligned_cols=68 Identities=19% Similarity=0.262 Sum_probs=55.1
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHHcC-----------CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtT-la~iI~~L~k~~-----------~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..++-|+.+|..+...+=.++.|+-|+|||.. +.=++.++.+.+ ..++|++|||+..|+++.++..+.
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 56888999999888777779999999999974 455666666652 247999999999999999987664
No 230
>PRK09694 helicase Cas3; Provisional
Probab=94.69 E-value=0.093 Score=67.24 Aligned_cols=67 Identities=19% Similarity=0.371 Sum_probs=55.8
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
..++-|..+.......++++|.+|-|+|||..+...+..|+.. ...+|+++.||...++.|.+|+.+
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 5688898775544457899999999999999988887777665 346899999999999999999875
No 231
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.69 E-value=0.12 Score=65.17 Aligned_cols=36 Identities=22% Similarity=0.426 Sum_probs=24.2
Q ss_pred CCCEEEEECCCCCCchh--hhhhhhccCceEEEeCCccC
Q 001718 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQ 587 (1021)
Q Consensus 551 ~Fd~VIIDEAsQ~se~e--~LipL~~~~krlILVGD~~Q 587 (1021)
+..++||||+..++... .|.+... ..+++++|+...
T Consensus 109 ~~~IL~IDEIh~Ln~~qQdaLL~~lE-~g~IiLI~aTTe 146 (725)
T PRK13341 109 KRTILFIDEVHRFNKAQQDALLPWVE-NGTITLIGATTE 146 (725)
T ss_pred CceEEEEeChhhCCHHHHHHHHHHhc-CceEEEEEecCC
Confidence 46789999998877532 3445433 467888887643
No 232
>PRK10436 hypothetical protein; Provisional
Probab=94.69 E-value=0.045 Score=65.44 Aligned_cols=41 Identities=29% Similarity=0.510 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHH
Q 001718 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~--~~l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
.|.+.|.+.++.++. +++.||.||.|+|||||+..++.++.
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~ 243 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLN 243 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhC
Confidence 467888888888764 78999999999999999988877754
No 233
>PF05729 NACHT: NACHT domain
Probab=94.64 E-value=0.03 Score=56.16 Aligned_cols=28 Identities=25% Similarity=0.501 Sum_probs=25.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~ 433 (1021)
++.+|.|+||+|||+++..++..+....
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 3679999999999999999999888874
No 234
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=94.62 E-value=0.095 Score=56.48 Aligned_cols=51 Identities=18% Similarity=0.208 Sum_probs=36.8
Q ss_pred CCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~----~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
.-|.....+++.... .+..+|.|+||||||+.+..+..++...+. .+.++.
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 456677777766543 457899999999999999988887766543 444443
No 235
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=94.60 E-value=0.042 Score=66.25 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHH
Q 001718 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~--~~l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
.+++.|.+.++.++. .++.+|.||.|||||||+..++..+.
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 236
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=94.60 E-value=0.12 Score=61.24 Aligned_cols=61 Identities=25% Similarity=0.287 Sum_probs=51.2
Q ss_pred HHHHHHHHHHhc-----CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 393 ASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 393 ~sQ~~AV~~al~-----~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
-.|-+||+.... ...-.+.|.-|||||.|++.+|..+ +.+.||+|++...|.+|..-+...
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 3467889999999999999998875 348999999999999999988765
No 237
>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=94.60 E-value=0.057 Score=59.71 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=41.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
..+++|.|+||+|||+++..++.+++.....+|++++.-. ..+++..|+..
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 5689999999999999999999988877345899988765 44667777654
No 238
>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=94.59 E-value=0.19 Score=62.88 Aligned_cols=61 Identities=21% Similarity=0.203 Sum_probs=41.4
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 393 ~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+-|..+.-..+ .+. +.+...|+|||.+.+..++.....+ .+|+|+|||..-|.+..+.+..
T Consensus 59 ~vQlig~~~l~-~G~-Iaem~TGeGKTLva~lpa~l~aL~G-~~V~VvTpt~~LA~qdae~~~~ 119 (745)
T TIGR00963 59 DVQLIGGIALH-KGK-IAEMKTGEGKTLTATLPAYLNALTG-KGVHVVTVNDYLAQRDAEWMGQ 119 (745)
T ss_pred chHHhhhhhhc-CCc-eeeecCCCccHHHHHHHHHHHHHhC-CCEEEEcCCHHHHHHHHHHHHH
Confidence 45555544433 333 8899999999987654443222234 4899999999999888876654
No 239
>PRK08727 hypothetical protein; Validated
Probab=94.58 E-value=0.17 Score=55.16 Aligned_cols=36 Identities=25% Similarity=0.347 Sum_probs=29.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
....+|.||+|||||+++..+...+.+.+. +++.+.
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~-~~~y~~ 76 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAAAEQAGR-SSAYLP 76 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEEe
Confidence 346899999999999999999988877654 776665
No 240
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=94.54 E-value=0.05 Score=58.38 Aligned_cols=27 Identities=37% Similarity=0.645 Sum_probs=23.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
-|..+|.|||||||||.+..++..|+-
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 367899999999999999988887764
No 241
>PRK06851 hypothetical protein; Provisional
Probab=94.54 E-value=0.029 Score=64.98 Aligned_cols=48 Identities=27% Similarity=0.465 Sum_probs=40.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCC-cEEEEcCcHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG-QVLVCAPSNVAVDQLAE 452 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~-rILV~ApSN~AvDeL~e 452 (1021)
.++++|.|+||||||+++..++..+.+.+.. ..+.|+..|.++|-+.-
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvii 78 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVII 78 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEEe
Confidence 7789999999999999999999998876532 47889999989886543
No 242
>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=94.51 E-value=0.081 Score=62.69 Aligned_cols=56 Identities=32% Similarity=0.460 Sum_probs=38.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH-cCCCcEEEEcCcHH--HHHHHHHHHHhcCCeEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNV--AVDQLAEKISATGLKVV 462 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k-~~~~rILV~ApSN~--AvDeL~eRL~~~gl~iv 462 (1021)
+.++.|++|+|||||++.++.++.. .+..-.||.+-+.. |.+++.......++++.
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~ 159 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVF 159 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceE
Confidence 5788999999999999999998864 45433455555554 45555554444555544
No 243
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.50 E-value=0.053 Score=64.33 Aligned_cols=43 Identities=26% Similarity=0.414 Sum_probs=36.8
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~--~~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
.+++.|.+.+..++. .++.||.||-|||||||+-..+..+...
T Consensus 241 g~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~ 285 (500)
T COG2804 241 GMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTP 285 (500)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence 358899999999987 5789999999999999999888777544
No 244
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.49 E-value=0.28 Score=57.30 Aligned_cols=56 Identities=29% Similarity=0.469 Sum_probs=40.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH--HHHHHHHHHHHhcCCeEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVV 462 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN--~AvDeL~eRL~~~gl~iv 462 (1021)
+.+..|-=|+|||||+..++++|.+.+.+..||+|-+- .|.|+|..--.+.++++.
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 35678999999999999999999997664555565554 566777665445555443
No 245
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=94.49 E-value=0.28 Score=51.80 Aligned_cols=40 Identities=15% Similarity=0.290 Sum_probs=34.8
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001718 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1021)
Q Consensus 404 ~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN 444 (1021)
..+..+|.+++|+|||+.+..++...+..+. +|+++=|-.
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~-~V~ivQFlK 60 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGK-KVGVVQFIK 60 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEEec
Confidence 4789999999999999999999988888876 899887644
No 246
>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=94.47 E-value=0.049 Score=65.70 Aligned_cols=54 Identities=22% Similarity=0.311 Sum_probs=43.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
..++||.||||||||+++...++..++++. +++.+++ -...+++.+|....+++
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~ge-~~~y~s~-eEs~~~i~~~~~~lg~~ 316 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACANKE-RAILFAY-EESRAQLLRNAYSWGID 316 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEEe-eCCHHHHHHHHHHcCCC
Confidence 457999999999999999999999988765 8888885 45566788877766653
No 247
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.46 E-value=0.36 Score=62.90 Aligned_cols=149 Identities=18% Similarity=0.270 Sum_probs=86.4
Q ss_pred CCCHHHHHHHHHHhc---CC-cEEEECCCCCcHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc--CCeE
Q 001718 390 ELNASQVFAVKSVLQ---RP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~---~~-l~LIqGPPGTGKTtTla~iI~~L~k~--~~~rILV~ApSN~AvDeL~eRL~~~--gl~i 461 (1021)
.|=+-|.++|..++. ++ -.|+-=-.|.|||..+..++.+|... ...++||++|.... .+-.+-+.+. .+++
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 577889999988763 33 35666689999999988888877653 23589999997664 3444434432 1223
Q ss_pred EEeccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccc
Q 001718 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVG 541 (1021)
Q Consensus 462 vRlg~~sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~ 541 (1021)
+.+.....+ ...+. . ........+|+++|-..
T Consensus 248 ~~~~G~~~e-------------------------R~~~~-----------------~------~~~~~~~~dVvITSYe~ 279 (1033)
T PLN03142 248 VKFHGNPEE-------------------------RAHQR-----------------E------ELLVAGKFDVCVTSFEM 279 (1033)
T ss_pred EEEeCCHHH-------------------------HHHHH-----------------H------HHhcccCCCcceecHHH
Confidence 222111000 00000 0 00001234555555433
Q ss_pred cCC--CCcccCCCCEEEEECCCCCCchhhhh----hhhccCceEEEeCCccC
Q 001718 542 AGD--PRLANFRFRQVLIDESTQATEPECLI----PLVLGAKQVVLVGDHCQ 587 (1021)
Q Consensus 542 a~~--~~L~~~~Fd~VIIDEAsQ~se~e~Li----pL~~~~krlILVGD~~Q 587 (1021)
+.. ..+....|++||||||..+--....+ .......+++|-|=|-|
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 222 23566789999999998877644322 11124468999999987
No 248
>PRK06921 hypothetical protein; Provisional
Probab=94.46 E-value=0.11 Score=57.98 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=30.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
....+++|+||||||+++..++..+.+.....|+.++.
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 35689999999999999999999988762346777664
No 249
>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=94.45 E-value=0.052 Score=65.54 Aligned_cols=55 Identities=18% Similarity=0.237 Sum_probs=43.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
...+||.|+||||||+.+.++++.-+++...++|.+++- ...+++.+.....+..
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~~G~~ 75 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARSFGWD 75 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHHcCCC
Confidence 567999999999999999999887666633488888875 5667788877776653
No 250
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.44 E-value=0.054 Score=59.78 Aligned_cols=44 Identities=34% Similarity=0.628 Sum_probs=37.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ 449 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDe 449 (1021)
..++||.|+||||||+.+.+.+...++.+. +++.++..-.+.+-
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge-~vlyvs~~e~~~~l 66 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREGE-PVLYVSTEESPEEL 66 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcCC-cEEEEEecCCHHHH
Confidence 678999999999999999999999998855 88888876655543
No 251
>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=94.44 E-value=0.033 Score=53.51 Aligned_cols=23 Identities=30% Similarity=0.761 Sum_probs=19.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+.+|.|+|||||||++..+...+
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 36899999999999988887765
No 252
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.43 E-value=0.082 Score=60.61 Aligned_cols=36 Identities=31% Similarity=0.412 Sum_probs=30.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
....++.|++|||||+++..++..++..+. +|+.++
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~-~V~y~t 218 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDRGK-SVIYRT 218 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHCCC-eEEEEE
Confidence 467899999999999999999999988765 777665
No 253
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=94.40 E-value=0.11 Score=65.80 Aligned_cols=47 Identities=17% Similarity=0.242 Sum_probs=35.7
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+.+.+.|+|||.+.+.-++.-+..+. .|+|+|||..-|.+..+.+..
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~al~G~-~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNAISGR-GVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred cccccCCCCchHHHHHHHHHHHhcCC-CEEEEcCCHHHHHHHHHHHHH
Confidence 46779999999987665553333443 799999999998888877654
No 254
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=94.39 E-value=0.26 Score=63.35 Aligned_cols=66 Identities=24% Similarity=0.300 Sum_probs=56.9
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+|++.|++|+..+....-++|.+|-|+|||.+.-..|+.-++.++ ++..++|..+-..+....+..
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 799999988888776665543
No 255
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.36 E-value=0.065 Score=64.55 Aligned_cols=52 Identities=23% Similarity=0.421 Sum_probs=38.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH-HHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM-AKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L-~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
..+.+|.|-+|+||||-+=..++.- ...++.+|-++-|-..||-.++.|+.+
T Consensus 280 ~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~ 332 (902)
T KOG0923|consen 280 HQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAE 332 (902)
T ss_pred CcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHH
Confidence 7889999999999999764433211 112333588888999999999999875
No 256
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=94.34 E-value=0.26 Score=57.39 Aligned_cols=55 Identities=25% Similarity=0.353 Sum_probs=38.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHH-HcCCCcEEEEcC---cHHHHHHHHHHHHhcCC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCAP---SNVAVDQLAEKISATGL 459 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~-k~~~~rILV~Ap---SN~AvDeL~eRL~~~gl 459 (1021)
.++..+.||-|-|||||++.+++... ..+..+|-++|- ---|+.+|..--.-.++
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~v 261 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGV 261 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCC
Confidence 57899999999999999999998887 345557766652 22355555543333333
No 257
>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=94.31 E-value=0.045 Score=63.14 Aligned_cols=41 Identities=22% Similarity=0.347 Sum_probs=31.2
Q ss_pred CHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 392 N~sQ~~AV~~al~-------~~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
-+.|.+.+...+. .+..+|.||||||||+++..++.++...
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~ 67 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEA 67 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHH
Confidence 3566666666553 2578999999999999999988887543
No 258
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=94.26 E-value=0.25 Score=60.69 Aligned_cols=58 Identities=16% Similarity=0.093 Sum_probs=46.2
Q ss_pred HHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 399 VKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 399 V~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+-....++.+++.-|==.|||.+++.+|..++.. ...+|+++|+..+.++.+.++|..
T Consensus 248 ~~~~fkqk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~ 306 (738)
T PHA03368 248 AVRHFRQRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGA 306 (738)
T ss_pred HHHHhhccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHH
Confidence 3344557888999999999999998777655544 456999999999999988888765
No 259
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.24 E-value=0.2 Score=62.63 Aligned_cols=48 Identities=27% Similarity=0.333 Sum_probs=42.1
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
++.+.+|+|||.+...+|...+..++ ++||+.|...-+.++.+|+.+.
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 260
>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=94.20 E-value=0.07 Score=56.64 Aligned_cols=39 Identities=33% Similarity=0.568 Sum_probs=31.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN 444 (1021)
..+++|.||||||||+.+..++....+.+. +++.++..+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~-~v~yi~~e~ 50 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGK-KVVYIDTEG 50 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCC-eEEEEECCC
Confidence 567999999999999999999988887754 666666543
No 261
>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=94.18 E-value=0.076 Score=57.24 Aligned_cols=53 Identities=21% Similarity=0.409 Sum_probs=38.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl 459 (1021)
..+++|.|+||||||+++..++...++.+. +++.++. ...++++.++....+.
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 567999999999999999998877776654 6666665 3334566666555443
No 262
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=94.15 E-value=0.11 Score=69.56 Aligned_cols=47 Identities=17% Similarity=0.399 Sum_probs=36.3
Q ss_pred EECCCCCcHHHHHHH-HHHHHHHcC-----------CCcEEEEcCcHHHHHHHHHHHHh
Q 001718 410 IQGPPGTGKTVTSAA-IVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 410 IqGPPGTGKTtTla~-iI~~L~k~~-----------~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
|.+|.|||||.+..- ++..+++.. ..++|+++|+..-+.++.++|..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 578999999998754 666666531 34799999999999888887753
No 263
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.13 E-value=0.19 Score=61.12 Aligned_cols=57 Identities=19% Similarity=0.355 Sum_probs=42.5
Q ss_pred HHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 400 KSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 400 ~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
..+-.+.+.+|.|.-|+||||=+-..++..--...++|.++=|-..||-.++.|+..
T Consensus 61 ~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAe 117 (674)
T KOG0922|consen 61 YAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAE 117 (674)
T ss_pred HHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHH
Confidence 333348899999999999999765544322111334699999999999999999875
No 264
>PLN03025 replication factor C subunit; Provisional
Probab=94.12 E-value=0.064 Score=61.13 Aligned_cols=40 Identities=30% Similarity=0.520 Sum_probs=28.8
Q ss_pred CHHHHHHHHHHhc---CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 392 NASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 392 N~sQ~~AV~~al~---~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
|+...+.++.++. -+..|++||||||||+++..++..+..
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~ 60 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG 60 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhc
Confidence 3444555555443 245789999999999999988887753
No 265
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=94.10 E-value=0.081 Score=57.38 Aligned_cols=50 Identities=24% Similarity=0.284 Sum_probs=39.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
..+++|.|+||+|||+.+..++.+++.+...+||.++.-..+. ++.+|+.
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 4589999999999999999999999887445899998766544 4555553
No 266
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.02 E-value=0.095 Score=60.79 Aligned_cols=56 Identities=23% Similarity=0.337 Sum_probs=41.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcE-EEEcCcH--HHHHHHHHHHHhcCCeE
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKV 461 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rI-LV~ApSN--~AvDeL~eRL~~~gl~i 461 (1021)
..+.+|.||.|+|||||++.+..++..++. +| +|.+.+- .|++++.......++.+
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~-~V~lItaDtyR~gAveQLk~yae~lgvpv 264 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNR-TVGFITTDTFRSGAVEQFQGYADKLDVEL 264 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCCccCccHHHHHHHHhhcCCCCE
Confidence 457889999999999999999988877765 55 4555555 45778777665555443
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=93.96 E-value=0.077 Score=65.26 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHhc--CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~--~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+.+.|.+.+..++. +++.||.||.|||||||+..++..+
T Consensus 299 g~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 467888889988765 6899999999999999998888765
No 268
>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=93.95 E-value=0.07 Score=57.10 Aligned_cols=36 Identities=33% Similarity=0.546 Sum_probs=30.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
..+++|.|+||||||+++..++..+.+++. ++++++
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 457899999999999999999998887654 776664
No 269
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.94 E-value=0.17 Score=62.44 Aligned_cols=37 Identities=19% Similarity=0.258 Sum_probs=26.3
Q ss_pred HHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 395 QVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 395 Q~~AV~~al~----~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
..+.+..++. ...+|+.||+|||||+++..++..|.-
T Consensus 24 v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 24 VSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 3344444443 234689999999999999888877653
No 270
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=93.90 E-value=0.11 Score=59.47 Aligned_cols=27 Identities=22% Similarity=0.421 Sum_probs=23.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
...|+.||+|+|||+++..++..|+-.
T Consensus 23 ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 23 HAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred eeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 357899999999999999999887654
No 271
>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=93.88 E-value=0.05 Score=60.18 Aligned_cols=27 Identities=26% Similarity=0.380 Sum_probs=21.9
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
...++.||||||||+++..++..+...
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~~ 69 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKEM 69 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence 347899999999999998887776543
No 272
>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=93.87 E-value=0.073 Score=52.61 Aligned_cols=22 Identities=41% Similarity=0.732 Sum_probs=19.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+|.||||||||+++..++..+
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 6899999999999988888766
No 273
>PRK05642 DNA replication initiation factor; Validated
Probab=93.86 E-value=0.18 Score=55.02 Aligned_cols=35 Identities=14% Similarity=0.317 Sum_probs=27.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
+..+|+||+|||||+.+..+..++...+. +++.+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~-~v~y~~ 80 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGE-PAVYLP 80 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEee
Confidence 46789999999999998888777766543 666655
No 274
>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=93.83 E-value=0.081 Score=60.27 Aligned_cols=40 Identities=20% Similarity=0.259 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.++++-..+|...+. ++..+|.||||||||+++..++..|
T Consensus 48 ~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 48 LFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 467777777777765 6779999999999999988877765
No 275
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=93.80 E-value=0.16 Score=61.66 Aligned_cols=25 Identities=24% Similarity=0.336 Sum_probs=21.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
..|+.||||||||+++..++..|.-
T Consensus 38 ayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 38 AYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred eEEEECCCCCcHHHHHHHHHHHhcC
Confidence 4699999999999999988888764
No 276
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=93.79 E-value=0.12 Score=60.26 Aligned_cols=41 Identities=32% Similarity=0.432 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001718 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1021)
Q Consensus 393 ~sQ~~AV~~al~-------~~l~LIqGPPGTGKTtTla~iI~~L~k~~ 433 (1021)
+.|.+.+...+. .+..+|.||||||||+++..++..+....
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 24689999999999999999988876553
No 277
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=93.78 E-value=0.21 Score=58.12 Aligned_cols=26 Identities=27% Similarity=0.414 Sum_probs=23.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
..|+.||+|+||++++..++..|+-.
T Consensus 43 A~Lf~Gp~G~GK~~lA~~~A~~Llc~ 68 (365)
T PRK07471 43 AWLIGGPQGIGKATLAYRMARFLLAT 68 (365)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHhCC
Confidence 48899999999999999999888754
No 278
>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=93.74 E-value=0.073 Score=59.00 Aligned_cols=25 Identities=28% Similarity=0.416 Sum_probs=21.0
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHH
Q 001718 404 QRPISLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 404 ~~~l~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.+...+|.||||||||+++..+...
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~~ 44 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVARK 44 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 3667899999999999998877653
No 279
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.73 E-value=0.15 Score=59.96 Aligned_cols=35 Identities=26% Similarity=0.470 Sum_probs=27.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHH-HcCCCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~-k~~~~rILV~A 441 (1021)
.+.+|.||+|+|||||++.++..+. ..+. +|++++
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~-~V~Lit 259 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGK-SVSLYT 259 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCC-eEEEec
Confidence 4578999999999999999997664 4444 665554
No 280
>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=93.69 E-value=0.11 Score=46.91 Aligned_cols=33 Identities=33% Similarity=0.561 Sum_probs=28.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
.+|.|.+|+|||+++..++..|.+.+. +++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~-~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGK-RVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEC
Confidence 578899999999999999999988654 788776
No 281
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=93.68 E-value=0.088 Score=55.16 Aligned_cols=40 Identities=25% Similarity=0.300 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+++.|.+.+..++. ....+|.||+|+||||++..++..+
T Consensus 9 ~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i 49 (186)
T cd01130 9 TFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFI 49 (186)
T ss_pred CCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence 477889999988876 5678999999999999997766543
No 282
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.68 E-value=0.28 Score=57.64 Aligned_cols=44 Identities=32% Similarity=0.395 Sum_probs=34.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc---CcHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA---PSNVAVDQLAE 452 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A---pSN~AvDeL~e 452 (1021)
+.+.|.-|-||+|.++.|.+||+.++- +||+.| |---|+++|+-
T Consensus 381 i~fvGVNGVGKSTNLAKIayWLlqNkf-rVLIAACDTFRsGAvEQLrt 427 (587)
T KOG0781|consen 381 ISFVGVNGVGKSTNLAKIAYWLLQNKF-RVLIAACDTFRSGAVEQLRT 427 (587)
T ss_pred EEEEeecCccccchHHHHHHHHHhCCc-eEEEEeccchhhhHHHHHHH
Confidence 456899999999999999999988765 888875 34456766653
No 283
>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=93.61 E-value=0.046 Score=53.98 Aligned_cols=23 Identities=26% Similarity=0.702 Sum_probs=18.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
++++.|||||||||++..+...+
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~ 23 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRL 23 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHS
T ss_pred CEEEECCCCCCHHHHHHHHHHHC
Confidence 47899999999999877766543
No 284
>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=93.55 E-value=0.049 Score=58.72 Aligned_cols=33 Identities=21% Similarity=0.422 Sum_probs=20.1
Q ss_pred CCEEEEECCCCCCch--hhhhhhhccCceE-EEeCCc
Q 001718 552 FRQVLIDESTQATEP--ECLIPLVLGAKQV-VLVGDH 585 (1021)
Q Consensus 552 Fd~VIIDEAsQ~se~--e~LipL~~~~krl-ILVGD~ 585 (1021)
-++++|||....+-. +.|.|..-. .++ |++|--
T Consensus 102 ~~ILFIDEIHRlnk~~qe~LlpamEd-~~idiiiG~g 137 (233)
T PF05496_consen 102 GDILFIDEIHRLNKAQQEILLPAMED-GKIDIIIGKG 137 (233)
T ss_dssp T-EEEECTCCC--HHHHHHHHHHHHC-SEEEEEBSSS
T ss_pred CcEEEEechhhccHHHHHHHHHHhcc-CeEEEEeccc
Confidence 468899999888874 356666543 344 667754
No 285
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=93.52 E-value=0.15 Score=59.48 Aligned_cols=36 Identities=25% Similarity=0.423 Sum_probs=28.7
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEE
Q 001718 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLV 439 (1021)
Q Consensus 404 ~~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV 439 (1021)
..++.||.||+||||||++..++.++.... ..+|+.
T Consensus 148 ~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 148 AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 378999999999999999999998887643 234544
No 286
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=93.50 E-value=0.096 Score=56.35 Aligned_cols=38 Identities=34% Similarity=0.569 Sum_probs=31.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApS 443 (1021)
..+++|.|+||||||+++..++...++.+. +++.+..-
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 458999999999999999999988887754 66666544
No 287
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=93.44 E-value=0.28 Score=60.90 Aligned_cols=47 Identities=30% Similarity=0.341 Sum_probs=35.5
Q ss_pred EEEECCC-----CCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001718 408 SLIQGPP-----GTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 408 ~LIqGPP-----GTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
.|.+|-= |.|||.|++..++..+..+. .|.|+|+|.-.|..=.+.+.
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 99999998877766555554 89999999988876666543
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=93.41 E-value=0.077 Score=61.23 Aligned_cols=37 Identities=30% Similarity=0.617 Sum_probs=28.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
.++.+|.||+|+||||++..++.++.+....+|+.+-
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
>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=93.39 E-value=0.35 Score=54.95 Aligned_cols=46 Identities=30% Similarity=0.554 Sum_probs=35.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc--CcHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA--PSNVAVDQLAE 452 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A--pSN~AvDeL~e 452 (1021)
++.++.|.-|+||||+++.++.++.+.+. ++|+++ |.+...|-+-.
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 46789999999999999999999998875 888874 44555554443
No 290
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=93.35 E-value=0.63 Score=58.24 Aligned_cols=67 Identities=19% Similarity=0.237 Sum_probs=51.2
Q ss_pred CCCHHHHHHHHHHh---c--CCcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHh
Q 001718 390 ELNASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al---~--~~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.+++.|.+|++... . ....+|++.=|=|||..+---++.+.... ..+|+|+|||-.+++.|.+-+.+
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 57889998887653 2 45889999999999998864444444443 45999999999999999886543
No 291
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=93.33 E-value=0.12 Score=50.94 Aligned_cols=29 Identities=41% Similarity=0.666 Sum_probs=24.1
Q ss_pred CCcEE-EECCCCCcHHHHHHHHHHHHHHcC
Q 001718 405 RPISL-IQGPPGTGKTVTSAAIVYHMAKQG 433 (1021)
Q Consensus 405 ~~l~L-IqGPPGTGKTtTla~iI~~L~k~~ 433 (1021)
++++| ..|++|||||.+...|+.+|.+.+
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 45443 799999999999999999988764
No 292
>KOG4284 consensus DEAD box protein [Transcription]
Probab=93.22 E-value=0.092 Score=63.09 Aligned_cols=68 Identities=18% Similarity=0.284 Sum_probs=50.9
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHH-HHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001718 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY-HMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (1021)
Q Consensus 392 N~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~-~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~gl 459 (1021)
++-|..||-.++..==.+||+-.|||||-+-..++. .|.-+ ...++++++||..-+-++.+-+...+.
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 567889998887766679999999999976544443 33222 345899999999988888887766543
No 293
>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=93.21 E-value=0.16 Score=52.84 Aligned_cols=57 Identities=30% Similarity=0.440 Sum_probs=35.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC--cHHHHHHHHHHHHhcCCeEEEecc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP--SNVAVDQLAEKISATGLKVVRLCA 466 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap--SN~AvDeL~eRL~~~gl~ivRlg~ 466 (1021)
|+++|.|..|+||||++.+++. ......++.|+.. -...+| .+.+.+.+..++.+.+
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 3334447766652 222233 2334445666666644
No 294
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.21 E-value=0.36 Score=59.62 Aligned_cols=26 Identities=27% Similarity=0.409 Sum_probs=21.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
+.+|++||||||||+++..++..|.-
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhccc
Confidence 45788999999999999888877753
No 295
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.15 E-value=0.05 Score=63.51 Aligned_cols=24 Identities=42% Similarity=0.578 Sum_probs=21.4
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+=.|+.||||||||+.|++++.+|
T Consensus 236 RGYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 236 RGYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred ccceeeCCCCCCHHHHHHHHHhhc
Confidence 348999999999999999998876
No 296
>PHA00350 putative assembly protein
Probab=93.14 E-value=0.15 Score=59.61 Aligned_cols=32 Identities=25% Similarity=0.394 Sum_probs=23.5
Q ss_pred cEEEECCCCCcHHHHHHH-HHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~-iI~~L~k~~~~rILV~ 440 (1021)
+.+|+|.||||||..++. .|.-.++.+ |++++
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk~G--R~V~T 35 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALKDG--RKVIT 35 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHHCC--CEEEE
Confidence 579999999999988876 455555655 55544
No 297
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=93.12 E-value=0.16 Score=57.99 Aligned_cols=43 Identities=21% Similarity=0.221 Sum_probs=33.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD 448 (1021)
..+++|.||||||||+++..++....+.+. +++.+..-+..-.
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 458999999999999999999988887754 7777665544333
No 298
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.09 E-value=0.74 Score=51.42 Aligned_cols=54 Identities=24% Similarity=0.392 Sum_probs=37.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC-cH--HHHHHHHHHHHhcCCe
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP-SN--VAVDQLAEKISATGLK 460 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap-SN--~AvDeL~eRL~~~gl~ 460 (1021)
...++.|++|+|||+++..+...+...+. ++.+++. +. .+++++.......+++
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 5554443 43 4666766655444433
No 299
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=93.08 E-value=0.13 Score=58.64 Aligned_cols=41 Identities=29% Similarity=0.497 Sum_probs=29.8
Q ss_pred CHHHHHHHHHHhcC---CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 392 N~sQ~~AV~~al~~---~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
++...+.+..++.. +..+|.||||||||+++..++..+...
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
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=93.07 E-value=0.33 Score=55.69 Aligned_cols=27 Identities=26% Similarity=0.295 Sum_probs=22.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
...|+.||+|+|||+++..++..++-.
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 357999999999999999988877643
No 301
>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=93.05 E-value=0.081 Score=50.83 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=19.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+|.|+|||||||++.++...+
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 4799999999999999888776
No 302
>PRK11823 DNA repair protein RadA; Provisional
Probab=93.03 E-value=0.15 Score=60.84 Aligned_cols=53 Identities=26% Similarity=0.438 Sum_probs=40.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl 459 (1021)
..+++|.|+||+|||+++..++..+.+.+. ++|.++.-. ..+++..|..+.+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~-~vlYvs~Ee-s~~qi~~ra~rlg~ 132 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGG-KVLYVSGEE-SASQIKLRAERLGL 132 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEEEccc-cHHHHHHHHHHcCC
Confidence 558999999999999999999988886554 888888644 44567776655443
No 303
>PRK08939 primosomal protein DnaI; Reviewed
Probab=93.02 E-value=0.12 Score=58.58 Aligned_cols=35 Identities=29% Similarity=0.254 Sum_probs=29.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
-.+|.|++|||||+++.+++..+++.+. +++++..
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 5789999999999999999999997765 5655543
No 304
>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=93.01 E-value=0.44 Score=51.49 Aligned_cols=50 Identities=28% Similarity=0.301 Sum_probs=34.6
Q ss_pred CHHHHHHHHHHhcC-----CcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001718 392 NASQVFAVKSVLQR-----PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1021)
Q Consensus 392 N~sQ~~AV~~al~~-----~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~A 441 (1021)
|..=..|++.+... ...+|+||+|+|||+.+.++...+.+. +..+|+.+.
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 54444555544431 357899999999999999999888775 444676665
No 305
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=93.01 E-value=0.12 Score=53.66 Aligned_cols=46 Identities=26% Similarity=0.359 Sum_probs=35.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+++|.||||||||+.+..++.. . ..+++.++-....-++|.+|+.+
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 4799999999999998877654 2 34777777666666678888765
No 306
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.99 E-value=0.14 Score=62.30 Aligned_cols=54 Identities=26% Similarity=0.409 Sum_probs=43.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
..+++|.|+||||||+.+..++...++.+. +++++++... .+++.+++...+++
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~-~~~yis~e~~-~~~i~~~~~~~g~~ 326 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGE-RCLLFAFEES-RAQLIRNARSWGID 326 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCC-cEEEEEecCC-HHHHHHHHHHcCCC
Confidence 567899999999999999999988887765 8888887764 66777777666543
No 307
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=92.99 E-value=0.16 Score=59.15 Aligned_cols=52 Identities=27% Similarity=0.454 Sum_probs=40.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
..+++|.|+||+|||+++..++..+.+.+. +||.++... ..+++..|..+.+
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g~-~VlYvs~EE-s~~qi~~Ra~rlg 133 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRGG-KVLYVSGEE-SPEQIKLRADRLG 133 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcCC-eEEEEECCc-CHHHHHHHHHHcC
Confidence 568999999999999999999988887654 888887654 3456776665544
No 308
>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=92.91 E-value=0.089 Score=59.11 Aligned_cols=27 Identities=30% Similarity=0.466 Sum_probs=22.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~ 433 (1021)
..++.||||||||+++..+...+.+.+
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 578999999999999888877776653
No 309
>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=92.90 E-value=0.099 Score=57.91 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=32.4
Q ss_pred HHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 394 sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
...+.+..++. ....+|.|++||||||++..++..+-.. ..+|+++-
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 34444444433 6789999999999999998887655443 24666654
No 310
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=92.88 E-value=0.32 Score=55.62 Aligned_cols=44 Identities=14% Similarity=0.205 Sum_probs=31.1
Q ss_pred CCCEEEEECCCCCCchh--hhhhhhc---cCceEEEeCC-ccCCCceeec
Q 001718 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGD-HCQLGPVIMC 594 (1021)
Q Consensus 551 ~Fd~VIIDEAsQ~se~e--~LipL~~---~~krlILVGD-~~QLpPvv~s 594 (1021)
.+++||||||..+++.. .|+...- ....+||+.+ +.+|.|++.|
T Consensus 113 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS 162 (319)
T PRK08769 113 IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRS 162 (319)
T ss_pred CcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHh
Confidence 58899999999998743 3444432 2346888887 5678888765
No 311
>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=92.88 E-value=0.13 Score=57.86 Aligned_cols=24 Identities=42% Similarity=0.627 Sum_probs=19.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+..+|.||||||||+++..+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 348999999999999888776543
No 312
>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=92.86 E-value=0.24 Score=56.67 Aligned_cols=40 Identities=25% Similarity=0.293 Sum_probs=32.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~ 445 (1021)
..++.|.||||||||+++..++....+.+. +++.+..-+.
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 458999999999999999999988887765 6777765443
No 313
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=92.76 E-value=0.47 Score=55.90 Aligned_cols=70 Identities=20% Similarity=0.241 Sum_probs=52.9
Q ss_pred CCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHH
Q 001718 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 386 ~~~~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtT-la~iI~~L~k~-----~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
..+..+++-|...+.-+|...=+|..+--|||||.. +.-.|..+++. +.-.+|||+||..-|-++..-+.
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 345678999999999888877889999999999974 34444555554 23369999999998877765443
No 314
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.64 E-value=0.17 Score=59.90 Aligned_cols=40 Identities=25% Similarity=0.527 Sum_probs=29.1
Q ss_pred CCHHHHHHHHHHh-cCCcEEEECCCCCcHHHHHHHHHHHHH
Q 001718 391 LNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 391 LN~sQ~~AV~~al-~~~l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
..+...+.+..++ ..+..++.||||||||+++..+...+.
T Consensus 179 i~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 179 IPETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred CCHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 3455555555555 477899999999999999877766553
No 315
>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=92.57 E-value=0.2 Score=43.91 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=19.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..|.|+||+|||+++..+...|
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999998888777
No 316
>PRK06851 hypothetical protein; Provisional
Probab=92.47 E-value=0.15 Score=59.21 Aligned_cols=44 Identities=25% Similarity=0.432 Sum_probs=32.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCC-cEEEEcCcHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG-QVLVCAPSNVAVD 448 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~-rILV~ApSN~AvD 448 (1021)
.+..+|.|+||||||+++..++..+.+++.. -+.-|+.-+...|
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdslD 258 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSLD 258 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCcc
Confidence 6789999999999999999999999887652 2333444443333
No 317
>PRK04195 replication factor C large subunit; Provisional
Probab=92.46 E-value=0.14 Score=61.69 Aligned_cols=39 Identities=26% Similarity=0.405 Sum_probs=28.1
Q ss_pred CCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 391 LNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 391 LN~sQ~~AV~~al~-------~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.++.+.+.+...+. .+..||.||||||||+++..++..+
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 34555555555443 4578999999999999988776654
No 318
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.43 E-value=0.18 Score=61.38 Aligned_cols=55 Identities=16% Similarity=0.257 Sum_probs=43.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ 460 (1021)
..++||.|+||||||+.+..+++..+++...++|.++... ..+++.+++...+.+
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 5679999999999999999999887776344888887665 556777777766654
No 319
>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=92.41 E-value=0.23 Score=57.67 Aligned_cols=29 Identities=38% Similarity=0.578 Sum_probs=25.5
Q ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 404 ~~~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
..++++|.||.||||||++..++..+...
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~ 161 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEA 161 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence 37899999999999999999988877654
No 320
>PRK13768 GTPase; Provisional
Probab=92.39 E-value=0.16 Score=56.14 Aligned_cols=34 Identities=29% Similarity=0.488 Sum_probs=28.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
+.+|.|++|+||||++..++..+..++. +|+++.
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 5789999999999999999988877665 777764
No 321
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=92.39 E-value=0.02 Score=72.22 Aligned_cols=64 Identities=33% Similarity=0.435 Sum_probs=53.2
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHH
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAE 452 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~---------~~~rILV~ApSN~AvDeL~e 452 (1021)
+.-++.|..|...++...++++.|+||||||++++.++..+++. ...+|..++++++++....+
T Consensus 200 ~~~~~~r~~a~~~~~~~~~~~~~~G~~t~~~~~i~kl~~~l~~~~~~~~~~~~~~~~i~l~~~~~k~~~~~~e 272 (696)
T COG0507 200 PGNSPERIRAAALALLEEFSLISGGPGTGKTTTIAKLLLKLLEQPEIEVLKSGLAQRISLLAPTGKAALRLTE 272 (696)
T ss_pred CCCChHHHHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHHhccchhhhhHhhhHHHHHhcccchHHHHhhcc
Confidence 45578999999999989999999999999999999999888873 23478888888877766655
No 322
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=92.28 E-value=0.29 Score=57.01 Aligned_cols=64 Identities=23% Similarity=0.275 Sum_probs=42.0
Q ss_pred CHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCc--EEEEcCcHHHHHHHHHHHH
Q 001718 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQ--VLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 392 N~sQ~~AV~~al~-------~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~r--ILV~ApSN~AvDeL~eRL~ 455 (1021)
=++|.+.+..++. ....+|.|+||||||.|+..+..++....... +-|=|..+.-..++..+|.
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~ 94 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKIL 94 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHH
Confidence 3577777776653 22388999999999999999998887663322 4444444444444444443
No 323
>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=92.27 E-value=0.14 Score=53.05 Aligned_cols=25 Identities=36% Similarity=0.689 Sum_probs=21.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
.+|+|+||+||||++..++..|.+.
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 5899999999999999999887664
No 324
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.24 E-value=5.6 Score=47.35 Aligned_cols=77 Identities=22% Similarity=0.310 Sum_probs=51.5
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHH-HHHHHHHc-----CCCc-EEEEcCcHHHHHHHHHHHHh----cC
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-----GQGQ-VLVCAPSNVAVDQLAEKISA----TG 458 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~-iI~~L~k~-----~~~r-ILV~ApSN~AvDeL~eRL~~----~g 458 (1021)
+-++.|-+||-.++..+-++=.+--|+|||-..+- .+.++..+ +... -|+|+||...+-++..-..+ ++
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 34667888888888777666678899999975542 33344333 3334 56789999998887654443 46
Q ss_pred CeEEEecc
Q 001718 459 LKVVRLCA 466 (1021)
Q Consensus 459 l~ivRlg~ 466 (1021)
+.+|-++.
T Consensus 325 l~~v~~yg 332 (731)
T KOG0339|consen 325 LRVVAVYG 332 (731)
T ss_pred ceEEEeec
Confidence 66666543
No 325
>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=92.24 E-value=0.23 Score=59.52 Aligned_cols=52 Identities=25% Similarity=0.415 Sum_probs=40.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
..+++|.|+||+|||+++..++..+.+.+. +||.++.-. ..+++..|..+.+
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~-kvlYvs~EE-s~~qi~~ra~rlg 145 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQM-KVLYVSGEE-SLQQIKMRAIRLG 145 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEECcC-CHHHHHHHHHHcC
Confidence 568999999999999999999988887654 788887644 3456666655443
No 326
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=92.24 E-value=0.19 Score=50.50 Aligned_cols=34 Identities=26% Similarity=0.548 Sum_probs=27.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
++..|.|+.||||||++..++..|.+++. ++.++
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~-~v~~i 34 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGY-RVAVI 34 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEE
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCC-ceEEE
Confidence 45789999999999999999999988765 55544
No 327
>PF12846 AAA_10: AAA-like domain
Probab=92.22 E-value=0.18 Score=55.76 Aligned_cols=57 Identities=25% Similarity=0.423 Sum_probs=42.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~ 466 (1021)
++.++|.|++|+|||+++..++.+++..+. .|++.=+...-.+ +++. .+.+++.+..
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 456899999999999999999999998876 8888877755554 2222 4555665543
No 328
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.21 E-value=0.53 Score=56.60 Aligned_cols=69 Identities=22% Similarity=0.182 Sum_probs=51.6
Q ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHH-HHHHHHHHHH-c-----C-CCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAK-Q-----G-QGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtT-la~iI~~L~k-~-----~-~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+++-|...+-.++...=.+..+--|||||.- +.=+|.+|.+ + + ...+||++||...|.++.+-..+.
T Consensus 112 ~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 112 EKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 456788988888888877788889999999963 2334444544 1 1 236999999999999988876654
No 329
>PHA00729 NTP-binding motif containing protein
Probab=92.16 E-value=0.12 Score=56.00 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=21.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
..+|.|+||||||+++..++..+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 478999999999999999887764
No 330
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=92.15 E-value=0.2 Score=63.20 Aligned_cols=39 Identities=31% Similarity=0.492 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhc--------CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 393 ASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 393 ~sQ~~AV~~al~--------~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
+.|.+.|..++. ..+.+|.|+||||||.|+..++..|..
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 566666666553 123469999999999999998877754
No 331
>CHL00181 cbbX CbbX; Provisional
Probab=92.11 E-value=0.13 Score=57.83 Aligned_cols=26 Identities=31% Similarity=0.394 Sum_probs=21.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
..|+.||||||||+++..+...+...
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 37899999999999998887776554
No 332
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=92.05 E-value=0.54 Score=53.65 Aligned_cols=27 Identities=26% Similarity=0.576 Sum_probs=23.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
+..|+.||+|+||++++..++..|+-.
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 333
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=92.00 E-value=0.33 Score=54.90 Aligned_cols=39 Identities=31% Similarity=0.453 Sum_probs=27.4
Q ss_pred CCHHHHHHHHHHhcC----CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 391 LNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 391 LN~sQ~~AV~~al~~----~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.++...+.+...+.+ .+.++.||||||||+++..+...+
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV 67 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence 455555666655542 356679999999999988776654
No 334
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=91.97 E-value=0.6 Score=51.16 Aligned_cols=58 Identities=21% Similarity=0.302 Sum_probs=37.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH-HHHHHHHHHHHhcCCeEEE
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN-VAVDQLAEKISATGLKVVR 463 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN-~AvDeL~eRL~~~gl~ivR 463 (1021)
...+|++|..|||||+++..++..+...+- |++=+.... .....|.+.|.....+.+-
T Consensus 52 annvLL~G~rGtGKSSlVkall~~y~~~GL-RlIev~k~~L~~l~~l~~~l~~~~~kFIl 110 (249)
T PF05673_consen 52 ANNVLLWGARGTGKSSLVKALLNEYADQGL-RLIEVSKEDLGDLPELLDLLRDRPYKFIL 110 (249)
T ss_pred CcceEEecCCCCCHHHHHHHHHHHHhhcCc-eEEEECHHHhccHHHHHHHHhcCCCCEEE
Confidence 356899999999999999998888777663 544444333 2334455555544444443
No 335
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.90 E-value=0.27 Score=61.91 Aligned_cols=54 Identities=28% Similarity=0.356 Sum_probs=38.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH-cCCCcEEEEc-CcHH--HHHHHHHHHHhcCC
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCA-PSNV--AVDQLAEKISATGL 459 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k-~~~~rILV~A-pSN~--AvDeL~eRL~~~gl 459 (1021)
.++++.||.|+|||||++.+...+.. .+..+|.+++ .+-. |++++..-....++
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gv 243 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGV 243 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCC
Confidence 47889999999999999999987754 4444775554 3444 66777665444444
No 336
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=91.84 E-value=0.21 Score=57.20 Aligned_cols=24 Identities=42% Similarity=0.649 Sum_probs=20.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+..+|.||||||||+++..++..+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 468999999999999988776654
No 337
>PRK13531 regulatory ATPase RavA; Provisional
Probab=91.82 E-value=0.22 Score=59.61 Aligned_cols=32 Identities=19% Similarity=0.469 Sum_probs=25.3
Q ss_pred HHHHhcCCcEEEECCCCCcHHHHHHHHHHHHH
Q 001718 399 VKSVLQRPISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 399 V~~al~~~l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
+..++.+...||.||||||||+++..+...+.
T Consensus 33 l~aalag~hVLL~GpPGTGKT~LAraLa~~~~ 64 (498)
T PRK13531 33 LLAALSGESVFLLGPPGIAKSLIARRLKFAFQ 64 (498)
T ss_pred HHHHccCCCEEEECCCChhHHHHHHHHHHHhc
Confidence 34445688999999999999999887776553
No 338
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=91.81 E-value=0.13 Score=53.21 Aligned_cols=23 Identities=35% Similarity=0.647 Sum_probs=19.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+.+|.|||||||||.+..++..+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 36899999999999988776644
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=91.79 E-value=0.2 Score=53.46 Aligned_cols=36 Identities=28% Similarity=0.339 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHH
Q 001718 393 ASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 393 ~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~ 428 (1021)
+.-+.|+.-+.. ..-.||.||||||||+++..+...
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 345566655544 567899999999999977665543
No 340
>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=91.71 E-value=0.14 Score=52.89 Aligned_cols=25 Identities=36% Similarity=0.509 Sum_probs=21.2
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.++.+|.|||||||||++..++..+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4678999999999999988887654
No 341
>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=91.70 E-value=0.18 Score=55.48 Aligned_cols=33 Identities=36% Similarity=0.633 Sum_probs=25.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
.=|+||||.||+|++-+++..+.+.+. +|-|+|
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 448999999999999999999988765 666654
No 342
>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=91.70 E-value=0.16 Score=48.44 Aligned_cols=24 Identities=33% Similarity=0.657 Sum_probs=21.1
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHc
Q 001718 409 LIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
.|.|+||+|||+++..++..|++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKH 25 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHH
Confidence 689999999999999988887764
No 343
>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=91.67 E-value=0.22 Score=56.43 Aligned_cols=36 Identities=31% Similarity=0.425 Sum_probs=29.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
..+..|.|+||+||||++..++..+.+.+. +|.+++
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~~~-~v~~i~ 69 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELRRRGL-KVAVIA 69 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEe
Confidence 456788999999999999999988877654 777655
No 344
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.66 E-value=0.21 Score=59.96 Aligned_cols=36 Identities=28% Similarity=0.468 Sum_probs=28.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~A 441 (1021)
.++++.||.|+|||||++.+...+... +..+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 478899999999999999999887544 444676554
No 345
>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=91.60 E-value=0.26 Score=50.39 Aligned_cols=35 Identities=26% Similarity=0.346 Sum_probs=28.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApS 443 (1021)
..|.|++|||||+++..++..|..++. +|.++-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~-~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGY-RVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEEecc
Confidence 568899999999999999998876653 88777654
No 346
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=91.58 E-value=0.14 Score=52.41 Aligned_cols=22 Identities=36% Similarity=0.650 Sum_probs=18.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..|.|||||||||++..+..++
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999988887765
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=91.51 E-value=0.27 Score=49.79 Aligned_cols=33 Identities=33% Similarity=0.509 Sum_probs=27.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
..+.|++|+|||+++..+...+...+. +++++.
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 567899999999999999988877665 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=91.49 E-value=0.34 Score=57.09 Aligned_cols=36 Identities=25% Similarity=0.251 Sum_probs=28.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcC-CCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~-~~rILV~A 441 (1021)
+..+|.||+|||||+++..+...+.+.. ..+|+.+.
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 3578999999999999999988887763 34676664
No 349
>PRK09354 recA recombinase A; Provisional
Probab=91.49 E-value=0.41 Score=55.19 Aligned_cols=42 Identities=21% Similarity=0.238 Sum_probs=32.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~Av 447 (1021)
..+++|.||||||||+++..++....+.+. +++.+..-+..-
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~-~~~yId~E~s~~ 101 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGG-TAAFIDAEHALD 101 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEECCccchH
Confidence 458999999999999999999988877764 666666554433
No 350
>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=91.45 E-value=0.33 Score=51.99 Aligned_cols=40 Identities=25% Similarity=0.331 Sum_probs=30.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-----CCcEEEEcCcH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~-----~~rILV~ApSN 444 (1021)
..++.|.|+||+|||+++..++...+..+ ..+++.++.-+
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 56899999999999999999988776554 14666655433
No 351
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=91.40 E-value=1.6 Score=51.78 Aligned_cols=61 Identities=21% Similarity=0.328 Sum_probs=42.0
Q ss_pred CHHHHHH---HHHHhc-CCcEEEECCCCCcHHHHHHHHH-HHHHHc--CCCcEEEEcCcHHHHHHHHH
Q 001718 392 NASQVFA---VKSVLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQ--GQGQVLVCAPSNVAVDQLAE 452 (1021)
Q Consensus 392 N~sQ~~A---V~~al~-~~l~LIqGPPGTGKTtTla~iI-~~L~k~--~~~rILV~ApSN~AvDeL~e 452 (1021)
=++|.+- ++.+|. ++..|+-=|.|||||..+..+| .+.+.. ...|++.|+.|-.-++...+
T Consensus 18 YPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~ 85 (755)
T KOG1131|consen 18 YPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALE 85 (755)
T ss_pred CHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHH
Confidence 3566554 445554 7899999999999999886665 333333 34589999998765554443
No 352
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=91.30 E-value=0.32 Score=50.87 Aligned_cols=36 Identities=28% Similarity=0.442 Sum_probs=29.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
.+.+|.||=++|||+-+..++..+...+. ++++.-|
T Consensus 2 ~l~~i~GpM~sGKS~eLi~~~~~~~~~~~-~v~~~kp 37 (176)
T PF00265_consen 2 KLEFITGPMFSGKSTELIRRIHRYEIAGK-KVLVFKP 37 (176)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEEE
T ss_pred EEEEEECCcCChhHHHHHHHHHHHHhCCC-eEEEEEe
Confidence 36799999999999999999988766654 7887765
No 353
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=91.29 E-value=0.22 Score=57.79 Aligned_cols=22 Identities=45% Similarity=0.783 Sum_probs=18.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.||.||||||||+++..++..+
T Consensus 159 vLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 159 VLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred EEEECCCCCCHHHHHHHHHHhC
Confidence 7899999999999888776644
No 354
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=91.24 E-value=0.25 Score=60.07 Aligned_cols=25 Identities=36% Similarity=0.650 Sum_probs=20.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..+.|+.||||||||+|+..+...|
T Consensus 45 ~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 45 KRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999999999987776665
No 355
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=91.10 E-value=0.27 Score=57.70 Aligned_cols=23 Identities=43% Similarity=0.684 Sum_probs=19.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
-.||.||||||||+++..+...+
T Consensus 167 gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred ceEEECCCCCChHHHHHHHHHHh
Confidence 37899999999999887776543
No 356
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=91.09 E-value=0.74 Score=56.98 Aligned_cols=151 Identities=23% Similarity=0.280 Sum_probs=88.6
Q ss_pred CCCHHHHHHHHHHh---cCCcEEEE-CCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 001718 390 ELNASQVFAVKSVL---QRPISLIQ-GPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al---~~~l~LIq-GPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRl 464 (1021)
.|-+-|.--|.-.+ ...+.-|. --=|=|||--+++.++.|... .+++-||++|+-.-=+-++| +.+....+ ++
T Consensus 399 ~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleNWlrE-f~kwCPsl-~V 476 (941)
T KOG0389|consen 399 QLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLENWLRE-FAKWCPSL-KV 476 (941)
T ss_pred cccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhHHHHHHH-HHHhCCce-EE
Confidence 47788887776643 35554444 467999998887777777766 35578999998654444433 44332111 11
Q ss_pred ccccccccCCcchhhhHHHHHhhccchhHHHHHHHHHhhhhhccCChhHHHHHHHHHHHHHHHHhhccceeeecccccCC
Q 001718 465 CAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGD 544 (1021)
Q Consensus 465 g~~sre~i~~~~~~l~l~~~i~~l~~~~~~~l~kl~~lk~~~~~ls~~~~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~ 544 (1021)
.. ++ . + .++ .+.++.... .--..++|+++|-..++.
T Consensus 477 e~--------------Yy------G--------------------S-q~E--R~~lR~~i~-~~~~~ydVllTTY~la~~ 512 (941)
T KOG0389|consen 477 EP--------------YY------G--------------------S-QDE--RRELRERIK-KNKDDYDVLLTTYNLAAS 512 (941)
T ss_pred Ee--------------cc------C--------------------c-HHH--HHHHHHHHh-ccCCCccEEEEEeecccC
Confidence 00 00 0 0 000 001111111 111268999999776554
Q ss_pred C-----CcccCCCCEEEEECCCCCCc-----hhhhhhhhccCceEEEeCCccC
Q 001718 545 P-----RLANFRFRQVLIDESTQATE-----PECLIPLVLGAKQVVLVGDHCQ 587 (1021)
Q Consensus 545 ~-----~L~~~~Fd~VIIDEAsQ~se-----~e~LipL~~~~krlILVGD~~Q 587 (1021)
. .+++.+|++||.||+-++-. ..-|+.+. ...|++|-|=|-|
T Consensus 513 ~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~-An~RlLLTGTPLQ 564 (941)
T KOG0389|consen 513 SKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSIN-ANFRLLLTGTPLQ 564 (941)
T ss_pred ChHHHHHHHhccccEEEecchhhhhccchHHHHHhcccc-ccceEEeeCCccc
Confidence 2 36778999999999987654 12244432 4569999999999
No 357
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=91.08 E-value=0.22 Score=51.77 Aligned_cols=47 Identities=26% Similarity=0.340 Sum_probs=33.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..+|.||||||||+.+..++..+ + .+++.++.....-+++.+|+..+
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~-~~~~~iat~~~~~~e~~~ri~~h 49 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---G-LQVLYIATAQPFDDEMAARIAHH 49 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---C-CCcEeCcCCCCChHHHHHHHHHH
Confidence 57999999999999987776543 2 25666665555566788887543
No 358
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=91.06 E-value=4 Score=52.51 Aligned_cols=56 Identities=27% Similarity=0.504 Sum_probs=45.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH---HHHHHHHhcC---CeEEEe
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATG---LKVVRL 464 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD---eL~eRL~~~g---l~ivRl 464 (1021)
-+|-|-.|||||+.+.+-+...++.+ .+|..++|+-..-. ++++++...| +.|.|+
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 47889999999999999999998888 49999999887664 6777777666 455554
No 359
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=91.03 E-value=0.29 Score=53.31 Aligned_cols=50 Identities=22% Similarity=0.394 Sum_probs=37.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH-----------cCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK-----------QGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k-----------~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
+.+|.||||+|||+++..++..+.. ....+||+++-=..+ +++.+|+...
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~i 63 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEAI 63 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHHH
Confidence 6799999999999999999887653 134578888854433 4677777654
No 360
>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=90.98 E-value=0.27 Score=59.51 Aligned_cols=24 Identities=42% Similarity=0.707 Sum_probs=20.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
-.|+.||||||||+++..++..|.
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhhc
Confidence 479999999999998888877664
No 361
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=90.95 E-value=0.24 Score=42.76 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=22.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
++++|.|+.|+||||++-++...|.-
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 48999999999999999888776653
No 362
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=90.92 E-value=0.26 Score=56.18 Aligned_cols=20 Identities=50% Similarity=0.878 Sum_probs=16.3
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVY 427 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~ 427 (1021)
+|+.||||||||..+.+.+.
T Consensus 188 VLLYGPPGTGKTLLAkAVA~ 207 (406)
T COG1222 188 VLLYGPPGTGKTLLAKAVAN 207 (406)
T ss_pred eEeeCCCCCcHHHHHHHHHh
Confidence 79999999999987655543
No 363
>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=90.91 E-value=0.32 Score=51.98 Aligned_cols=32 Identities=34% Similarity=0.469 Sum_probs=27.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
..|.|..|+||||+.+.++..|.+.++ +||++
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~-rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGK-KVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCC-cEEEE
Confidence 445699999999999999999998876 88887
No 364
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=90.90 E-value=0.29 Score=56.18 Aligned_cols=34 Identities=38% Similarity=0.502 Sum_probs=28.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
+.-|.|+||+||||++..++..+...+. +|.|++
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~-~v~vi~ 91 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQGH-KVAVLA 91 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEE
Confidence 4668999999999999999988876654 666665
No 365
>PRK08233 hypothetical protein; Provisional
Probab=90.85 E-value=0.17 Score=52.14 Aligned_cols=24 Identities=25% Similarity=0.343 Sum_probs=20.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+..|.|+|||||||++..++.+|
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 457789999999999988877665
No 366
>PRK13342 recombination factor protein RarA; Reviewed
Probab=90.77 E-value=0.35 Score=57.22 Aligned_cols=24 Identities=38% Similarity=0.562 Sum_probs=19.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+..+|+||||||||+++..+...+
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~~ 60 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGAT 60 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 357889999999999887776543
No 367
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=90.77 E-value=0.22 Score=52.86 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=23.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~ 433 (1021)
++.+++|+||+||||.+.+++..|-+..
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i 29 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEI 29 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence 4678999999999999999988776654
No 368
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=90.73 E-value=0.34 Score=54.61 Aligned_cols=39 Identities=36% Similarity=0.532 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhcC---CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 393 ASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 393 ~sQ~~AV~~al~~---~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
+.+.+.+...+.. +..+|+||||||||+++..+...+..
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~ 64 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYG 64 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcC
Confidence 3455555555542 35799999999999999888777643
No 369
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=90.70 E-value=0.28 Score=50.26 Aligned_cols=26 Identities=35% Similarity=0.590 Sum_probs=22.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcC
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~ 433 (1021)
..|+|+||+||||++..++..|...+
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g 33 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKG 33 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcC
Confidence 57999999999999999988777664
No 370
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=90.68 E-value=0.39 Score=46.68 Aligned_cols=44 Identities=34% Similarity=0.515 Sum_probs=31.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
.+++|.+|+|||++...+..++.+.+. +|+++---- +.+.+++.
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~-~V~~id~D~---~~~~~~~~ 45 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGK-PVLAIDADP---DDLPERLS 45 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEECCc---hhhHHHHh
Confidence 579999999999999999988877655 665443222 55555554
No 371
>PRK05541 adenylylsulfate kinase; Provisional
Probab=90.64 E-value=0.33 Score=50.14 Aligned_cols=29 Identities=24% Similarity=0.307 Sum_probs=23.9
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCC
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~ 434 (1021)
.+.+|.|+||+||||++..+...|.....
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l~~~~~ 36 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLKLKYS 36 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 46789999999999999888888765544
No 372
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=90.62 E-value=0.32 Score=57.87 Aligned_cols=23 Identities=39% Similarity=0.678 Sum_probs=19.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
-.||.||||||||+++..+...+
T Consensus 219 gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 219 GVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 47899999999999988776643
No 373
>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=90.62 E-value=0.28 Score=53.75 Aligned_cols=40 Identities=25% Similarity=0.560 Sum_probs=31.2
Q ss_pred HhcCCc-EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 402 VLQRPI-SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 402 al~~~l-~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
++..++ .+|.|++|||||+++..+++.+...- ..|.++++
T Consensus 9 l~~~~fr~viIG~sGSGKT~li~~lL~~~~~~f-~~I~l~t~ 49 (241)
T PF04665_consen 9 LLKDPFRMVIIGKSGSGKTTLIKSLLYYLRHKF-DHIFLITP 49 (241)
T ss_pred hcCCCceEEEECCCCCCHHHHHHHHHHhhcccC-CEEEEEec
Confidence 344554 67999999999999999998876654 47888776
No 374
>PRK08118 topology modulation protein; Reviewed
Probab=90.58 E-value=0.21 Score=51.53 Aligned_cols=22 Identities=18% Similarity=0.394 Sum_probs=17.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+|.||||+||||++..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5899999999999776666543
No 375
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=90.57 E-value=1.2 Score=52.16 Aligned_cols=51 Identities=22% Similarity=0.312 Sum_probs=32.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCC-CcEEEEc--CcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCA--PSNVAVDQLAEKIS 455 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~-~rILV~A--pSN~AvDeL~eRL~ 455 (1021)
....+|.||||+|||+++..+...+..... ..+.|+. ....-+.+|.+.+.
T Consensus 168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIl 221 (415)
T TIGR00767 168 GQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVK 221 (415)
T ss_pred CCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHhh
Confidence 567899999999999987776666554421 1232222 22245666666654
No 376
>smart00350 MCM minichromosome maintenance proteins.
Probab=90.57 E-value=4 Score=49.76 Aligned_cols=21 Identities=29% Similarity=0.319 Sum_probs=17.6
Q ss_pred cEEEECCCCCcHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVY 427 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~ 427 (1021)
..||.|+||||||+++..+..
T Consensus 238 ~vLL~G~pGtGKs~lar~l~~ 258 (509)
T smart00350 238 NILLLGDPGTAKSQLLKYVEK 258 (509)
T ss_pred eEEEeCCCChhHHHHHHHHHH
Confidence 589999999999998766554
No 377
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=90.51 E-value=1.2 Score=45.98 Aligned_cols=24 Identities=29% Similarity=0.520 Sum_probs=20.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
...+|.|-||+||||++......+
T Consensus 5 kvvvitGVpGvGKTTVl~~~~~~l 28 (189)
T COG2019 5 KVVVITGVPGVGKTTVLKIALKEL 28 (189)
T ss_pred eEEEEEcCCCCChHHHHHHHHHHH
Confidence 467899999999999987776665
No 378
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.49 E-value=0.42 Score=54.98 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=28.6
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEE
Q 001718 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1021)
Q Consensus 397 ~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV 439 (1021)
+.+..++. ....+|.|++||||||++..++..+-. ..+|++
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 34444443 678999999999999999887765522 235544
No 379
>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=90.42 E-value=0.21 Score=50.04 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=18.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~ 428 (1021)
+.+|.|+||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4689999999999988877654
No 380
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.41 E-value=0.27 Score=59.13 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=20.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
.|++||||||||+++..++..+..
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcc
Confidence 689999999999998888776643
No 381
>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=90.40 E-value=0.2 Score=54.93 Aligned_cols=29 Identities=28% Similarity=0.593 Sum_probs=20.6
Q ss_pred EECCCCCcHHHHHHHHHHHHHHcCCCcEEE
Q 001718 410 IQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (1021)
Q Consensus 410 IqGPPGTGKTtTla~iI~~L~k~~~~rILV 439 (1021)
|.||||+||||.+..+..++...+. ++.+
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~-~~~~ 29 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGR-DVYI 29 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S--EEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccC-CceE
Confidence 6899999999999888887755443 4433
No 382
>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=90.39 E-value=0.38 Score=50.25 Aligned_cols=33 Identities=27% Similarity=0.439 Sum_probs=24.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
+..|.|++||||||++..++..+...+. ++.++
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~-~~~~i 33 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGI-GPVVI 33 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEE
Confidence 3679999999999999888877765443 44443
No 383
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.38 E-value=0.79 Score=54.52 Aligned_cols=68 Identities=22% Similarity=0.259 Sum_probs=52.6
Q ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHcCC-------CcEEEEcCcHHHHHHHHHHHHhc
Q 001718 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQ-------GQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~~l~LIqGPPGTGKTtTl-a~iI~~L~k~~~-------~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
.++.-|+++|=.+|..+=+||.+.-|||||-.= .-+|..|..... .=-||++||...+-++.+-+.+.
T Consensus 159 ~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKL 234 (708)
T KOG0348|consen 159 APTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKL 234 (708)
T ss_pred ccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHH
Confidence 567889999999999888999999999999753 345555555422 13799999999998887765543
No 384
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=90.35 E-value=0.34 Score=52.22 Aligned_cols=37 Identities=27% Similarity=0.334 Sum_probs=27.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHc----CCCcEEEEcCcH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQ----GQGQVLVCAPSN 444 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~----~~~rILV~ApSN 444 (1021)
+||.||||+||||.+..++..+... .+.||.++--++
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 7999999999999999988776544 344666655444
No 385
>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=90.32 E-value=0.39 Score=51.77 Aligned_cols=40 Identities=20% Similarity=0.239 Sum_probs=29.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-----CCcEEEEcCcH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~-----~~rILV~ApSN 444 (1021)
..++.|.|+||||||+.+..++....... ..+++.++.-+
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 56789999999999999999987654332 24566655433
No 386
>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=90.32 E-value=0.36 Score=52.98 Aligned_cols=33 Identities=21% Similarity=0.518 Sum_probs=25.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
+.+|.|+|||||||.+..+..++-..+. ++.++
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 4689999999999999999888765443 44444
No 387
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.29 E-value=0.29 Score=56.89 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=20.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
..|+.||||||||+++..++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 368999999999999888887664
No 388
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=90.28 E-value=0.22 Score=50.80 Aligned_cols=21 Identities=38% Similarity=0.515 Sum_probs=16.1
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.+|.|+|||||||++..+..+
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 389
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=90.27 E-value=0.11 Score=57.04 Aligned_cols=67 Identities=28% Similarity=0.303 Sum_probs=54.1
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHhcC
Q 001718 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISATG 458 (1021)
Q Consensus 392 N~sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~--~~rILV~ApSN~AvDeL~eRL~~~g 458 (1021)
+.-|+.||..++...-++.|+-.|||||.+..--+.+-++.. ..++|+++||...+-++.+-+...+
T Consensus 51 S~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg 119 (400)
T KOG0328|consen 51 SAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALG 119 (400)
T ss_pred hHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhc
Confidence 567999999999988899999999999988665554444432 2479999999999999988877653
No 390
>PRK12608 transcription termination factor Rho; Provisional
Probab=90.25 E-value=0.36 Score=56.02 Aligned_cols=51 Identities=25% Similarity=0.318 Sum_probs=37.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCC---cEEEEcCcHHHHHHHHHHHHh
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQG---QVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~---rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.-.+|.||||||||+++..++..+..+.+. -++++.....-+.++.+.+..
T Consensus 134 QR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~ 187 (380)
T PRK12608 134 QRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKG 187 (380)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhh
Confidence 346999999999999999999888776322 355566666667777776643
No 391
>PHA02244 ATPase-like protein
Probab=90.20 E-value=0.41 Score=55.51 Aligned_cols=32 Identities=16% Similarity=0.302 Sum_probs=23.8
Q ss_pred HHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHH
Q 001718 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 397 ~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~ 428 (1021)
..+..++. ....+|.||||||||+++..+...
T Consensus 110 ~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 110 ADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 34444444 456889999999999998887765
No 392
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=90.14 E-value=2.2 Score=53.67 Aligned_cols=56 Identities=25% Similarity=0.392 Sum_probs=43.8
Q ss_pred CCCHHHHHHHHHHhcC----------CcEEEECCCCCcHHHHHHHHHHHHHHc-CC-----CcEEEEcCcHH
Q 001718 390 ELNASQVFAVKSVLQR----------PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQ-----GQVLVCAPSNV 445 (1021)
Q Consensus 390 ~LN~sQ~~AV~~al~~----------~l~LIqGPPGTGKTtTla~iI~~L~k~-~~-----~rILV~ApSN~ 445 (1021)
.|=+.|++.|+....+ .=+++.=-||+|||.....+++.++++ +. .+.||+||+--
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sL 309 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSL 309 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHH
Confidence 4678899999886531 115566689999999999999999988 44 58999999754
No 393
>PRK00889 adenylylsulfate kinase; Provisional
Probab=90.10 E-value=0.42 Score=49.32 Aligned_cols=34 Identities=26% Similarity=0.341 Sum_probs=26.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
.+.+|.|+||+||||++..+...+...+. +++++
T Consensus 5 ~~i~~~G~~GsGKST~a~~la~~l~~~g~-~v~~i 38 (175)
T PRK00889 5 VTVWFTGLSGAGKTTIARALAEKLREAGY-PVEVL 38 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 46789999999999999999887765443 55554
No 394
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=90.08 E-value=0.31 Score=51.35 Aligned_cols=53 Identities=21% Similarity=0.346 Sum_probs=37.0
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC---cHHHHHHHHHHHHhcCCeEEEec
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP---SNVAVDQLAEKISATGLKVVRLC 465 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap---SN~AvDeL~eRL~~~gl~ivRlg 465 (1021)
.-|-||||+|||+++..++..|.++ .++.|++. |+.=++.+.+. .+.+++.+.
T Consensus 16 i~v~Gp~GSGKTaLie~~~~~L~~~--~~~aVI~~Di~t~~Da~~l~~~---~g~~i~~v~ 71 (202)
T COG0378 16 IGVGGPPGSGKTALIEKTLRALKDE--YKIAVITGDIYTKEDADRLRKL---PGEPIIGVE 71 (202)
T ss_pred EEecCCCCcCHHHHHHHHHHHHHhh--CCeEEEeceeechhhHHHHHhC---CCCeeEEec
Confidence 4478999999999999999998776 47777763 54444433332 666666553
No 395
>PRK14530 adenylate kinase; Provisional
Probab=90.04 E-value=0.26 Score=52.74 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=20.6
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+..+|.|||||||||++..+...+
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHh
Confidence 4467899999999999988877655
No 396
>PTZ00301 uridine kinase; Provisional
Probab=89.97 E-value=0.42 Score=51.37 Aligned_cols=27 Identities=30% Similarity=0.457 Sum_probs=22.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
-+..|.||+||||||++..++..|...
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~~ 30 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMAH 30 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence 356799999999999998888777654
No 397
>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=89.92 E-value=0.18 Score=49.90 Aligned_cols=22 Identities=36% Similarity=0.671 Sum_probs=15.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.||.|+||+|||+++..++..+
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 6899999999999887766543
No 398
>PRK03839 putative kinase; Provisional
Probab=89.91 E-value=0.27 Score=51.02 Aligned_cols=22 Identities=36% Similarity=0.582 Sum_probs=18.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+|.|+||+||||+...+...+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999877766654
No 399
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=89.88 E-value=0.85 Score=51.34 Aligned_cols=72 Identities=19% Similarity=0.239 Sum_probs=43.8
Q ss_pred CHHHHHHHHHHhc-C--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 001718 392 NASQVFAVKSVLQ-R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (1021)
Q Consensus 392 N~sQ~~AV~~al~-~--~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~gl~ivRlg~ 466 (1021)
|+...+..+..+. . .+.-|.|+||+||||++..++..|... .++.|+.---... +=.+||...+.+++.+..
T Consensus 88 n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~--~~~~VI~gD~~t~-~Da~rI~~~g~pvvqi~t 162 (290)
T PRK10463 88 NNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS--VPCAVIEGDQQTV-NDAARIRATGTPAIQVNT 162 (290)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC--CCEEEECCCcCcH-HHHHHHHhcCCcEEEecC
Confidence 4444444444443 2 245589999999999999999877543 2555554211111 125567777777776643
No 400
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=89.84 E-value=0.42 Score=54.71 Aligned_cols=45 Identities=29% Similarity=0.497 Sum_probs=31.6
Q ss_pred HhcCCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 001718 402 VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (1021)
Q Consensus 402 al~~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD 448 (1021)
.+..+..|+.||||||||+.+..++..+- .+-..+-|++.-.+.|
T Consensus 40 ~~~~~~vll~G~PG~gKT~la~~lA~~l~--~~~~~i~~t~~l~p~d 84 (329)
T COG0714 40 LLAGGHVLLEGPPGVGKTLLARALARALG--LPFVRIQCTPDLLPSD 84 (329)
T ss_pred HHcCCCEEEECCCCccHHHHHHHHHHHhC--CCeEEEecCCCCCHHH
Confidence 34588999999999999998888777653 2224455555554544
No 401
>PRK06762 hypothetical protein; Provisional
Probab=89.82 E-value=0.28 Score=50.04 Aligned_cols=40 Identities=23% Similarity=0.485 Sum_probs=27.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL 454 (1021)
.+.+|.|+|||||||++..+...+ +. .+.++. .|.+...+
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 367899999999999988877666 32 444443 36665543
No 402
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=89.79 E-value=0.24 Score=59.20 Aligned_cols=27 Identities=33% Similarity=0.577 Sum_probs=22.5
Q ss_pred hcCCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 403 LQRPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 403 l~~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+..++.||+||+|+|||||+..+...|
T Consensus 108 l~~~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 108 LGSRILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred CCceEEEEeCCCCCCchhHHHHHHHhh
Confidence 446799999999999999987776554
No 403
>PRK00131 aroK shikimate kinase; Reviewed
Probab=89.76 E-value=0.3 Score=49.72 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=21.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
....+|.|+||||||+++..+...|
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 3467899999999999988887765
No 404
>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=89.64 E-value=0.42 Score=50.32 Aligned_cols=32 Identities=31% Similarity=0.547 Sum_probs=23.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
+..|.||+|+||||++..+...+ ...++.++.
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l---~~~~~~v~~ 32 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL---GNPKVVIIS 32 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh---CCCCeEEEE
Confidence 36799999999999998877665 223555544
No 405
>PRK14531 adenylate kinase; Provisional
Probab=89.63 E-value=0.29 Score=51.12 Aligned_cols=23 Identities=35% Similarity=0.551 Sum_probs=18.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..+|.|||||||||....++..+
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 46899999999999977776553
No 406
>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=89.63 E-value=0.52 Score=47.03 Aligned_cols=25 Identities=24% Similarity=0.466 Sum_probs=22.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..+.++.|+.|+|||+.+..++..|
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 4588999999999999998888776
No 407
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=89.60 E-value=0.36 Score=54.03 Aligned_cols=34 Identities=32% Similarity=0.490 Sum_probs=28.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
..=|+|+||.||+|++-.++..|...+. +|-|+|
T Consensus 53 viGITG~PGaGKSTli~~L~~~l~~~G~-rVaVlA 86 (323)
T COG1703 53 VIGITGVPGAGKSTLIEALGRELRERGH-RVAVLA 86 (323)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHHCCc-EEEEEE
Confidence 4559999999999999999999988876 766665
No 408
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=89.57 E-value=0.4 Score=56.89 Aligned_cols=25 Identities=40% Similarity=0.695 Sum_probs=21.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
+.|.|||||||||++..++..+.++
T Consensus 72 vavvGPpGtGKsTLirSlVrr~tk~ 96 (1077)
T COG5192 72 VAVVGPPGTGKSTLIRSLVRRFTKQ 96 (1077)
T ss_pred EEeecCCCCChhHHHHHHHHHHHHh
Confidence 3489999999999999999887664
No 409
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=89.53 E-value=1.3 Score=56.26 Aligned_cols=47 Identities=23% Similarity=0.269 Sum_probs=34.2
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+.+-.-|+|||.+++..++.....+. .|-|+|+|..-|.+-.+.+..
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 55668999999987655543333344 799999999988877776654
No 410
>PRK06620 hypothetical protein; Validated
Probab=89.51 E-value=0.26 Score=53.03 Aligned_cols=19 Identities=37% Similarity=0.522 Sum_probs=16.4
Q ss_pred CcEEEECCCCCcHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAA 424 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~ 424 (1021)
+..+|+||||||||+++..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3479999999999998875
No 411
>PRK07667 uridine kinase; Provisional
Probab=89.51 E-value=0.48 Score=50.02 Aligned_cols=36 Identities=25% Similarity=0.257 Sum_probs=26.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApS 443 (1021)
+..|.|+||+||||++..+...|-+.+. ++.++..-
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~-~~~~i~~D 54 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGI-PFHIFHID 54 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEEcC
Confidence 5679999999999999888877765544 55555433
No 412
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=89.50 E-value=0.7 Score=55.40 Aligned_cols=78 Identities=28% Similarity=0.362 Sum_probs=56.7
Q ss_pred CCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHH-HHHHHHHHcCCCcEEEEcCcHHH----HHHHHHHHHhcCCeE
Q 001718 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNVA----VDQLAEKISATGLKV 461 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla-~iI~~L~k~~~~rILV~ApSN~A----vDeL~eRL~~~gl~i 461 (1021)
..+|-+-|..||+.-|- ..-.+|.-+-+||||.+.- +=|..++..+ ++.|.+.|--.. -+++.+|..+.++++
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 46789999999999765 4556777889999998652 2244555544 488888775444 467888888888886
Q ss_pred -EEecc
Q 001718 462 -VRLCA 466 (1021)
Q Consensus 462 -vRlg~ 466 (1021)
+|+|.
T Consensus 293 airVG~ 298 (830)
T COG1202 293 AIRVGM 298 (830)
T ss_pred EEEech
Confidence 77764
No 413
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=89.49 E-value=0.29 Score=50.56 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=20.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+.+|.||+|+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 367899999999999998776654
No 414
>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=89.46 E-value=0.28 Score=51.10 Aligned_cols=21 Identities=33% Similarity=0.697 Sum_probs=17.7
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.+|.|||||||||++..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988777654
No 415
>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=89.34 E-value=0.55 Score=55.87 Aligned_cols=51 Identities=20% Similarity=0.226 Sum_probs=39.8
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
..+++|.|+||+|||+.+..++.+++.....+|++.+.-.. .+++.+|+..
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 45899999999999999999999887654458988887654 4456666654
No 416
>PRK13764 ATPase; Provisional
Probab=89.33 E-value=0.68 Score=57.08 Aligned_cols=27 Identities=33% Similarity=0.461 Sum_probs=23.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
....||.|||||||||++..++.++..
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~ 283 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYAD 283 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 567899999999999999998887754
No 417
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=89.28 E-value=1 Score=56.47 Aligned_cols=62 Identities=23% Similarity=0.292 Sum_probs=50.4
Q ss_pred CHHHHHHHHHHhc---C--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 392 NASQVFAVKSVLQ---R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 392 N~sQ~~AV~~al~---~--~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
.-.|-.|++.... . ...+|.|..|||||.|++.++..+ +.++||+|++...|.+|.+-|...
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 5678888887653 2 256799999999999999877653 348999999999999999988765
No 418
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=89.28 E-value=1.6 Score=55.64 Aligned_cols=43 Identities=26% Similarity=0.274 Sum_probs=30.7
Q ss_pred CCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 413 PPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
.-|.|||.+++..++..+..+ ..|.|+|+|...|..=.+.+..
T Consensus 103 ~TGEGKTLvA~l~a~l~al~G-~~VhvvT~ndyLA~RD~e~m~~ 145 (913)
T PRK13103 103 RTGEGKTLVGTLAVYLNALSG-KGVHVVTVNDYLARRDANWMRP 145 (913)
T ss_pred cCCCCChHHHHHHHHHHHHcC-CCEEEEeCCHHHHHHHHHHHHH
Confidence 689999997665554444444 4999999999888766655543
No 419
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=89.22 E-value=1.4 Score=55.30 Aligned_cols=65 Identities=23% Similarity=0.276 Sum_probs=52.6
Q ss_pred CCCCHHHHHHHHHHhc---C--CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 389 PELNASQVFAVKSVLQ---R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~---~--~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
..++..|..+++.... . ...+|.|.+|+|||.+++.++..+ ..++||++++...|+++.+.|...
T Consensus 11 ~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~~----~r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 11 YKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIARL----QRPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred CCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHHh----CCCEEEEECCHHHHHHHHHHHHHh
Confidence 3688999999988653 2 246799999999999988765442 348999999999999999998765
No 420
>PRK14532 adenylate kinase; Provisional
Probab=89.21 E-value=0.29 Score=51.09 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=17.6
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.+|.|||||||||+...++..
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999988777654
No 421
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=89.16 E-value=0.48 Score=53.92 Aligned_cols=42 Identities=21% Similarity=0.334 Sum_probs=33.6
Q ss_pred CCCCCHHHHHHHHHHhc-----------CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 388 LPELNASQVFAVKSVLQ-----------RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 388 ~~~LN~sQ~~AV~~al~-----------~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+..|+++|++++..++. ....+|.|+||||||++...+...|
T Consensus 105 l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 105 LEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred HhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 35799999988887763 3568899999999999988776654
No 422
>PRK04040 adenylate kinase; Provisional
Probab=89.12 E-value=0.32 Score=51.33 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=20.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+.+|.|+|||||||++..+...|
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHh
Confidence 57899999999999988877766
No 423
>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=89.09 E-value=0.36 Score=49.95 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..+.++.|+||+||||++..+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 4578999999999999888776553
No 424
>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=89.02 E-value=0.27 Score=50.03 Aligned_cols=21 Identities=24% Similarity=0.575 Sum_probs=17.5
Q ss_pred EEECCCCCcHHHHHHHHHHHH
Q 001718 409 LIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L 429 (1021)
+|.|||||||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 688999999998887777654
No 425
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=89.02 E-value=0.4 Score=55.32 Aligned_cols=45 Identities=22% Similarity=0.363 Sum_probs=30.4
Q ss_pred HHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 394 sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
.....+..+.. +...||.||.||||||++..++..+- ...+|+.+
T Consensus 150 ~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~--~~~rivti 195 (344)
T PRK13851 150 DLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIP--PQERLITI 195 (344)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccC--CCCCEEEE
Confidence 33444444443 67899999999999999988776542 22355543
No 426
>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=88.96 E-value=0.48 Score=52.33 Aligned_cols=35 Identities=37% Similarity=0.537 Sum_probs=30.2
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
++.++.|.+|+|||++.+.+...+.+.+. +||++.
T Consensus 1 ~~~~~~gkgG~GKtt~a~~la~~~a~~g~-~vLlvd 35 (254)
T cd00550 1 RYIFFGGKGGVGKTTISAATAVRLAEQGK-KVLLVS 35 (254)
T ss_pred CEEEEECCCCchHHHHHHHHHHHHHHCCC-CceEEe
Confidence 36788999999999999999999988876 788775
No 427
>PRK06696 uridine kinase; Validated
Probab=88.93 E-value=0.54 Score=50.73 Aligned_cols=33 Identities=24% Similarity=0.378 Sum_probs=24.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
+..|.|++||||||++..++..|-..+. .++++
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 5779999999999999888877755432 44443
No 428
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=88.91 E-value=0.55 Score=48.97 Aligned_cols=39 Identities=21% Similarity=0.257 Sum_probs=29.7
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN 444 (1021)
.+++.|.|+.||||||++..++..|...+. +|-++-++.
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g~-~vg~Ik~~~ 44 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARGI-RPGLIKHTH 44 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcCC-eEEEEEEcC
Confidence 457789999999999999999988765443 666655433
No 429
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=88.90 E-value=0.52 Score=52.77 Aligned_cols=35 Identities=26% Similarity=0.280 Sum_probs=28.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApS 443 (1021)
+..|.|+.||||||++..++..|.+++ +|.++=..
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G--~V~~IKhd 37 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG--RVGTVKHM 37 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC--CEEEEEEc
Confidence 467899999999999999999998876 56665443
No 430
>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=88.87 E-value=0.58 Score=47.28 Aligned_cols=28 Identities=21% Similarity=0.480 Sum_probs=22.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCC
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~ 434 (1021)
+.+|.|+||||||+++..+...+...+.
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g~ 28 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRGR 28 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 3689999999999999888887765443
No 431
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=88.86 E-value=0.36 Score=52.15 Aligned_cols=32 Identities=28% Similarity=0.600 Sum_probs=22.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
-+|.||||+||||-....-..+...++ ++.++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr-~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGR-PVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCC-ceEEE
Confidence 479999999999988776665555454 44443
No 432
>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=88.84 E-value=0.74 Score=48.12 Aligned_cols=34 Identities=26% Similarity=0.404 Sum_probs=26.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
.+.+|.|++|+||||.+..+..+|-..+. +++++
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~-~v~~~ 37 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGY-DVLFT 37 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 46789999999999999998888766554 55444
No 433
>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=88.84 E-value=0.88 Score=50.84 Aligned_cols=25 Identities=28% Similarity=0.367 Sum_probs=20.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
...+|.||+|+||||++..++..+.
T Consensus 112 ~~~~i~g~~g~GKttl~~~l~~~~~ 136 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLRDLARILS 136 (270)
T ss_pred eEEEEEcCCCCCHHHHHHHHhCccC
Confidence 3579999999999999888776543
No 434
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=88.83 E-value=0.43 Score=57.87 Aligned_cols=26 Identities=27% Similarity=0.280 Sum_probs=22.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
+..|++||||||||+++..++..|.-
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 46899999999999999888877753
No 435
>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=88.77 E-value=0.54 Score=50.87 Aligned_cols=34 Identities=18% Similarity=0.209 Sum_probs=23.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~A 441 (1021)
.-|.||+|+||||++..++..|... ...+|.++.
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~ 36 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELIT 36 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEe
Confidence 5688999999999988777665432 223555544
No 436
>COG3911 Predicted ATPase [General function prediction only]
Probab=88.76 E-value=0.34 Score=48.87 Aligned_cols=21 Identities=38% Similarity=0.575 Sum_probs=18.0
Q ss_pred CcEEEECCCCCcHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIV 426 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI 426 (1021)
.+++|.|+||.||||.++++.
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa 30 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALA 30 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHH
Confidence 478999999999999887654
No 437
>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=88.69 E-value=0.38 Score=47.45 Aligned_cols=23 Identities=30% Similarity=0.631 Sum_probs=19.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+.+|.|+||||||+++..+...+
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35799999999999988877654
No 438
>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=88.69 E-value=0.55 Score=48.21 Aligned_cols=33 Identities=27% Similarity=0.480 Sum_probs=28.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
+.+..+-+|+||||+.+.++..+.+.+. +||++
T Consensus 2 i~v~s~kgG~GKTt~a~~LA~~la~~g~-~vllv 34 (169)
T cd02037 2 IAVMSGKGGVGKSTVAVNLALALAKLGY-KVGLL 34 (169)
T ss_pred EEEecCCCcCChhHHHHHHHHHHHHcCC-cEEEE
Confidence 4677899999999999999999988765 77775
No 439
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=88.68 E-value=0.83 Score=54.08 Aligned_cols=62 Identities=21% Similarity=0.170 Sum_probs=37.8
Q ss_pred CHHHHHHHHHHhcCCcEEEECCCCCcHHHHH-HHHHHHHHHcC----CCcEEEEcCcHHHHHHHHHH
Q 001718 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQG----QGQVLVCAPSNVAVDQLAEK 453 (1021)
Q Consensus 392 N~sQ~~AV~~al~~~l~LIqGPPGTGKTtTl-a~iI~~L~k~~----~~rILV~ApSN~AvDeL~eR 453 (1021)
++-|..-|=-+|...=.+-.+.-|||||-.- .-++..|+-.+ ..||||++||...+-++..-
T Consensus 205 TpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV 271 (691)
T KOG0338|consen 205 TPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSV 271 (691)
T ss_pred CchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHH
Confidence 3455555544443333344567899998643 34455555443 34899999999877665543
No 440
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=88.65 E-value=1.8 Score=55.20 Aligned_cols=47 Identities=26% Similarity=0.260 Sum_probs=34.5
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
+.+-.-|+|||.+++..++.-+..+. .|.|+|+|.-.|....+.+..
T Consensus 99 IaEm~TGEGKTL~a~lp~~l~al~g~-~VhIvT~ndyLA~RD~e~m~~ 145 (908)
T PRK13107 99 IAEMRTGEGKTLTATLPAYLNALTGK-GVHVITVNDYLARRDAENNRP 145 (908)
T ss_pred cccccCCCCchHHHHHHHHHHHhcCC-CEEEEeCCHHHHHHHHHHHHH
Confidence 45668999999987666554343444 799999999888777776543
No 441
>PLN02200 adenylate kinase family protein
Probab=88.63 E-value=0.36 Score=52.77 Aligned_cols=24 Identities=33% Similarity=0.560 Sum_probs=19.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+.+|.|+|||||||.+..++..+
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999988776543
No 442
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=88.62 E-value=0.38 Score=62.00 Aligned_cols=76 Identities=22% Similarity=0.354 Sum_probs=55.8
Q ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh-----cCCeEE
Q 001718 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA-----TGLKVV 462 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~-~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~-----~gl~iv 462 (1021)
.+.|+-|.+.+..... ++.++|-+|.|||||.++-.++.. .....++..++|...-++.+.+-..+ .|+.++
T Consensus 1142 ~~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~--~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~~~ 1219 (1674)
T KOG0951|consen 1142 QDFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR--PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLGLRIV 1219 (1674)
T ss_pred cccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC--CccceEEEEecchHHHHHHHHHHHHHhhccccCceEE
Confidence 3457888777777665 778999999999999876554433 33556899999999988888765533 466777
Q ss_pred Eecc
Q 001718 463 RLCA 466 (1021)
Q Consensus 463 Rlg~ 466 (1021)
+++.
T Consensus 1220 ~l~g 1223 (1674)
T KOG0951|consen 1220 KLTG 1223 (1674)
T ss_pred ecCC
Confidence 7765
No 443
>PRK02496 adk adenylate kinase; Provisional
Probab=88.62 E-value=0.37 Score=50.11 Aligned_cols=22 Identities=32% Similarity=0.729 Sum_probs=18.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999888776554
No 444
>PRK14527 adenylate kinase; Provisional
Probab=88.49 E-value=0.38 Score=50.47 Aligned_cols=25 Identities=24% Similarity=0.622 Sum_probs=20.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..+.+|.||||+||||.+..+...+
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999999999887776544
No 445
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=88.49 E-value=0.32 Score=57.33 Aligned_cols=23 Identities=48% Similarity=0.758 Sum_probs=18.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.-.|+.||||||||+++..++..
T Consensus 180 kgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHHh
Confidence 34789999999999988776654
No 446
>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=88.49 E-value=0.72 Score=54.71 Aligned_cols=51 Identities=25% Similarity=0.319 Sum_probs=40.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~~ 456 (1021)
..+++|-|+||+|||+.+..++.+++.....+|++++.=. ..+++..|+..
T Consensus 194 g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-~~~~l~~Rl~~ 244 (421)
T TIGR03600 194 GDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEM-SAEQLGERLLA 244 (421)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCC-CHHHHHHHHHH
Confidence 5689999999999999999999888744345888887543 56677777654
No 447
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=88.48 E-value=1.1 Score=51.90 Aligned_cols=44 Identities=18% Similarity=0.209 Sum_probs=30.1
Q ss_pred CCCEEEEECCCCCCchh--hhhhhhc---cCceEEEeCCc-cCCCceeec
Q 001718 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGDH-CQLGPVIMC 594 (1021)
Q Consensus 551 ~Fd~VIIDEAsQ~se~e--~LipL~~---~~krlILVGD~-~QLpPvv~s 594 (1021)
.++++|||+|..+++.. .|+...- ....+||+... .+|.|++.|
T Consensus 132 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~S 181 (342)
T PRK06964 132 GARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILS 181 (342)
T ss_pred CceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHh
Confidence 68899999999998743 3443332 22356776665 778888765
No 448
>PRK07261 topology modulation protein; Provisional
Probab=88.33 E-value=0.39 Score=49.76 Aligned_cols=21 Identities=29% Similarity=0.434 Sum_probs=17.5
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.+|.|+||+||||.+..+...
T Consensus 3 i~i~G~~GsGKSTla~~l~~~ 23 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQH 23 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 589999999999998776543
No 449
>PRK05480 uridine/cytidine kinase; Provisional
Probab=88.33 E-value=0.58 Score=49.78 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=20.1
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+..|.|++||||||++..+...+
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 367899999999999887777665
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=88.25 E-value=0.59 Score=52.19 Aligned_cols=35 Identities=23% Similarity=0.513 Sum_probs=22.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
++.+|.|.||+|||+.+..+...+...+ .+|.++.
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~~~~~~-~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKYLEEKG-KEVVIIS 36 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHHHHHTT---EEEE-
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHHHhcC-CEEEEEc
Confidence 5789999999999988888887776633 3555554
No 451
>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=88.21 E-value=0.36 Score=48.58 Aligned_cols=20 Identities=35% Similarity=0.705 Sum_probs=17.1
Q ss_pred EECCCCCcHHHHHHHHHHHH
Q 001718 410 IQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 410 IqGPPGTGKTtTla~iI~~L 429 (1021)
|.||||+||||.+..+...+
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 452
>PRK14528 adenylate kinase; Provisional
Probab=88.18 E-value=0.41 Score=50.21 Aligned_cols=23 Identities=26% Similarity=0.570 Sum_probs=18.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..+|.||||+||||++..+...+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36899999999999987766544
No 453
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=88.17 E-value=1.9 Score=54.71 Aligned_cols=45 Identities=27% Similarity=0.308 Sum_probs=33.0
Q ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 001718 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (1021)
Q Consensus 409 LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL 454 (1021)
+.+=.-|.|||.+++..++..+..+. .|-|+|+|..-|..=.+.+
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 44447899999998776665555555 9999999998776544444
No 454
>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=88.16 E-value=0.56 Score=51.64 Aligned_cols=32 Identities=28% Similarity=0.579 Sum_probs=27.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
++++ |..|+||||+.+.++..|.+.+. |||++
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 455
>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=88.14 E-value=0.73 Score=47.73 Aligned_cols=34 Identities=32% Similarity=0.585 Sum_probs=27.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
++++.+-.|+|||++.+.++..|.+.+. +||++=
T Consensus 1 I~v~~~kGG~GKTt~a~~la~~la~~g~-~VlliD 34 (195)
T PF01656_consen 1 IAVTSGKGGVGKTTIAANLAQALARKGK-KVLLID 34 (195)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS--EEEEE
T ss_pred CEEEcCCCCccHHHHHHHHHhccccccc-cccccc
Confidence 4678899999999999999999999665 666654
No 456
>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=88.14 E-value=0.93 Score=46.60 Aligned_cols=59 Identities=19% Similarity=0.246 Sum_probs=37.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH-----HHHHHHHhcCCeEEEecc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCA 466 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD-----eL~eRL~~~gl~ivRlg~ 466 (1021)
+..|.|++|||||+++..++..|...+. +|-++-+.+.-.+ .=..|+...|...+.+..
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 5679999999999999999988866554 6666554332222 122344455555444433
No 457
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=88.08 E-value=0.79 Score=49.93 Aligned_cols=57 Identities=19% Similarity=0.242 Sum_probs=39.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH---HHHHHHHhcCCeEEEe
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATGLKVVRL 464 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD---eL~eRL~~~gl~ivRl 464 (1021)
+.-|.|++|+||||++..++..|..++. +|.++-+++.-.| .=..|+.+.|...+-+
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G~-~V~viK~~~~~~d~~~~Dt~r~~~aGA~~v~~ 62 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERGY-RVATAKHTHHEFDKPDTDTYRFKKAGAEVVVV 62 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCCC-eEEEEEecccCCCCCCchHHHHHHcCCcEEEE
Confidence 4578999999999999999999877654 8888865544322 1233455555555444
No 458
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=88.05 E-value=1.2 Score=52.07 Aligned_cols=60 Identities=22% Similarity=0.334 Sum_probs=45.3
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHH-----HHHHHHHhcCCeEEEecc
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCA 466 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvD-----eL~eRL~~~gl~ivRlg~ 466 (1021)
++.-|.|++||||||++..++..|.+++. +|.++-++....| .=..|+.+.|...+-+..
T Consensus 206 ~~~~~~g~~~~GKtt~~~~l~~~l~~~g~-~v~~iKh~~h~~~~d~~g~Ds~r~~~aGa~~v~~~~ 270 (366)
T PRK14489 206 PLLGVVGYSGTGKTTLLEKLIPELIARGY-RIGLIKHSHHRVDIDKPGKDSHRLRAAGANPTMIVC 270 (366)
T ss_pred cEEEEecCCCCCHHHHHHHHHHHHHHcCC-EEEEEEECCcccCCCCCCChhHHHHhCCCceEEEEc
Confidence 46789999999999999999999877665 8988887776542 124566667776665544
No 459
>PHA02624 large T antigen; Provisional
Probab=88.00 E-value=0.52 Score=57.60 Aligned_cols=36 Identities=28% Similarity=0.341 Sum_probs=27.8
Q ss_pred HHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 394 SQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 394 sQ~~AV~~al~----~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.=.+|++..+. ++..|+.||||||||+.+..++..|
T Consensus 416 ~~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 416 VIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 33455555554 5689999999999999999988766
No 460
>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=87.99 E-value=0.52 Score=54.38 Aligned_cols=25 Identities=48% Similarity=0.711 Sum_probs=20.4
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+..||.||||||||-++..+...|
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 5678999999999999988888766
No 461
>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=87.96 E-value=0.81 Score=46.92 Aligned_cols=33 Identities=24% Similarity=0.418 Sum_probs=24.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
+..|+|-||+||||++.++...|...+. ++.++
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 4678999999999888777777776654 44443
No 462
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=87.91 E-value=0.68 Score=52.79 Aligned_cols=51 Identities=14% Similarity=0.258 Sum_probs=33.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcC-----CCcEEEEcCcH-HHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN-VAVDQLAEKIS 455 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~-----~~rILV~ApSN-~AvDeL~eRL~ 455 (1021)
..+++|.|+||||||+++..++...+... ..+++.+..-+ --.+.|.+.+.
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~ 158 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAE 158 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHH
Confidence 56799999999999999999987665421 12555555433 23455555443
No 463
>PRK00279 adk adenylate kinase; Reviewed
Probab=87.90 E-value=0.43 Score=51.14 Aligned_cols=22 Identities=32% Similarity=0.604 Sum_probs=18.0
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+|.||||+||||++..+...+
T Consensus 3 I~v~G~pGsGKsT~a~~la~~~ 24 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEKY 24 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999877666543
No 464
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=87.86 E-value=0.32 Score=58.64 Aligned_cols=22 Identities=45% Similarity=0.779 Sum_probs=19.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+|++||||||||.++-+++.+|
T Consensus 226 vLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 226 VLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred eeeeCCCCccHHHHHHHHhhhc
Confidence 7999999999999988877765
No 465
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=87.78 E-value=0.75 Score=51.18 Aligned_cols=24 Identities=38% Similarity=0.609 Sum_probs=18.6
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+.+|+.||||.||||.+.-++..|
T Consensus 53 DHvLl~GPPGlGKTTLA~IIA~Em 76 (332)
T COG2255 53 DHVLLFGPPGLGKTTLAHIIANEL 76 (332)
T ss_pred CeEEeeCCCCCcHHHHHHHHHHHh
Confidence 468999999999998765554444
No 466
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=87.76 E-value=0.4 Score=55.45 Aligned_cols=24 Identities=29% Similarity=0.332 Sum_probs=19.5
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
...+|+||||||||..+..++..+
T Consensus 149 lgllL~GPPGcGKTllAraiA~el 172 (413)
T PLN00020 149 LILGIWGGKGQGKSFQCELVFKKM 172 (413)
T ss_pred eEEEeeCCCCCCHHHHHHHHHHHc
Confidence 357899999999999877776654
No 467
>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=87.74 E-value=0.45 Score=50.13 Aligned_cols=27 Identities=37% Similarity=0.596 Sum_probs=22.1
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcC
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~ 433 (1021)
+.-|.||+|+||||++..+...|-+.+
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 356999999999999988888776543
No 468
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=87.70 E-value=2.7 Score=52.90 Aligned_cols=75 Identities=20% Similarity=0.362 Sum_probs=48.9
Q ss_pred CHHHHHHHHHHhc---C-CcEEEECCCCCcHHHHHHHHHHHHHHc-----------------------------------
Q 001718 392 NASQVFAVKSVLQ---R-PISLIQGPPGTGKTVTSAAIVYHMAKQ----------------------------------- 432 (1021)
Q Consensus 392 N~sQ~~AV~~al~---~-~l~LIqGPPGTGKTtTla~iI~~L~k~----------------------------------- 432 (1021)
=+.|+.-+..++. + .-.|+--|-|||||.-+..-...+.+.
T Consensus 23 Y~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p~~~s~~~g~~s~e~~e 102 (945)
T KOG1132|consen 23 YPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIPTQPSDSGGEKSEEAGE 102 (945)
T ss_pred chHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccCCCCccCCCCchhhhcC
Confidence 3567766666553 2 236889999999997654332222110
Q ss_pred ------CCCcEEEEcCcHHHHHHHHHHHHhcCCe--EEEecc
Q 001718 433 ------GQGQVLVCAPSNVAVDQLAEKISATGLK--VVRLCA 466 (1021)
Q Consensus 433 ------~~~rILV~ApSN~AvDeL~eRL~~~gl~--ivRlg~ 466 (1021)
+..+|..++.|++-..++..-+.+.+.+ ++-++.
T Consensus 103 ~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y~vkmtVLgS 144 (945)
T KOG1132|consen 103 PIACYTGIPKIYYASRTHSQLTQVVRELRRTGYRVKMTVLGS 144 (945)
T ss_pred ccccccCCceEEEecchHHHHHHHHHHHhhcCCCCceEEeec
Confidence 0136999999999999998888876554 444444
No 469
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=87.70 E-value=3.6 Score=53.88 Aligned_cols=51 Identities=20% Similarity=0.184 Sum_probs=42.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~ApSN~AvDeL~eRL~~~ 457 (1021)
--+||=--|||||.|+..++..|++. ...+|++++--+.--+++.+-+...
T Consensus 275 ~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~ 326 (962)
T COG0610 275 GGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSF 326 (962)
T ss_pred ceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHH
Confidence 48999999999999999999888877 3458999999888888887766543
No 470
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.68 E-value=0.55 Score=57.43 Aligned_cols=25 Identities=24% Similarity=0.315 Sum_probs=21.3
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
..|++||||||||+++..++..|..
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4789999999999999888877653
No 471
>PRK06547 hypothetical protein; Provisional
Probab=87.67 E-value=0.65 Score=48.30 Aligned_cols=23 Identities=35% Similarity=0.511 Sum_probs=18.8
Q ss_pred CcEEEECCCCCcHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.+.+|.|++||||||++..+...
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 35678899999999998777654
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=87.57 E-value=0.71 Score=53.02 Aligned_cols=40 Identities=25% Similarity=0.357 Sum_probs=28.5
Q ss_pred CHHHHHHHHHHhcC----CcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 392 NASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 392 N~sQ~~AV~~al~~----~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
++...+.+...+.+ ...|+.||||+|||+++..++..|.-
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34555555555542 35789999999999998888877653
No 473
>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=87.57 E-value=1.1 Score=49.45 Aligned_cols=50 Identities=26% Similarity=0.365 Sum_probs=39.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN~AvDeL~eRL~ 455 (1021)
..+++|-|.||.|||+.+..++.+++.....+||+++.=... +++..|+.
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~-~~l~~R~l 68 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSE-EELAARLL 68 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-H-HHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCH-HHHHHHHH
Confidence 468999999999999999999999998755699999874433 34666654
No 474
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=87.56 E-value=0.49 Score=47.86 Aligned_cols=22 Identities=41% Similarity=0.782 Sum_probs=19.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIV 426 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI 426 (1021)
.+..||.|-|||||||+...++
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 5678999999999999877665
No 475
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=87.55 E-value=0.38 Score=60.12 Aligned_cols=20 Identities=55% Similarity=0.853 Sum_probs=16.6
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVY 427 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~ 427 (1021)
+|+.||||||||.++.+++-
T Consensus 347 vLL~GPPGTGKTLLAKAiAG 366 (774)
T KOG0731|consen 347 VLLVGPPGTGKTLLAKAIAG 366 (774)
T ss_pred eEEECCCCCcHHHHHHHHhc
Confidence 68999999999997766553
No 476
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=87.48 E-value=0.42 Score=49.51 Aligned_cols=20 Identities=35% Similarity=0.605 Sum_probs=16.0
Q ss_pred cEEEECCCCCcHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIV 426 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI 426 (1021)
..+|+|.|||||||+...+-
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 46899999999999765443
No 477
>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=87.40 E-value=0.45 Score=50.80 Aligned_cols=21 Identities=33% Similarity=0.661 Sum_probs=17.4
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.+|.|||||||||.+..+...
T Consensus 2 I~i~G~pGsGKsT~a~~La~~ 22 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEK 22 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999987776543
No 478
>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=87.34 E-value=0.76 Score=51.03 Aligned_cols=32 Identities=31% Similarity=0.521 Sum_probs=28.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
..|.|-.|+||||+.+.++..|.+++. +||++
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 456799999999999999999998875 89886
No 479
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=87.32 E-value=0.7 Score=51.40 Aligned_cols=32 Identities=31% Similarity=0.577 Sum_probs=27.9
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
+++. |--|+|||||.+.+.+.|.+.+. |||++
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 3455 89999999999999999998876 89887
No 480
>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=87.31 E-value=0.71 Score=52.25 Aligned_cols=31 Identities=35% Similarity=0.540 Sum_probs=26.5
Q ss_pred EECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 410 IQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 410 IqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
|.|-.|+|||||.+.+...|.++++ |||++=
T Consensus 5 v~gKGGvGKTT~a~nLA~~La~~g~-rVLlID 35 (296)
T TIGR02016 5 IYGKGGSGKSFTTTNLSHMMAEMGK-RVLQLG 35 (296)
T ss_pred EECCCCCCHHHHHHHHHHHHHHCCC-eEEEEE
Confidence 3499999999999999999998765 887763
No 481
>PHA00547 hypothetical protein
Probab=87.28 E-value=0.88 Score=49.89 Aligned_cols=38 Identities=29% Similarity=0.364 Sum_probs=29.9
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHH
Q 001718 394 SQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAK 431 (1021)
Q Consensus 394 sQ~~AV~~al~~~l~LIqGPPGTGKTtTla~iI~~L~k 431 (1021)
+|.+-|+.+-++|+++|+||=|||||..++.++.+.-.
T Consensus 64 ~~~k~VK~ik~spis~i~G~LGsGKTlLMT~LA~~~K~ 101 (337)
T PHA00547 64 NAFRLVNFIWDNPLSVIIGKLGTGKTLLLTYLSQTMKL 101 (337)
T ss_pred HHHHHHHHHhcCCceEEeccCCCchhHHHHHHHHHHHh
Confidence 45555566667999999999999999998887766544
No 482
>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=87.28 E-value=0.79 Score=56.98 Aligned_cols=40 Identities=23% Similarity=0.415 Sum_probs=27.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCcH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApSN 444 (1021)
....++.||||||||+++..++..+-...-..++++.-++
T Consensus 37 ~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~ 76 (608)
T TIGR00764 37 KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPE 76 (608)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCC
Confidence 5688999999999999988877665433213455555443
No 483
>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=87.25 E-value=1 Score=46.77 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=26.0
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
+.+|.|++|+||||.+..+..+|-..+. ++.++
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 4688999999999999999888865554 55444
No 484
>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=87.24 E-value=0.42 Score=57.96 Aligned_cols=22 Identities=45% Similarity=0.700 Sum_probs=18.7
Q ss_pred cEEEECCCCCcHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~ 428 (1021)
-.|+.||||||||+++..++..
T Consensus 90 giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHH
Confidence 3789999999999998877654
No 485
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=87.12 E-value=0.71 Score=52.69 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=41.2
Q ss_pred CCCCHHHHHHHHHHhcCC-cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001718 389 PELNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1021)
Q Consensus 389 ~~LN~sQ~~AV~~al~~~-l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApS 443 (1021)
..++..|.+.+..+.... ..||.|+-||||||++-++....-. ..+|+.+=-|
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 368899999999988755 7899999999999999887765432 2377776543
No 486
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=87.09 E-value=0.93 Score=51.06 Aligned_cols=26 Identities=35% Similarity=0.586 Sum_probs=23.2
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~ 432 (1021)
..|+.||||||||+++..++..|.-.
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 48999999999999999999888755
No 487
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=87.04 E-value=2 Score=52.74 Aligned_cols=23 Identities=35% Similarity=0.354 Sum_probs=19.0
Q ss_pred CCcEEEECCCCCcHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVY 427 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~ 427 (1021)
..-.+|.|++|+|||+.+.++.-
T Consensus 419 G~~llI~G~SG~GKTsLlRaiaG 441 (604)
T COG4178 419 GERLLITGESGAGKTSLLRALAG 441 (604)
T ss_pred CCEEEEECCCCCCHHHHHHHHhc
Confidence 45689999999999998877653
No 488
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=86.92 E-value=0.81 Score=51.60 Aligned_cols=32 Identities=34% Similarity=0.522 Sum_probs=28.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEE
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ 440 (1021)
..|.|-.|+|||||.+.+.+.|.+.+. |||++
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 88876
No 489
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=86.91 E-value=0.78 Score=52.81 Aligned_cols=24 Identities=29% Similarity=0.360 Sum_probs=19.7
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
+-+|+.|+||||||+++..+...|
T Consensus 30 ~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHHC
Confidence 579999999999999877666544
No 490
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=86.89 E-value=0.74 Score=52.57 Aligned_cols=25 Identities=44% Similarity=0.623 Sum_probs=21.9
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..-.||.||||||||-++..+...|
T Consensus 65 GrgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 65 GRGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred ccEEEEECCCCCcHHHHHHHHHHHh
Confidence 4568999999999999998888777
No 491
>PRK13947 shikimate kinase; Provisional
Probab=86.86 E-value=0.55 Score=48.01 Aligned_cols=22 Identities=27% Similarity=0.394 Sum_probs=18.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~L 429 (1021)
.+|.|+||||||++...+...|
T Consensus 4 I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 6889999999999887776655
No 492
>CHL00195 ycf46 Ycf46; Provisional
Probab=86.82 E-value=0.5 Score=57.10 Aligned_cols=23 Identities=39% Similarity=0.471 Sum_probs=18.8
Q ss_pred cEEEECCCCCcHHHHHHHHHHHH
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
-.|+.||||||||.++..++..+
T Consensus 261 GILL~GPpGTGKTllAkaiA~e~ 283 (489)
T CHL00195 261 GLLLVGIQGTGKSLTAKAIANDW 283 (489)
T ss_pred eEEEECCCCCcHHHHHHHHHHHh
Confidence 47899999999999887776543
No 493
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=86.79 E-value=0.73 Score=57.38 Aligned_cols=38 Identities=29% Similarity=0.486 Sum_probs=26.1
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcC
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~Ap 442 (1021)
....+|.||||||||+++..+...+-...-..+++..-
T Consensus 50 ~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n 87 (637)
T PRK13765 50 RRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN 87 (637)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC
Confidence 67899999999999999888776543222124444433
No 494
>PRK05439 pantothenate kinase; Provisional
Probab=86.77 E-value=0.83 Score=52.01 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=24.5
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc-CCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~-~~~rILV~A 441 (1021)
+..|.|+||+||||++..+...|-+. ...+|.+++
T Consensus 88 iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 88 IIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 45689999999999998777655443 223565554
No 495
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=86.77 E-value=0.55 Score=49.15 Aligned_cols=21 Identities=38% Similarity=0.719 Sum_probs=18.3
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 001718 408 SLIQGPPGTGKTVTSAAIVYH 428 (1021)
Q Consensus 408 ~LIqGPPGTGKTtTla~iI~~ 428 (1021)
.+|.||||+||||.+..+...
T Consensus 3 iiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988877765
No 496
>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=86.71 E-value=0.81 Score=51.92 Aligned_cols=26 Identities=23% Similarity=0.374 Sum_probs=22.3
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L~ 430 (1021)
..+++|.|+||||||+++..++....
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~ 120 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQ 120 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 45789999999999999998876654
No 497
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=86.68 E-value=0.48 Score=53.17 Aligned_cols=24 Identities=46% Similarity=0.688 Sum_probs=19.0
Q ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Q 001718 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 406 ~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
..++|+||||||||.....++..+
T Consensus 167 kg~ll~GppGtGKTlla~~Vaa~m 190 (388)
T KOG0651|consen 167 KGLLLYGPPGTGKTLLARAVAATM 190 (388)
T ss_pred ceeEEeCCCCCchhHHHHHHHHhc
Confidence 358999999999999776665554
No 498
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. 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 eukaryotic proteins with this activity.
Probab=86.63 E-value=0.85 Score=52.57 Aligned_cols=37 Identities=16% Similarity=0.289 Sum_probs=29.4
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEcCc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~ApS 443 (1021)
++++.|+||+||||++..+..+|......+|.+++.=
T Consensus 1 ~~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~D 37 (340)
T TIGR03575 1 LCVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYD 37 (340)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEccc
Confidence 4689999999999999999888874434478887753
No 499
>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=86.59 E-value=0.9 Score=48.85 Aligned_cols=34 Identities=32% Similarity=0.588 Sum_probs=28.6
Q ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCCcEEEEc
Q 001718 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (1021)
Q Consensus 407 l~LIqGPPGTGKTtTla~iI~~L~k~~~~rILV~A 441 (1021)
+.++.|.+|+|||++.+.+...+.+.+. ++|++.
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 3678999999999999999999988775 666654
No 500
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=86.49 E-value=0.77 Score=54.29 Aligned_cols=25 Identities=28% Similarity=0.558 Sum_probs=20.5
Q ss_pred CCcEEEECCCCCcHHHHHHHHHHHH
Q 001718 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (1021)
Q Consensus 405 ~~l~LIqGPPGTGKTtTla~iI~~L 429 (1021)
....||.||||||||+++..+...+
T Consensus 116 ~~~iLL~GP~GsGKT~lAraLA~~l 140 (413)
T TIGR00382 116 KSNILLIGPTGSGKTLLAQTLARIL 140 (413)
T ss_pred CceEEEECCCCcCHHHHHHHHHHhc
Confidence 4578999999999999887776543
Done!