Query 004121
Match_columns 772
No_of_seqs 476 out of 2491
Neff 6.7
Searched_HMMs 46136
Date Thu Mar 28 17:55:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004121.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004121hhsearch_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 8E-170 2E-174 1390.7 53.7 645 118-770 38-787 (935)
2 KOG1803 DNA helicase [Replicat 100.0 1.7E-76 3.7E-81 654.5 32.1 504 254-772 51-581 (649)
3 TIGR00376 DNA helicase, putati 100.0 2.9E-74 6.3E-79 674.1 50.7 495 244-769 26-580 (637)
4 KOG1805 DNA replication helica 100.0 2.6E-58 5.6E-63 528.0 27.2 337 388-769 667-1024(1100)
5 PF09416 UPF1_Zn_bind: RNA hel 100.0 8.3E-49 1.8E-53 370.9 7.0 95 143-239 1-95 (152)
6 KOG1807 Helicases [Replication 100.0 6.7E-46 1.5E-50 415.5 25.5 230 527-770 694-926 (1025)
7 COG1112 Superfamily I DNA and 100.0 2E-40 4.4E-45 399.8 34.2 431 325-769 206-698 (767)
8 KOG1804 RNA helicase [RNA proc 100.0 8.4E-36 1.8E-40 346.2 10.6 319 405-770 326-664 (775)
9 PF13086 AAA_11: AAA domain; P 100.0 2.2E-33 4.7E-38 288.3 17.7 204 390-594 1-235 (236)
10 KOG1801 tRNA-splicing endonucl 100.0 8.1E-31 1.8E-35 314.8 25.3 239 530-770 513-759 (827)
11 PF13087 AAA_12: AAA domain; P 100.0 7.5E-29 1.6E-33 251.1 12.0 164 602-768 1-169 (200)
12 KOG1806 DEAD box containing he 100.0 5.3E-28 1.1E-32 278.3 16.9 375 390-768 738-1216(1320)
13 PRK11054 helD DNA helicase IV; 99.9 5.8E-21 1.3E-25 225.9 24.1 176 551-765 430-611 (684)
14 TIGR01075 uvrD DNA helicase II 99.9 3E-21 6.4E-26 231.7 21.9 314 389-734 3-367 (715)
15 PRK11773 uvrD DNA-dependent he 99.9 7.7E-21 1.7E-25 228.2 23.7 300 389-734 8-372 (721)
16 TIGR01073 pcrA ATP-dependent D 99.9 1.7E-20 3.7E-25 225.6 24.3 312 389-734 3-369 (726)
17 PRK10919 ATP-dependent DNA hel 99.9 2.6E-20 5.6E-25 221.5 22.4 313 390-734 2-367 (672)
18 TIGR01074 rep ATP-dependent DN 99.8 3.2E-19 7E-24 212.8 21.4 315 390-734 1-366 (664)
19 PRK10875 recD exonuclease V su 99.8 1.7E-18 3.7E-23 202.2 24.6 200 391-642 153-381 (615)
20 PF13604 AAA_30: AAA domain; P 99.8 5.4E-19 1.2E-23 179.8 13.8 173 390-644 1-179 (196)
21 TIGR01448 recD_rel helicase, p 99.8 9E-17 2E-21 192.1 25.1 170 389-637 322-497 (720)
22 COG0210 UvrD Superfamily I DNA 99.7 5.1E-16 1.1E-20 185.2 23.3 315 390-734 2-374 (655)
23 TIGR02768 TraA_Ti Ti-type conj 99.7 4.2E-16 9.2E-21 187.0 21.9 169 389-643 351-523 (744)
24 TIGR01447 recD exodeoxyribonuc 99.7 1.2E-16 2.6E-21 186.4 16.4 194 393-637 148-366 (586)
25 PRK13826 Dtr system oriT relax 99.6 1.9E-14 4.1E-19 175.7 24.4 229 389-732 380-612 (1102)
26 PRK13889 conjugal transfer rel 99.6 1.2E-14 2.6E-19 176.7 22.0 229 389-732 345-579 (988)
27 TIGR00609 recB exodeoxyribonuc 99.6 5.2E-14 1.1E-18 175.7 23.1 174 550-734 295-494 (1087)
28 TIGR02785 addA_Gpos recombinat 99.6 7.7E-14 1.7E-18 176.0 23.9 178 550-734 387-601 (1232)
29 PF00580 UvrD-helicase: UvrD/R 99.6 3.6E-15 7.8E-20 160.4 9.0 65 391-457 1-68 (315)
30 PRK13709 conjugal transfer nic 99.5 5.2E-13 1.1E-17 169.4 21.7 260 389-731 966-1242(1747)
31 PRK14712 conjugal transfer nic 99.5 7.3E-13 1.6E-17 166.0 21.7 259 389-730 834-1112(1623)
32 PRK10876 recB exonuclease V su 99.4 6E-12 1.3E-16 157.9 23.7 174 550-734 376-576 (1181)
33 COG1074 RecB ATP-dependent exo 99.4 1.5E-12 3.3E-17 163.1 18.2 175 550-733 377-578 (1139)
34 PRK13909 putative recombinatio 99.4 2.3E-12 4.9E-17 158.7 17.7 157 549-732 326-494 (910)
35 TIGR02760 TraI_TIGR conjugativ 99.3 1.8E-11 3.9E-16 159.3 19.7 170 389-642 1018-1198(1960)
36 COG3973 Superfamily I DNA and 99.3 1.3E-10 2.8E-15 131.0 23.5 174 550-761 527-713 (747)
37 PF13245 AAA_19: Part of AAA d 99.3 3.1E-12 6.7E-17 110.4 7.4 58 397-454 1-62 (76)
38 TIGR02760 TraI_TIGR conjugativ 99.3 4.5E-11 9.8E-16 155.7 21.1 165 390-627 429-598 (1960)
39 PF09848 DUF2075: Uncharacteri 99.3 2.7E-11 5.9E-16 134.2 12.9 163 406-642 2-183 (352)
40 PF05970 PIF1: PIF1-like helic 99.2 7.7E-12 1.7E-16 139.1 6.4 60 390-450 1-66 (364)
41 PF02562 PhoH: PhoH-like prote 99.1 9.5E-10 2.1E-14 112.3 12.4 54 389-442 3-57 (205)
42 PF01443 Viral_helicase1: Vira 99.1 1.3E-10 2.9E-15 120.4 5.9 79 551-637 62-141 (234)
43 PRK10536 hypothetical protein; 98.9 3.9E-09 8.4E-14 110.7 10.9 64 386-449 55-118 (262)
44 COG3972 Superfamily I DNA and 98.9 1.8E-08 3.9E-13 111.5 15.8 331 389-764 161-545 (660)
45 TIGR02773 addB_Gpos ATP-depend 98.9 2E-07 4.4E-12 118.3 24.2 152 551-733 196-361 (1158)
46 TIGR02784 addA_alphas double-s 98.8 2.9E-08 6.2E-13 125.7 14.8 174 550-733 390-609 (1141)
47 smart00487 DEXDc DEAD-like hel 98.8 5.3E-08 1.1E-12 96.2 13.5 70 389-458 7-78 (201)
48 cd00046 DEXDc DEAD-like helica 98.6 2.4E-07 5.1E-12 86.0 10.4 51 407-457 2-53 (144)
49 PF00270 DEAD: DEAD/DEAH box h 98.5 8.3E-07 1.8E-11 86.8 11.6 66 392-457 1-67 (169)
50 KOG1804 RNA helicase [RNA proc 98.5 6.4E-08 1.4E-12 114.5 4.2 305 388-731 118-449 (775)
51 PRK11634 ATP-dependent RNA hel 98.5 5.4E-06 1.2E-10 98.7 18.8 70 388-457 26-97 (629)
52 PHA02558 uvsW UvsW helicase; P 98.4 2E-06 4.3E-11 100.0 12.4 70 389-458 113-182 (501)
53 PRK11776 ATP-dependent RNA hel 98.4 3.4E-05 7.3E-10 88.8 22.2 70 388-457 24-95 (460)
54 cd00268 DEADc DEAD-box helicas 98.4 5.1E-06 1.1E-10 84.3 13.2 69 389-457 20-92 (203)
55 PRK10590 ATP-dependent RNA hel 98.3 3E-05 6.4E-10 89.2 19.0 70 388-457 21-98 (456)
56 PRK05580 primosome assembly pr 98.2 1.1E-05 2.4E-10 96.9 14.8 75 389-464 143-221 (679)
57 PRK11192 ATP-dependent RNA hel 98.2 1E-05 2.2E-10 92.3 13.2 70 388-457 21-96 (434)
58 PTZ00424 helicase 45; Provisio 98.2 1E-05 2.2E-10 91.0 12.1 70 388-457 48-119 (401)
59 TIGR00580 mfd transcription-re 98.1 4.9E-05 1.1E-09 93.8 17.5 67 390-457 451-523 (926)
60 PF07652 Flavi_DEAD: Flaviviru 98.1 1.5E-05 3.2E-10 76.7 9.8 53 405-458 4-57 (148)
61 TIGR00643 recG ATP-dependent D 98.1 3.9E-05 8.3E-10 91.8 15.1 67 390-457 235-307 (630)
62 PRK10917 ATP-dependent DNA hel 98.1 4E-05 8.6E-10 92.4 14.8 67 390-457 261-333 (681)
63 PF04851 ResIII: Type III rest 98.1 8.4E-06 1.8E-10 80.4 7.3 64 390-457 3-73 (184)
64 PRK02362 ski2-like helicase; P 98.1 9.6E-06 2.1E-10 98.7 9.1 70 387-457 20-90 (737)
65 COG1061 SSL2 DNA or RNA helica 98.0 1.7E-05 3.7E-10 90.7 10.5 65 389-457 35-103 (442)
66 PRK10689 transcription-repair 98.0 8.5E-05 1.8E-09 93.6 17.4 66 390-456 600-671 (1147)
67 PRK04837 ATP-dependent RNA hel 98.0 2.2E-05 4.7E-10 89.4 10.3 69 388-456 28-105 (423)
68 PRK01172 ski2-like helicase; P 98.0 3.2E-05 7E-10 93.2 11.3 66 390-456 22-87 (674)
69 TIGR00603 rad25 DNA repair hel 97.9 7.9E-05 1.7E-09 89.1 13.7 65 389-457 254-321 (732)
70 PRK13766 Hef nuclease; Provisi 97.9 7.3E-05 1.6E-09 91.5 12.9 67 390-457 15-81 (773)
71 PRK00254 ski2-like helicase; P 97.9 3.3E-05 7.2E-10 93.8 9.5 68 388-456 21-90 (720)
72 PRK11448 hsdR type I restricti 97.9 7.5E-05 1.6E-09 93.8 11.9 68 390-457 413-486 (1123)
73 PRK04537 ATP-dependent RNA hel 97.8 0.00013 2.8E-09 86.2 13.0 70 388-457 29-107 (572)
74 PTZ00110 helicase; Provisional 97.8 0.00022 4.7E-09 84.0 14.2 71 387-457 149-226 (545)
75 TIGR03817 DECH_helic helicase/ 97.8 0.00016 3.4E-09 88.0 12.9 71 388-458 34-105 (742)
76 TIGR01054 rgy reverse gyrase. 97.7 0.00011 2.4E-09 92.9 11.1 67 390-457 78-144 (1171)
77 PRK01297 ATP-dependent RNA hel 97.7 0.00018 4E-09 83.1 11.8 70 388-457 107-185 (475)
78 COG1702 PhoH Phosphate starvat 97.7 0.00015 3.3E-09 78.6 10.2 55 388-442 126-181 (348)
79 PRK09401 reverse gyrase; Revie 97.7 0.00016 3.5E-09 91.4 12.1 68 390-458 80-147 (1176)
80 COG0507 RecD ATP-dependent exo 97.7 0.0001 2.3E-09 89.2 10.1 133 389-595 318-453 (696)
81 PRK13767 ATP-dependent helicas 97.7 0.0006 1.3E-08 84.5 16.9 68 389-456 31-106 (876)
82 TIGR00348 hsdR type I site-spe 97.7 0.00023 5E-09 85.6 12.6 67 392-458 240-317 (667)
83 TIGR00614 recQ_fam ATP-depende 97.7 0.00045 9.7E-09 79.9 14.3 74 388-465 9-82 (470)
84 COG1875 NYN ribonuclease and A 97.7 0.00014 2.9E-09 79.2 9.1 56 387-442 225-284 (436)
85 smart00488 DEXDc2 DEAD-like he 97.7 0.00059 1.3E-08 73.9 14.1 65 392-456 10-83 (289)
86 smart00489 DEXDc3 DEAD-like he 97.7 0.00059 1.3E-08 73.9 14.1 65 392-456 10-83 (289)
87 TIGR03117 cas_csf4 CRISPR-asso 97.7 0.00056 1.2E-08 81.0 14.8 59 397-455 7-67 (636)
88 PLN00206 DEAD-box ATP-dependen 97.6 0.00036 7.7E-09 81.7 12.5 68 389-456 142-218 (518)
89 COG1204 Superfamily II helicas 97.6 0.0002 4.4E-09 86.7 10.7 78 388-465 29-110 (766)
90 TIGR00604 rad3 DNA repair heli 97.6 0.00042 9E-09 84.1 12.5 67 391-457 11-83 (705)
91 TIGR00595 priA primosomal prot 97.6 0.00031 6.7E-09 81.8 10.9 48 409-457 1-48 (505)
92 PRK14974 cell division protein 97.6 0.00078 1.7E-08 74.3 12.9 56 406-462 141-199 (336)
93 PRK14701 reverse gyrase; Provi 97.5 0.00061 1.3E-08 88.4 13.6 67 390-457 79-145 (1638)
94 PF05127 Helicase_RecD: Helica 97.5 2.5E-05 5.5E-10 78.1 0.9 169 409-638 1-174 (177)
95 PHA02653 RNA helicase NPH-II; 97.5 0.00069 1.5E-08 81.1 12.9 76 381-456 154-244 (675)
96 TIGR01389 recQ ATP-dependent D 97.5 0.001 2.2E-08 79.2 14.3 74 388-465 11-84 (591)
97 COG1110 Reverse gyrase [DNA re 97.5 0.00035 7.5E-09 84.1 9.7 67 391-458 83-149 (1187)
98 TIGR01970 DEAH_box_HrpB ATP-de 97.5 0.00026 5.5E-09 86.6 8.7 61 395-456 6-67 (819)
99 COG1198 PriA Primosomal protei 97.5 0.00046 1E-08 82.6 10.3 68 388-456 196-267 (730)
100 KOG2108 3'-5' DNA helicase [Re 97.4 0.00011 2.5E-09 86.9 4.4 66 389-456 12-80 (853)
101 COG4096 HsdR Type I site-speci 97.4 0.00044 9.5E-09 82.0 9.1 68 390-457 165-238 (875)
102 PRK14712 conjugal transfer nic 97.4 0.0012 2.6E-08 84.8 13.3 64 389-453 280-346 (1623)
103 KOG0354 DEAD-box like helicase 97.4 0.0008 1.7E-08 79.7 10.8 71 388-459 60-131 (746)
104 PRK11057 ATP-dependent DNA hel 97.4 0.0017 3.6E-08 77.5 13.8 73 388-464 23-95 (607)
105 PF00176 SNF2_N: SNF2 family N 97.4 0.00039 8.5E-09 74.3 7.5 140 395-587 2-174 (299)
106 PRK11664 ATP-dependent RNA hel 97.4 0.00069 1.5E-08 82.9 10.3 62 394-456 8-70 (812)
107 COG4098 comFA Superfamily II D 97.3 0.00092 2E-08 72.1 9.4 76 390-466 97-178 (441)
108 TIGR01587 cas3_core CRISPR-ass 97.3 0.0011 2.4E-08 73.4 10.4 50 408-457 2-52 (358)
109 COG0513 SrmB Superfamily II DN 97.3 0.013 2.8E-07 68.6 19.1 70 388-457 49-122 (513)
110 PF13361 UvrD_C: UvrD-like hel 97.2 0.00094 2E-08 72.6 8.8 97 618-734 1-102 (351)
111 COG1111 MPH1 ERCC4-like helica 97.2 0.0015 3.3E-08 73.8 10.1 123 392-567 17-147 (542)
112 KOG0952 DNA/RNA helicase MER3/ 97.2 0.0015 3.3E-08 78.8 10.2 69 388-456 108-186 (1230)
113 cd00009 AAA The AAA+ (ATPases 97.1 0.0015 3.2E-08 61.0 7.7 55 393-448 4-61 (151)
114 COG1200 RecG RecG-like helicas 97.1 0.037 8.1E-07 65.2 20.4 249 390-731 262-531 (677)
115 TIGR01967 DEAH_box_HrpA ATP-de 97.1 0.0012 2.6E-08 83.5 8.6 64 394-457 70-134 (1283)
116 TIGR02784 addA_alphas double-s 97.1 0.00073 1.6E-08 86.2 6.8 51 406-456 11-63 (1141)
117 PRK11747 dinG ATP-dependent DN 97.1 0.0063 1.4E-07 73.7 14.5 60 393-453 28-97 (697)
118 cd01124 KaiC KaiC is a circadi 97.0 0.00098 2.1E-08 66.5 6.0 52 407-460 1-52 (187)
119 PRK12377 putative replication 97.0 0.002 4.4E-08 68.2 8.4 49 392-441 80-136 (248)
120 PRK00771 signal recognition pa 97.0 0.0046 9.9E-08 70.6 11.8 53 407-460 97-152 (437)
121 PRK08181 transposase; Validate 97.0 0.0026 5.6E-08 68.2 9.2 62 388-455 85-150 (269)
122 PRK07246 bifunctional ATP-depe 97.0 0.0052 1.1E-07 75.7 12.8 61 390-452 245-309 (820)
123 PRK07952 DNA replication prote 97.0 0.0025 5.4E-08 67.4 8.6 59 391-455 77-143 (244)
124 TIGR03499 FlhF flagellar biosy 97.0 0.0035 7.5E-08 67.7 9.9 36 407-442 196-232 (282)
125 TIGR01407 dinG_rel DnaQ family 97.0 0.0046 1E-07 76.7 12.3 62 391-453 246-311 (850)
126 PRK14722 flhF flagellar biosyn 97.0 0.0036 7.8E-08 70.0 10.1 48 405-452 137-188 (374)
127 PRK12723 flagellar biosynthesi 96.9 0.004 8.6E-08 70.1 10.1 56 406-461 175-236 (388)
128 TIGR03158 cas3_cyano CRISPR-as 96.9 0.0066 1.4E-07 67.7 11.9 59 395-457 2-62 (357)
129 TIGR02621 cas3_GSU0051 CRISPR- 96.9 0.0036 7.8E-08 76.1 10.1 68 391-458 16-86 (844)
130 PRK08074 bifunctional ATP-depe 96.9 0.0062 1.3E-07 76.1 12.5 62 392-453 259-324 (928)
131 PRK12898 secA preprotein trans 96.9 0.0065 1.4E-07 72.2 11.8 63 391-456 104-166 (656)
132 TIGR03714 secA2 accessory Sec 96.9 0.0057 1.2E-07 73.7 11.2 64 391-456 69-133 (762)
133 PF02399 Herpes_ori_bp: Origin 96.9 0.0011 2.5E-08 79.1 5.3 55 405-459 49-103 (824)
134 PF00448 SRP54: SRP54-type pro 96.9 0.0028 6E-08 64.8 7.5 57 407-464 3-62 (196)
135 PRK12899 secA preprotein trans 96.8 0.0067 1.5E-07 73.9 11.6 65 391-456 93-157 (970)
136 PRK11889 flhF flagellar biosyn 96.8 0.0056 1.2E-07 68.5 10.1 55 406-461 242-299 (436)
137 PRK04914 ATP-dependent helicas 96.8 0.014 3.1E-07 72.4 13.9 70 390-460 152-225 (956)
138 smart00382 AAA ATPases associa 96.8 0.0011 2.4E-08 61.1 3.3 42 405-447 2-43 (148)
139 PRK05703 flhF flagellar biosyn 96.7 0.0076 1.7E-07 68.8 10.6 47 406-452 222-272 (424)
140 COG4889 Predicted helicase [Ge 96.7 0.01 2.2E-07 70.6 11.6 62 389-454 160-226 (1518)
141 PRK06526 transposase; Provisio 96.7 0.0034 7.4E-08 66.8 7.2 52 388-440 78-132 (254)
142 KOG0989 Replication factor C, 96.7 0.0016 3.5E-08 69.6 4.6 27 405-431 57-83 (346)
143 PRK14958 DNA polymerase III su 96.7 0.0055 1.2E-07 71.4 9.1 46 550-595 118-169 (509)
144 PRK13709 conjugal transfer nic 96.7 0.018 3.8E-07 75.3 14.3 62 391-453 414-478 (1747)
145 PRK14956 DNA polymerase III su 96.7 0.0039 8.4E-08 71.6 7.6 24 407-430 42-65 (484)
146 COG1199 DinG Rad3-related DNA 96.6 0.013 2.7E-07 70.7 12.2 67 391-457 16-86 (654)
147 PRK11131 ATP-dependent RNA hel 96.5 0.0034 7.5E-08 79.3 6.3 62 395-456 78-140 (1294)
148 PRK12323 DNA polymerase III su 96.5 0.0085 1.8E-07 70.8 8.9 45 551-595 124-174 (700)
149 PF06745 KaiC: KaiC; InterPro 96.5 0.0056 1.2E-07 63.5 6.7 54 405-460 19-73 (226)
150 PF13401 AAA_22: AAA domain; P 96.5 0.0029 6.3E-08 59.2 4.1 52 405-456 4-60 (131)
151 PRK07994 DNA polymerase III su 96.4 0.0077 1.7E-07 71.8 8.4 46 550-595 118-169 (647)
152 TIGR00708 cobA cob(I)alamin ad 96.4 0.02 4.4E-07 57.2 10.2 37 405-442 5-41 (173)
153 TIGR00064 ftsY signal recognit 96.4 0.0082 1.8E-07 64.5 7.8 56 406-462 73-131 (272)
154 PF01695 IstB_IS21: IstB-like 96.4 0.0093 2E-07 60.0 7.7 45 405-455 47-91 (178)
155 PRK07003 DNA polymerase III su 96.4 0.012 2.7E-07 70.4 9.6 46 550-595 118-169 (830)
156 cd00561 CobA_CobO_BtuR ATP:cor 96.4 0.044 9.5E-07 54.2 11.9 59 405-466 2-64 (159)
157 COG1484 DnaC DNA replication p 96.4 0.0059 1.3E-07 65.0 6.1 53 389-442 82-141 (254)
158 PLN03137 ATP-dependent DNA hel 96.3 0.032 6.9E-07 69.6 13.0 73 389-465 459-531 (1195)
159 PRK14949 DNA polymerase III su 96.3 0.0081 1.8E-07 73.2 7.4 25 406-430 39-63 (944)
160 PRK14952 DNA polymerase III su 96.2 0.014 3.1E-07 68.9 9.0 24 407-430 37-60 (584)
161 TIGR03877 thermo_KaiC_1 KaiC d 96.2 0.007 1.5E-07 63.5 5.8 54 405-460 21-74 (237)
162 PRK05973 replicative DNA helic 96.2 0.0089 1.9E-07 62.9 6.4 53 405-459 64-116 (237)
163 cd01131 PilT Pilus retraction 96.2 0.0059 1.3E-07 62.3 5.0 37 405-441 1-37 (198)
164 PRK08116 hypothetical protein; 96.2 0.017 3.8E-07 61.9 8.5 34 407-441 116-149 (268)
165 KOG0744 AAA+-type ATPase [Post 96.2 0.0034 7.3E-08 67.6 3.0 27 405-431 177-203 (423)
166 PF00004 AAA: ATPase family as 96.2 0.0036 7.9E-08 58.3 2.9 22 408-429 1-22 (132)
167 PRK10416 signal recognition pa 96.2 0.013 2.8E-07 64.4 7.6 55 407-462 116-173 (318)
168 PRK08084 DNA replication initi 96.1 0.016 3.6E-07 60.7 7.9 52 390-442 27-81 (235)
169 PRK09183 transposase/IS protei 96.1 0.014 3.1E-07 62.2 7.2 53 388-441 82-137 (259)
170 PRK05563 DNA polymerase III su 96.0 0.018 3.8E-07 68.1 8.6 25 406-430 39-63 (559)
171 cd03115 SRP The signal recogni 96.0 0.015 3.2E-07 57.7 6.9 37 407-444 2-39 (173)
172 cd01129 PulE-GspE PulE/GspE Th 96.0 0.011 2.3E-07 63.4 6.1 50 390-440 63-114 (264)
173 PF13191 AAA_16: AAA ATPase do 96.0 0.015 3.3E-07 57.5 6.9 41 393-433 6-52 (185)
174 PRK08533 flagellar accessory p 96.0 0.011 2.4E-07 61.9 6.1 53 405-459 24-76 (230)
175 PLN03142 Probable chromatin-re 96.0 0.066 1.4E-06 67.0 13.6 149 390-587 169-331 (1033)
176 COG1205 Distinct helicase fami 96.0 0.043 9.3E-07 67.8 11.9 68 390-457 70-138 (851)
177 TIGR03880 KaiC_arch_3 KaiC dom 96.0 0.013 2.7E-07 60.8 6.2 54 405-460 16-69 (224)
178 PRK06893 DNA replication initi 96.0 0.013 2.8E-07 61.3 6.3 37 405-442 39-75 (229)
179 cd01120 RecA-like_NTPases RecA 96.0 0.012 2.6E-07 56.5 5.5 41 407-448 1-41 (165)
180 PRK09200 preprotein translocas 95.9 0.046 1E-06 66.5 11.6 62 392-456 80-141 (790)
181 PRK14948 DNA polymerase III su 95.9 0.022 4.7E-07 68.1 8.7 26 406-431 39-64 (620)
182 PRK12727 flagellar biosynthesi 95.9 0.03 6.6E-07 64.9 9.5 37 405-441 350-387 (559)
183 PRK14969 DNA polymerase III su 95.9 0.03 6.4E-07 65.8 9.6 44 551-594 119-168 (527)
184 TIGR03878 thermo_KaiC_2 KaiC d 95.9 0.012 2.6E-07 62.8 5.7 48 405-454 36-83 (259)
185 PRK10867 signal recognition pa 95.9 0.017 3.7E-07 65.9 7.2 58 407-464 102-162 (433)
186 smart00763 AAA_PrkA PrkA AAA d 95.8 0.02 4.4E-07 63.5 7.4 26 405-430 78-103 (361)
187 COG0552 FtsY Signal recognitio 95.8 0.021 4.5E-07 62.2 7.3 58 407-464 141-200 (340)
188 COG2805 PilT Tfp pilus assembl 95.8 0.013 2.7E-07 62.9 5.3 35 404-438 124-158 (353)
189 PRK14951 DNA polymerase III su 95.8 0.021 4.6E-07 67.9 7.7 44 551-594 124-173 (618)
190 TIGR03420 DnaA_homol_Hda DnaA 95.8 0.027 5.9E-07 58.0 7.7 50 391-441 21-73 (226)
191 PRK06851 hypothetical protein; 95.8 0.0083 1.8E-07 66.9 4.0 48 405-452 30-78 (367)
192 PRK06067 flagellar accessory p 95.8 0.019 4.1E-07 60.0 6.5 54 405-460 25-78 (234)
193 PF13481 AAA_25: AAA domain; P 95.7 0.019 4E-07 57.7 6.1 52 405-457 32-92 (193)
194 PHA03311 helicase-primase subu 95.7 0.022 4.8E-07 67.5 7.3 44 406-455 72-115 (828)
195 KOG0991 Replication factor C, 95.7 0.0079 1.7E-07 62.2 3.2 27 405-431 48-74 (333)
196 PRK13833 conjugal transfer pro 95.7 0.021 4.6E-07 62.7 6.8 50 390-439 128-179 (323)
197 PRK04296 thymidine kinase; Pro 95.7 0.014 3E-07 59.3 4.9 36 406-442 3-38 (190)
198 PF13207 AAA_17: AAA domain; P 95.7 0.0094 2E-07 55.1 3.4 22 408-429 2-23 (121)
199 PRK08903 DnaA regulatory inact 95.7 0.033 7.1E-07 57.8 7.8 50 390-440 23-76 (227)
200 PRK09112 DNA polymerase III su 95.7 0.049 1.1E-06 60.7 9.6 38 395-432 31-72 (351)
201 PRK13894 conjugal transfer ATP 95.7 0.023 4.9E-07 62.5 6.9 53 390-442 132-186 (319)
202 TIGR00963 secA preprotein tran 95.6 0.061 1.3E-06 64.8 10.9 61 393-456 59-119 (745)
203 TIGR02782 TrbB_P P-type conjug 95.6 0.023 4.9E-07 62.0 6.7 51 391-441 117-169 (299)
204 TIGR02774 rexB_recomb ATP-depe 95.6 0.14 2.9E-06 65.2 14.5 155 551-733 185-349 (1076)
205 PRK05986 cob(I)alamin adenolsy 95.6 0.16 3.6E-06 51.6 12.4 60 404-466 21-84 (191)
206 PRK04328 hypothetical protein; 95.6 0.023 5E-07 60.2 6.5 53 405-459 23-75 (249)
207 TIGR01425 SRP54_euk signal rec 95.6 0.028 6E-07 64.0 7.4 56 407-463 102-160 (429)
208 PF05729 NACHT: NACHT domain 95.6 0.012 2.5E-07 57.0 3.8 28 406-433 1-28 (166)
209 cd01122 GP4d_helicase GP4d_hel 95.6 0.022 4.7E-07 60.7 6.2 51 405-456 30-80 (271)
210 PRK09694 helicase Cas3; Provis 95.6 0.039 8.4E-07 68.2 9.1 67 390-456 286-353 (878)
211 PRK08727 hypothetical protein; 95.6 0.062 1.3E-06 56.4 9.5 35 406-441 42-76 (233)
212 PRK13104 secA preprotein trans 95.6 0.032 7E-07 68.1 8.2 47 409-456 99-145 (896)
213 TIGR02928 orc1/cdc6 family rep 95.5 0.013 2.8E-07 65.1 4.6 40 392-431 20-66 (365)
214 TIGR00959 ffh signal recogniti 95.5 0.03 6.4E-07 63.9 7.5 57 407-464 101-161 (428)
215 PRK06835 DNA replication prote 95.5 0.028 6.1E-07 62.0 6.8 36 405-441 183-218 (329)
216 PRK10436 hypothetical protein; 95.4 0.022 4.8E-07 65.6 6.0 41 390-430 201-243 (462)
217 TIGR02655 circ_KaiC circadian 95.4 0.023 4.9E-07 66.1 6.1 54 405-460 263-316 (484)
218 TIGR02655 circ_KaiC circadian 95.4 0.021 4.6E-07 66.3 5.9 55 405-460 21-75 (484)
219 TIGR02533 type_II_gspE general 95.4 0.02 4.3E-07 66.5 5.5 41 390-430 225-267 (486)
220 PLN03025 replication factor C 95.4 0.021 4.5E-07 62.7 5.3 40 392-431 18-60 (319)
221 TIGR02881 spore_V_K stage V sp 95.4 0.013 2.9E-07 62.3 3.7 26 406-431 43-68 (261)
222 COG0467 RAD55 RecA-superfamily 95.3 0.027 5.8E-07 59.9 5.9 44 405-449 23-66 (260)
223 PRK06921 hypothetical protein; 95.3 0.048 1E-06 58.5 7.7 38 405-442 117-154 (266)
224 PRK08691 DNA polymerase III su 95.3 0.063 1.4E-06 64.3 9.2 45 551-595 119-169 (709)
225 TIGR02640 gas_vesic_GvpN gas v 95.3 0.031 6.8E-07 59.6 6.2 24 404-427 20-43 (262)
226 PRK00411 cdc6 cell division co 95.2 0.043 9.3E-07 61.7 7.5 40 393-432 36-82 (394)
227 TIGR03881 KaiC_arch_4 KaiC dom 95.2 0.033 7.1E-07 57.8 6.1 53 405-459 20-72 (229)
228 TIGR02237 recomb_radB DNA repa 95.2 0.032 7E-07 57.0 5.9 39 405-444 12-50 (209)
229 cd00984 DnaB_C DnaB helicase C 95.2 0.035 7.5E-07 58.0 6.3 50 405-455 13-62 (242)
230 PF07728 AAA_5: AAA domain (dy 95.2 0.024 5.1E-07 54.0 4.6 22 408-429 2-23 (139)
231 PF06309 Torsin: Torsin; Inte 95.2 0.028 6.1E-07 53.2 4.8 29 405-433 52-81 (127)
232 COG0541 Ffh Signal recognition 95.2 0.21 4.6E-06 56.3 12.3 58 407-464 102-161 (451)
233 KOG0330 ATP-dependent RNA heli 95.1 0.068 1.5E-06 59.0 8.2 69 389-457 82-152 (476)
234 cd01394 radB RadB. The archaea 95.1 0.026 5.7E-07 58.1 4.9 36 405-441 19-54 (218)
235 PRK14965 DNA polymerase III su 95.1 0.069 1.5E-06 63.5 9.0 37 394-430 23-63 (576)
236 KOG0335 ATP-dependent RNA heli 95.1 0.051 1.1E-06 61.9 7.5 68 390-457 96-175 (482)
237 KOG0743 AAA+-type ATPase [Post 95.1 0.011 2.5E-07 66.4 2.2 24 406-429 236-259 (457)
238 TIGR01650 PD_CobS cobaltochela 95.0 0.03 6.5E-07 61.5 5.3 40 390-429 48-88 (327)
239 PF05496 RuvB_N: Holliday junc 95.0 0.016 3.4E-07 60.3 2.8 33 552-585 102-137 (233)
240 PRK12402 replication factor C 95.0 0.037 8E-07 60.6 6.0 41 392-432 20-63 (337)
241 PHA03333 putative ATPase subun 95.0 0.32 7E-06 57.9 13.8 65 393-457 175-239 (752)
242 PRK05642 DNA replication initi 95.0 0.074 1.6E-06 55.8 7.9 35 406-441 46-80 (234)
243 PRK12726 flagellar biosynthesi 95.0 0.047 1E-06 61.1 6.6 56 405-461 206-264 (407)
244 PF13671 AAA_33: AAA domain; P 95.0 0.017 3.6E-07 54.9 2.7 22 407-428 1-22 (143)
245 PRK12724 flagellar biosynthesi 94.9 0.063 1.4E-06 60.9 7.4 36 406-441 224-259 (432)
246 PRK09361 radB DNA repair and r 94.9 0.034 7.5E-07 57.6 5.1 38 405-443 23-60 (225)
247 TIGR02538 type_IV_pilB type IV 94.9 0.038 8.3E-07 65.4 6.0 40 390-429 299-340 (564)
248 TIGR01420 pilT_fam pilus retra 94.9 0.026 5.7E-07 62.6 4.4 36 405-440 122-157 (343)
249 PF13238 AAA_18: AAA domain; P 94.8 0.024 5.1E-07 52.5 3.3 22 408-429 1-22 (129)
250 PRK07471 DNA polymerase III su 94.8 0.15 3.3E-06 57.2 10.2 37 396-432 28-68 (365)
251 TIGR02880 cbbX_cfxQ probable R 94.8 0.025 5.4E-07 61.2 3.7 26 407-432 60-85 (284)
252 TIGR02525 plasmid_TraJ plasmid 94.8 0.061 1.3E-06 60.3 6.9 47 391-439 137-184 (372)
253 COG2804 PulE Type II secretory 94.8 0.045 9.8E-07 62.7 5.9 42 390-431 241-284 (500)
254 PF02492 cobW: CobW/HypB/UreG, 94.8 0.065 1.4E-06 53.7 6.5 57 406-466 1-59 (178)
255 KOG2028 ATPase related to the 94.8 0.037 8.1E-07 60.6 5.0 48 406-454 163-210 (554)
256 PRK12326 preprotein translocas 94.7 0.083 1.8E-06 63.2 8.2 111 408-572 89-219 (764)
257 PF13173 AAA_14: AAA domain 94.7 0.052 1.1E-06 51.2 5.4 41 405-447 2-42 (128)
258 COG1197 Mfd Transcription-repa 94.6 0.2 4.3E-06 62.5 11.3 75 389-464 593-677 (1139)
259 PRK14873 primosome assembly pr 94.6 0.14 3.1E-06 61.6 10.0 48 409-457 164-211 (665)
260 cd01983 Fer4_NifH The Fer4_Nif 94.6 0.055 1.2E-06 47.0 4.9 33 408-441 2-34 (99)
261 TIGR00635 ruvB Holliday juncti 94.6 0.043 9.4E-07 59.4 5.1 24 406-429 31-54 (305)
262 TIGR03015 pepcterm_ATPase puta 94.6 0.07 1.5E-06 56.5 6.5 38 392-429 25-67 (269)
263 cd01130 VirB11-like_ATPase Typ 94.5 0.05 1.1E-06 54.9 5.0 39 390-428 9-48 (186)
264 TIGR02012 tigrfam_recA protein 94.5 0.066 1.4E-06 58.8 6.3 39 406-445 56-94 (321)
265 COG2256 MGS1 ATPase related to 94.5 0.052 1.1E-06 60.4 5.3 43 406-452 49-91 (436)
266 PRK05707 DNA polymerase III su 94.5 0.13 2.8E-06 56.9 8.5 45 551-595 106-156 (328)
267 PHA03368 DNA packaging termina 94.5 0.36 7.7E-06 57.4 12.3 55 402-456 251-306 (738)
268 COG1474 CDC6 Cdc6-related prot 94.4 0.089 1.9E-06 59.0 7.2 64 393-456 23-95 (366)
269 PRK11823 DNA repair protein Ra 94.4 0.066 1.4E-06 61.6 6.3 53 405-459 80-132 (446)
270 KOG0922 DEAH-box RNA helicase 94.4 0.14 3E-06 60.1 8.8 53 404-456 65-117 (674)
271 PRK08939 primosomal protein Dn 94.4 0.041 8.8E-07 60.2 4.3 34 407-441 158-191 (306)
272 PHA00729 NTP-binding motif con 94.4 0.033 7.2E-07 58.0 3.4 24 407-430 19-42 (226)
273 PRK09302 circadian clock prote 94.3 0.067 1.4E-06 62.6 6.3 54 405-460 273-326 (509)
274 CHL00181 cbbX CbbX; Provisiona 94.3 0.036 7.9E-07 60.0 3.8 26 407-432 61-86 (287)
275 cd00983 recA RecA is a bacter 94.3 0.1 2.2E-06 57.5 7.2 40 405-445 55-94 (325)
276 PF02689 Herpes_Helicase: Heli 94.3 0.23 4.9E-06 59.3 10.3 48 403-456 57-104 (818)
277 PRK04195 replication factor C 94.3 0.05 1.1E-06 63.3 5.0 39 391-429 18-63 (482)
278 PRK09751 putative ATP-dependen 94.3 0.1 2.2E-06 67.6 8.0 47 410-456 1-59 (1490)
279 cd02019 NK Nucleoside/nucleoti 94.3 0.07 1.5E-06 44.9 4.6 22 408-429 2-23 (69)
280 cd01121 Sms Sms (bacterial rad 94.3 0.077 1.7E-06 59.6 6.3 52 405-458 82-133 (372)
281 PF00437 T2SE: Type II/IV secr 94.3 0.05 1.1E-06 58.0 4.6 47 394-441 115-162 (270)
282 PTZ00112 origin recognition co 94.1 0.059 1.3E-06 65.4 5.2 39 393-431 761-807 (1164)
283 PRK06731 flhF flagellar biosyn 94.1 0.3 6.5E-06 52.5 10.2 53 406-459 76-131 (270)
284 PRK07764 DNA polymerase III su 94.1 0.16 3.6E-06 62.5 9.2 24 407-430 39-62 (824)
285 COG1643 HrpA HrpA-like helicas 94.1 0.12 2.6E-06 63.3 8.0 64 394-457 53-117 (845)
286 PRK06851 hypothetical protein; 94.1 0.059 1.3E-06 60.2 4.9 45 405-450 214-260 (367)
287 COG1102 Cmk Cytidylate kinase 94.1 0.039 8.4E-07 54.3 3.0 22 408-429 3-24 (179)
288 PRK09302 circadian clock prote 94.1 0.083 1.8E-06 61.8 6.4 55 405-460 31-85 (509)
289 cd00544 CobU Adenosylcobinamid 94.1 0.065 1.4E-06 53.5 4.7 46 407-456 1-46 (169)
290 TIGR02524 dot_icm_DotB Dot/Icm 94.1 0.093 2E-06 58.6 6.4 29 404-432 133-161 (358)
291 PF00308 Bac_DnaA: Bacterial d 94.0 0.19 4.2E-06 52.2 8.3 35 407-441 36-71 (219)
292 PRK00149 dnaA chromosomal repl 94.0 0.17 3.6E-06 58.4 8.6 37 406-442 149-186 (450)
293 TIGR01359 UMP_CMP_kin_fam UMP- 94.0 0.041 8.8E-07 54.9 3.1 22 407-428 1-22 (183)
294 PF12846 AAA_10: AAA-like doma 94.0 0.071 1.5E-06 56.8 5.1 57 405-466 1-57 (304)
295 PRK00080 ruvB Holliday junctio 94.0 0.067 1.4E-06 58.9 5.0 24 406-429 52-75 (328)
296 KOG0780 Signal recognition par 94.0 0.47 1E-05 52.7 11.2 57 406-462 102-160 (483)
297 PRK13768 GTPase; Provisional 93.9 0.069 1.5E-06 56.8 4.8 34 407-441 4-37 (253)
298 PHA02544 44 clamp loader, smal 93.9 0.14 2.9E-06 55.9 7.2 39 391-429 25-67 (316)
299 COG1444 Predicted P-loop ATPas 93.9 0.86 1.9E-05 55.1 14.3 67 390-456 211-283 (758)
300 COG1222 RPT1 ATP-dependent 26S 93.9 0.063 1.4E-06 58.9 4.4 20 408-427 188-207 (406)
301 TIGR01360 aden_kin_iso1 adenyl 93.8 0.051 1.1E-06 54.2 3.4 25 405-429 3-27 (188)
302 PF00910 RNA_helicase: RNA hel 93.8 0.053 1.2E-06 49.7 3.2 24 409-432 2-25 (107)
303 TIGR01242 26Sp45 26S proteasom 93.8 0.068 1.5E-06 59.8 4.7 23 407-429 158-180 (364)
304 PRK11331 5-methylcytosine-spec 93.8 0.08 1.7E-06 60.5 5.2 40 391-430 179-219 (459)
305 PRK03992 proteasome-activating 93.7 0.078 1.7E-06 60.0 5.1 22 407-428 167-188 (389)
306 PF03308 ArgK: ArgK protein; 93.7 0.068 1.5E-06 56.6 4.2 34 407-441 31-64 (266)
307 PRK13531 regulatory ATPase Rav 93.7 0.082 1.8E-06 60.9 5.2 30 400-429 34-63 (498)
308 TIGR00416 sms DNA repair prote 93.7 0.12 2.5E-06 59.7 6.5 53 405-459 94-146 (454)
309 KOG0781 Signal recognition par 93.6 0.31 6.7E-06 55.4 9.3 46 405-451 377-426 (587)
310 TIGR03689 pup_AAA proteasome A 93.6 0.081 1.8E-06 61.6 4.9 24 407-430 218-241 (512)
311 PF03266 NTPase_1: NTPase; In 93.6 0.07 1.5E-06 53.2 3.9 25 408-432 2-26 (168)
312 PRK14088 dnaA chromosomal repl 93.5 0.21 4.6E-06 57.4 8.2 36 407-442 132-168 (440)
313 KOG1131 RNA polymerase II tran 93.5 1 2.3E-05 51.6 13.2 65 391-455 17-88 (755)
314 PF01078 Mg_chelatase: Magnesi 93.5 0.086 1.9E-06 54.2 4.5 34 393-426 9-43 (206)
315 KOG0923 mRNA splicing factor A 93.5 0.12 2.5E-06 60.5 5.9 56 405-460 280-337 (902)
316 PF03205 MobB: Molybdopterin g 93.5 0.11 2.3E-06 50.3 4.9 36 406-442 1-36 (140)
317 TIGR00362 DnaA chromosomal rep 93.5 0.14 3E-06 58.1 6.5 35 407-441 138-173 (405)
318 PTZ00361 26 proteosome regulat 93.4 0.096 2.1E-06 60.0 5.2 23 407-429 219-241 (438)
319 PF05673 DUF815: Protein of un 93.4 0.26 5.6E-06 52.0 7.8 60 405-465 52-112 (249)
320 PRK08233 hypothetical protein; 93.3 0.058 1.2E-06 53.5 2.8 24 406-429 4-27 (182)
321 cd01125 repA Hexameric Replica 93.3 0.12 2.6E-06 54.2 5.4 50 407-457 3-63 (239)
322 PRK00440 rfc replication facto 93.3 0.11 2.4E-06 56.2 5.4 38 393-430 23-63 (319)
323 TIGR00750 lao LAO/AO transport 93.3 0.1 2.2E-06 56.8 5.0 36 405-441 34-69 (300)
324 PRK09354 recA recombinase A; P 93.3 0.19 4.2E-06 55.8 7.1 39 406-445 61-99 (349)
325 PF13555 AAA_29: P-loop contai 93.3 0.09 2E-06 43.6 3.4 26 406-431 24-49 (62)
326 PRK08769 DNA polymerase III su 93.3 0.39 8.6E-06 52.8 9.4 45 551-595 113-163 (319)
327 COG4088 Predicted nucleotide k 93.3 0.078 1.7E-06 54.2 3.6 28 406-433 2-29 (261)
328 cd02021 GntK Gluconate kinase 93.3 0.062 1.3E-06 51.8 2.9 22 407-428 1-22 (150)
329 PRK14723 flhF flagellar biosyn 93.3 0.15 3.2E-06 62.0 6.5 56 406-461 186-245 (767)
330 PRK13342 recombination factor 93.2 0.13 2.8E-06 58.6 5.9 23 406-428 37-59 (413)
331 COG0556 UvrB Helicase subunit 93.2 0.18 3.9E-06 57.9 6.7 61 393-457 15-80 (663)
332 COG1201 Lhr Lhr-like helicases 93.2 0.31 6.7E-06 59.5 9.1 68 389-456 21-95 (814)
333 PRK14962 DNA polymerase III su 93.2 0.088 1.9E-06 61.0 4.4 24 407-430 38-61 (472)
334 PRK06995 flhF flagellar biosyn 93.2 0.11 2.3E-06 60.2 5.0 36 406-441 257-293 (484)
335 cd01393 recA_like RecA is a b 93.2 0.14 3E-06 52.9 5.4 40 405-444 19-63 (226)
336 COG3857 AddB ATP-dependent nuc 93.1 2.9 6.2E-05 51.9 16.9 58 407-465 3-66 (1108)
337 KOG0348 ATP-dependent RNA heli 93.1 0.29 6.3E-06 56.1 8.1 69 389-457 158-234 (708)
338 PRK08118 topology modulation p 93.1 0.075 1.6E-06 52.8 3.2 21 408-428 4-24 (167)
339 KOG0738 AAA+-type ATPase [Post 93.1 0.028 6E-07 62.1 0.1 47 408-463 248-294 (491)
340 PRK05541 adenylylsulfate kinas 93.0 0.13 2.7E-06 51.2 4.8 29 406-434 8-36 (176)
341 TIGR00176 mobB molybdopterin-g 93.0 0.13 2.9E-06 50.5 4.8 35 408-443 2-36 (155)
342 COG5192 BMS1 GTP-binding prote 93.0 0.11 2.4E-06 59.4 4.7 25 408-432 72-96 (1077)
343 PRK14961 DNA polymerase III su 93.0 0.1 2.2E-06 58.4 4.5 24 407-430 40-63 (363)
344 PRK00131 aroK shikimate kinase 93.0 0.091 2E-06 51.5 3.6 25 405-429 4-28 (175)
345 PRK05800 cobU adenosylcobinami 92.9 0.12 2.6E-06 51.7 4.4 46 407-456 3-48 (170)
346 COG1419 FlhF Flagellar GTP-bin 92.9 0.13 2.8E-06 57.7 5.0 37 405-441 203-240 (407)
347 cd03114 ArgK-like The function 92.9 0.14 3.1E-06 49.8 4.8 33 408-441 2-34 (148)
348 KOG0385 Chromatin remodeling c 92.9 0.5 1.1E-05 56.4 9.8 147 390-587 167-329 (971)
349 PRK14530 adenylate kinase; Pro 92.8 0.093 2E-06 54.1 3.6 25 405-429 3-27 (215)
350 PRK09435 membrane ATPase/prote 92.8 0.14 2.9E-06 56.7 5.0 35 407-442 58-92 (332)
351 PF03215 Rad17: Rad17 cell cyc 92.8 0.13 2.8E-06 60.2 5.1 24 406-429 46-69 (519)
352 PRK03839 putative kinase; Prov 92.8 0.092 2E-06 52.4 3.4 22 408-429 3-24 (180)
353 PTZ00301 uridine kinase; Provi 92.7 0.15 3.3E-06 52.7 5.0 27 406-432 4-30 (210)
354 PRK14531 adenylate kinase; Pro 92.7 0.093 2E-06 52.7 3.3 22 407-428 4-25 (183)
355 PRK12422 chromosomal replicati 92.7 0.31 6.7E-06 56.1 7.9 36 406-442 142-177 (445)
356 PRK06762 hypothetical protein; 92.6 0.1 2.2E-06 51.3 3.4 24 406-429 3-26 (166)
357 cd02028 UMPK_like Uridine mono 92.6 0.16 3.5E-06 51.0 4.8 33 407-440 1-33 (179)
358 COG1936 Predicted nucleotide k 92.6 0.086 1.9E-06 52.5 2.8 20 407-426 2-21 (180)
359 PF07726 AAA_3: ATPase family 92.6 0.058 1.3E-06 51.3 1.6 36 553-590 64-102 (131)
360 TIGR00665 DnaB replicative DNA 92.5 0.19 4E-06 57.6 5.8 52 405-457 195-246 (434)
361 cd01428 ADK Adenylate kinase ( 92.5 0.096 2.1E-06 52.5 3.1 21 408-428 2-22 (194)
362 PRK10463 hydrogenase nickel in 92.4 0.38 8.2E-06 52.1 7.7 72 392-466 88-162 (290)
363 PF13521 AAA_28: AAA domain; P 92.4 0.09 1.9E-06 51.6 2.7 21 408-428 2-22 (163)
364 PRK12608 transcription termina 92.4 0.18 4E-06 56.3 5.4 51 406-456 134-187 (380)
365 PRK07667 uridine kinase; Provi 92.4 0.18 3.9E-06 51.3 5.0 36 406-442 18-53 (193)
366 COG4581 Superfamily II RNA hel 92.4 0.33 7.1E-06 60.5 8.0 66 390-456 119-184 (1041)
367 PRK14532 adenylate kinase; Pro 92.4 0.094 2E-06 52.6 2.9 20 408-427 3-22 (188)
368 cd02023 UMPK Uridine monophosp 92.4 0.16 3.4E-06 51.5 4.5 33 407-442 1-33 (198)
369 KOG0389 SNF2 family DNA-depend 92.4 0.31 6.8E-06 58.2 7.3 149 390-587 399-564 (941)
370 COG1703 ArgK Putative periplas 92.4 0.13 2.9E-06 55.3 4.0 34 407-441 53-86 (323)
371 KOG1533 Predicted GTPase [Gene 92.4 0.12 2.6E-06 53.7 3.5 32 408-440 5-36 (290)
372 KOG3347 Predicted nucleotide k 92.3 0.12 2.5E-06 50.4 3.2 22 405-426 7-28 (176)
373 PHA02244 ATPase-like protein 92.3 0.18 3.9E-06 56.3 5.2 32 397-428 110-142 (383)
374 PRK13900 type IV secretion sys 92.3 0.21 4.5E-06 55.3 5.7 41 397-439 151-192 (332)
375 TIGR01313 therm_gnt_kin carboh 92.3 0.086 1.9E-06 51.6 2.4 21 409-429 2-22 (163)
376 PRK00889 adenylylsulfate kinas 92.3 0.19 4.2E-06 49.8 5.0 34 406-440 5-38 (175)
377 PRK06620 hypothetical protein; 92.3 0.1 2.2E-06 54.1 3.0 19 406-424 45-63 (214)
378 COG1618 Predicted nucleotide k 92.3 0.14 3E-06 50.6 3.7 26 408-433 8-33 (179)
379 cd02034 CooC The accessory pro 92.2 0.22 4.7E-06 46.6 4.9 45 408-456 2-46 (116)
380 TIGR03574 selen_PSTK L-seryl-t 92.2 0.17 3.7E-06 53.4 4.7 33 407-440 1-33 (249)
381 COG0714 MoxR-like ATPases [Gen 92.2 0.16 3.4E-06 56.0 4.6 37 393-429 30-67 (329)
382 KOG0328 Predicted ATP-dependen 92.2 0.076 1.6E-06 56.3 1.9 67 392-458 51-119 (400)
383 PLN02200 adenylate kinase fami 92.2 0.12 2.5E-06 54.4 3.3 23 406-428 44-66 (234)
384 KOG4284 DEAD box protein [Tran 92.1 0.22 4.7E-06 58.2 5.6 68 392-459 49-118 (980)
385 cd02020 CMPK Cytidine monophos 92.1 0.12 2.7E-06 49.0 3.3 22 408-429 2-23 (147)
386 PTZ00454 26S protease regulato 92.1 0.098 2.1E-06 59.3 2.9 23 406-428 180-202 (398)
387 TIGR00041 DTMP_kinase thymidyl 92.1 0.29 6.4E-06 49.2 6.1 34 406-440 4-37 (195)
388 COG3854 SpoIIIAA ncharacterize 92.1 0.18 4E-06 52.4 4.5 37 408-444 140-180 (308)
389 COG4178 ABC-type uncharacteriz 92.1 0.22 4.7E-06 58.8 5.7 22 405-426 419-440 (604)
390 cd00227 CPT Chloramphenicol (C 92.0 0.14 3.1E-06 50.9 3.6 24 405-428 2-25 (175)
391 PRK04040 adenylate kinase; Pro 92.0 0.13 2.8E-06 52.3 3.3 23 407-429 4-26 (188)
392 PRK06696 uridine kinase; Valid 92.0 0.2 4.4E-06 52.0 5.0 33 407-440 24-56 (223)
393 PRK14963 DNA polymerase III su 92.0 0.16 3.5E-06 59.4 4.6 24 407-430 38-61 (504)
394 PRK13103 secA preprotein trans 92.0 0.56 1.2E-05 57.7 9.2 69 686-759 428-514 (913)
395 cd01123 Rad51_DMC1_radA Rad51_ 92.0 0.2 4.4E-06 52.0 4.9 40 405-444 19-63 (235)
396 PRK14527 adenylate kinase; Pro 92.0 0.13 2.8E-06 51.9 3.4 24 405-428 6-29 (191)
397 PF00406 ADK: Adenylate kinase 92.0 0.11 2.5E-06 50.2 2.8 19 410-428 1-19 (151)
398 COG1202 Superfamily II helicas 92.0 0.4 8.7E-06 55.5 7.4 78 388-466 214-298 (830)
399 PRK14087 dnaA chromosomal repl 92.0 0.31 6.7E-06 56.2 6.8 37 406-442 142-179 (450)
400 cd02025 PanK Pantothenate kina 92.0 0.2 4.3E-06 52.1 4.8 35 408-442 2-37 (220)
401 TIGR02322 phosphon_PhnN phosph 91.9 0.13 2.9E-06 51.1 3.3 24 406-429 2-25 (179)
402 PRK12904 preprotein translocas 91.9 0.49 1.1E-05 57.9 8.6 47 409-456 98-144 (830)
403 PF04665 Pox_A32: Poxvirus A32 91.9 0.18 3.8E-06 53.3 4.3 40 402-442 9-49 (241)
404 TIGR03600 phage_DnaB phage rep 91.9 0.28 6E-06 56.0 6.3 51 405-456 194-244 (421)
405 PRK05480 uridine/cytidine kina 91.9 0.2 4.4E-06 51.3 4.6 24 406-429 7-30 (209)
406 PRK12906 secA preprotein trans 91.9 0.53 1.1E-05 57.4 8.8 46 409-455 97-142 (796)
407 PRK02496 adk adenylate kinase; 91.8 0.14 2.9E-06 51.4 3.3 22 408-429 4-25 (184)
408 COG0378 HypB Ni2+-binding GTPa 91.8 0.17 3.7E-06 51.4 3.8 55 407-464 15-70 (202)
409 PF03029 ATP_bind_1: Conserved 91.8 0.13 2.8E-06 54.3 3.2 24 410-433 1-24 (238)
410 TIGR02397 dnaX_nterm DNA polym 91.8 0.22 4.7E-06 55.1 5.1 39 392-430 19-61 (355)
411 PRK14528 adenylate kinase; Pro 91.7 0.14 3.1E-06 51.7 3.3 22 407-428 3-24 (186)
412 PF00485 PRK: Phosphoribulokin 91.7 0.15 3.2E-06 51.7 3.4 27 407-433 1-27 (194)
413 PRK13764 ATPase; Provisional 91.7 0.33 7.2E-06 57.6 6.8 27 405-431 257-283 (602)
414 PF00931 NB-ARC: NB-ARC domain 91.7 0.16 3.5E-06 54.1 3.9 37 394-430 3-44 (287)
415 KOG0731 AAA+-type ATPase conta 91.7 0.12 2.6E-06 62.2 3.0 19 408-426 347-365 (774)
416 COG2255 RuvB Holliday junction 91.7 0.25 5.3E-06 53.0 5.0 22 406-428 53-74 (332)
417 PRK07261 topology modulation p 91.6 0.14 3.1E-06 51.0 3.2 20 408-427 3-22 (171)
418 PRK00279 adk adenylate kinase; 91.6 0.14 3.1E-06 52.7 3.2 21 408-428 3-23 (215)
419 PRK13107 preprotein translocas 91.6 0.61 1.3E-05 57.3 8.9 47 409-456 99-145 (908)
420 KOG0342 ATP-dependent RNA heli 91.6 0.53 1.1E-05 53.6 7.8 71 385-455 99-175 (543)
421 PLN00020 ribulose bisphosphate 91.6 0.13 2.9E-06 57.2 3.1 23 407-429 150-172 (413)
422 PRK08154 anaerobic benzoate ca 91.6 0.23 5E-06 54.4 4.9 42 388-429 105-157 (309)
423 PRK14964 DNA polymerase III su 91.5 0.4 8.8E-06 55.7 7.1 49 407-455 37-106 (491)
424 PRK14494 putative molybdopteri 91.5 0.31 6.7E-06 51.1 5.6 59 407-466 3-64 (229)
425 KOG0951 RNA helicase BRR2, DEA 91.5 0.53 1.2E-05 58.8 8.2 79 389-467 308-401 (1674)
426 cd02117 NifH_like This family 91.5 0.26 5.7E-06 50.6 5.1 32 408-440 3-34 (212)
427 TIGR00150 HI0065_YjeE ATPase, 91.5 0.3 6.5E-06 46.9 5.0 25 405-429 22-46 (133)
428 KOG0388 SNF2 family DNA-depend 91.5 0.45 9.7E-06 56.1 7.2 154 391-587 568-735 (1185)
429 PRK06645 DNA polymerase III su 91.4 0.18 3.9E-06 58.9 4.1 25 406-430 44-68 (507)
430 KOG1970 Checkpoint RAD17-RFC c 91.4 0.15 3.3E-06 58.7 3.3 31 399-429 104-134 (634)
431 KOG0390 DNA repair protein, SN 91.4 1.6 3.4E-05 53.1 11.9 64 390-454 238-317 (776)
432 KOG0651 26S proteasome regulat 91.3 0.14 3E-06 55.4 2.8 22 407-428 168-189 (388)
433 COG0610 Type I site-specific r 91.3 0.72 1.6E-05 58.1 9.5 51 407-457 275-326 (962)
434 CHL00195 ycf46 Ycf46; Provisio 91.3 0.15 3.2E-06 59.4 3.3 22 407-428 261-282 (489)
435 TIGR01351 adk adenylate kinase 91.3 0.15 3.3E-06 52.4 3.0 20 408-427 2-21 (210)
436 PRK13341 recombination factor 91.3 0.26 5.7E-06 60.0 5.5 23 406-428 53-75 (725)
437 COG0470 HolB ATPase involved i 91.3 0.33 7E-06 52.7 5.8 26 407-432 26-51 (325)
438 PRK13851 type IV secretion sys 91.3 0.21 4.5E-06 55.6 4.2 45 394-440 150-195 (344)
439 cd02027 APSK Adenosine 5'-phos 91.3 0.28 6.1E-06 47.7 4.7 27 407-433 1-27 (149)
440 COG2019 AdkA Archaeal adenylat 91.2 1.5 3.2E-05 43.8 9.5 24 406-429 5-28 (189)
441 cd03116 MobB Molybdenum is an 91.2 0.44 9.5E-06 47.1 6.1 59 407-466 3-66 (159)
442 PRK05748 replicative DNA helic 91.2 0.36 7.8E-06 55.6 6.3 51 405-456 203-253 (448)
443 PRK04301 radA DNA repair and r 91.2 0.3 6.6E-06 53.6 5.4 51 405-455 102-158 (317)
444 PF08433 KTI12: Chromatin asso 91.2 0.26 5.7E-06 52.9 4.8 35 406-441 2-36 (270)
445 PRK14957 DNA polymerase III su 91.2 0.21 4.6E-06 58.8 4.4 24 407-430 40-63 (546)
446 PRK13947 shikimate kinase; Pro 91.2 0.18 3.8E-06 49.7 3.2 22 408-429 4-25 (171)
447 cd00550 ArsA_ATPase Oxyanion-t 91.1 0.26 5.6E-06 52.4 4.7 35 406-441 1-35 (254)
448 TIGR01241 FtsH_fam ATP-depende 91.1 0.15 3.2E-06 59.6 3.0 22 407-428 90-111 (495)
449 KOG0733 Nuclear AAA ATPase (VC 91.1 0.13 2.8E-06 59.9 2.4 23 407-429 225-247 (802)
450 PRK14493 putative bifunctional 91.0 0.28 6.2E-06 52.8 4.9 34 407-442 3-36 (274)
451 PRK05439 pantothenate kinase; 91.0 0.28 6.2E-06 53.7 4.9 35 407-441 88-123 (311)
452 PHA02624 large T antigen; Prov 90.9 0.24 5.2E-06 58.4 4.4 35 395-429 417-455 (647)
453 cd01672 TMPK Thymidine monopho 90.9 0.45 9.7E-06 47.5 5.9 33 407-440 2-34 (200)
454 PRK06547 hypothetical protein; 90.8 0.2 4.4E-06 50.1 3.3 23 406-428 16-38 (172)
455 COG1223 Predicted ATPase (AAA+ 90.8 0.16 3.4E-06 53.7 2.5 21 406-426 152-172 (368)
456 PF06068 TIP49: TIP49 C-termin 90.8 0.26 5.6E-06 54.8 4.3 25 405-429 50-74 (398)
457 PRK14955 DNA polymerase III su 90.7 0.3 6.6E-06 55.3 5.0 24 407-430 40-63 (397)
458 PRK14489 putative bifunctional 90.7 0.62 1.3E-05 52.3 7.4 61 406-467 206-271 (366)
459 KOG0331 ATP-dependent RNA heli 90.7 0.69 1.5E-05 53.7 7.8 70 388-457 111-188 (519)
460 COG0563 Adk Adenylate kinase a 90.7 0.21 4.5E-06 50.4 3.2 21 408-428 3-23 (178)
461 PF13476 AAA_23: AAA domain; P 90.7 0.2 4.4E-06 49.9 3.2 28 404-431 18-45 (202)
462 PRK10751 molybdopterin-guanine 90.6 0.35 7.5E-06 48.6 4.7 39 405-444 6-44 (173)
463 COG3911 Predicted ATPase [Gene 90.6 0.21 4.6E-06 48.6 3.0 22 406-427 10-31 (183)
464 TIGR02236 recomb_radA DNA repa 90.5 0.37 8E-06 52.6 5.3 26 405-430 95-120 (310)
465 PRK13407 bchI magnesium chelat 90.5 0.31 6.8E-06 54.0 4.7 23 406-428 30-52 (334)
466 KOG0338 ATP-dependent RNA heli 90.5 2.7 6E-05 48.3 12.0 69 694-767 416-488 (691)
467 PRK05298 excinuclease ABC subu 90.4 0.99 2.1E-05 54.6 9.2 65 389-457 11-80 (652)
468 cd00464 SK Shikimate kinase (S 90.4 0.24 5.1E-06 47.6 3.3 22 408-429 2-23 (154)
469 TIGR00631 uvrb excinuclease AB 90.4 0.7 1.5E-05 55.8 7.9 62 392-457 11-77 (655)
470 PHA02530 pseT polynucleotide k 90.3 0.19 4.2E-06 54.2 2.9 24 406-429 3-26 (300)
471 PF03796 DnaB_C: DnaB-like hel 90.3 0.4 8.8E-06 50.8 5.2 51 405-456 19-69 (259)
472 PF01583 APS_kinase: Adenylyls 90.3 0.45 9.8E-06 46.9 5.1 28 407-434 4-31 (156)
473 PRK14970 DNA polymerase III su 90.2 0.39 8.5E-06 53.6 5.3 38 393-430 23-64 (367)
474 PTZ00088 adenylate kinase 1; P 90.2 0.23 5.1E-06 52.0 3.3 21 408-428 9-29 (229)
475 COG1224 TIP49 DNA helicase TIP 90.2 0.23 5E-06 54.6 3.2 25 405-429 65-89 (450)
476 PHA00547 hypothetical protein 90.2 0.44 9.6E-06 50.3 5.2 36 394-429 64-99 (337)
477 PF01580 FtsK_SpoIIIE: FtsK/Sp 90.2 0.35 7.6E-06 49.3 4.5 39 405-443 38-79 (205)
478 PF02374 ArsA_ATPase: Anion-tr 90.2 0.39 8.4E-06 52.6 5.1 44 406-450 2-47 (305)
479 PRK13765 ATP-dependent proteas 90.2 0.34 7.5E-06 58.0 5.0 51 404-454 49-99 (637)
480 PRK05896 DNA polymerase III su 90.1 0.4 8.6E-06 56.9 5.3 24 407-430 40-63 (605)
481 cd03112 CobW_like The function 90.1 0.52 1.1E-05 46.3 5.4 54 406-464 1-56 (158)
482 PTZ00202 tuzin; Provisional 90.1 0.92 2E-05 51.8 7.9 58 393-456 268-331 (550)
483 PRK08760 replicative DNA helic 90.0 0.52 1.1E-05 54.8 6.2 52 405-457 229-280 (476)
484 PF05707 Zot: Zonular occluden 90.0 0.26 5.6E-06 50.0 3.3 26 407-432 2-28 (193)
485 PF06414 Zeta_toxin: Zeta toxi 90.0 0.22 4.9E-06 50.7 2.9 25 406-430 16-40 (199)
486 PRK01184 hypothetical protein; 89.9 0.24 5.3E-06 49.5 3.0 16 407-422 3-18 (184)
487 TIGR00764 lon_rel lon-related 89.9 0.45 9.7E-06 57.0 5.6 47 405-451 37-83 (608)
488 PF13479 AAA_24: AAA domain 89.8 0.25 5.3E-06 51.1 3.0 27 407-442 5-31 (213)
489 TIGR02858 spore_III_AA stage I 89.8 0.94 2E-05 48.7 7.5 24 406-429 112-135 (270)
490 PRK06217 hypothetical protein; 89.8 0.25 5.3E-06 49.6 2.9 22 408-429 4-25 (183)
491 PRK05595 replicative DNA helic 89.7 0.56 1.2E-05 54.0 6.2 52 405-457 201-252 (444)
492 PRK09519 recA DNA recombinatio 89.7 0.65 1.4E-05 56.7 6.9 48 405-453 60-107 (790)
493 PRK07940 DNA polymerase III su 89.7 0.36 7.9E-06 54.7 4.5 45 551-595 117-167 (394)
494 TIGR00602 rad24 checkpoint pro 89.7 0.41 8.9E-06 57.3 5.1 38 392-429 89-134 (637)
495 PRK06761 hypothetical protein; 89.6 0.27 5.8E-06 53.2 3.2 26 406-431 4-29 (282)
496 cd02037 MRP-like MRP (Multiple 89.6 0.45 9.9E-06 46.9 4.6 33 407-440 2-34 (169)
497 TIGR03575 selen_PSTK_euk L-ser 89.5 0.43 9.3E-06 53.0 4.8 38 407-444 1-38 (340)
498 KOG0742 AAA+-type ATPase [Post 89.5 0.22 4.7E-06 55.5 2.4 22 407-428 386-407 (630)
499 PF07517 SecA_DEAD: SecA DEAD- 89.5 1.5 3.4E-05 47.0 8.8 62 390-454 77-138 (266)
500 PRK05342 clpX ATP-dependent pr 89.4 0.3 6.4E-06 55.7 3.6 25 404-428 107-131 (412)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=7.7e-170 Score=1390.66 Aligned_cols=645 Identities=72% Similarity=1.171 Sum_probs=627.1
Q ss_pred cccccccccCCCcCCcccCCccCCcccccccCCCCCCceEecCCCccCeeeeCCCCCCCcchhhhhHhhcCcceeeecCC
Q 004121 118 MAGLSFEETGDDVEGFEYGKADFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKD 197 (772)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~ycg~~~~~~~~~c~~~~c~~wfcn~~~~~~~shi~~hlv~~~~~~~~lh~~ 197 (772)
+.++.|||-..+.+. .+ +..+|+|+|+||||++|.||++|++ |+|||||||++|+|||||+||||++||+|+||+|
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 VGEVLFEECLVEKNR-AR-EQKLPEHACAYCGISEPACVIKCNT--CGKWFCNSRGGTSGSHIVNHLVRAKHKEVSLHKD 113 (935)
T ss_pred cchhhhhhhcccccc-cc-ccccchhhhhhccCCCchheeeccc--cCceeecCCCCCchhHHHHHHHHhhhheeEeccC
Confidence 889999885553343 23 5589999999999999999999999 9999999999999999999999999999999999
Q ss_pred CCCcccceeeecccccccccccceeccCCceEEEEcchhHHH--------------------------------------
Q 004121 198 SPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLN-------------------------------------- 239 (772)
Q Consensus 198 ~~~~~~~lecy~c~~~nvf~lgf~~~~~~~~~~~~~r~~~~~-------------------------------------- 239 (772)
+|+|||+||||+||++|||+|||||+|+|+|||++||+||++
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 004121 240 -----------------------------------------------------------------MMKESQSKDNVTIRW 254 (772)
Q Consensus 240 -----------------------------------------------------------------~~~e~~~~~~~~~~~ 254 (772)
.+||||.+++++|||
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 799999999999999
Q ss_pred EecCCceEEEEEEccCCCCCcCCCCCCEEEEEecCCCCCCcceEEEEEEEecC--ccEEEEEeecCCCCccccCCCceEE
Q 004121 255 DIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTA--QEEVALELRASQGVPVDINHGFSVD 332 (772)
Q Consensus 255 ~~~l~~k~~~~f~~~~~~~~~~l~~GD~v~l~~~g~~~~~~~~~~g~V~~v~~--~~~v~lel~~~~~~p~~~~~~~~v~ 332 (772)
++|||+|+++||.+++.++++++..||+++|+|+|. +..+|.++|+|+++++ ++|+.||++...++|.+.+++|.|+
T Consensus 274 ~~gLnkk~~a~f~~~k~~~e~kl~~GdE~~L~y~~~-~~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~p~e~~~~Ftvd 352 (935)
T KOG1802|consen 274 DIGLNKKRLAYFTLPKLDSELKLAIGDEIRLTYSGG-LVLPWNGIGSVLKIPDNNGDEVKLELEFSQDPPIEVTHGFTVD 352 (935)
T ss_pred eeccccceEEEEecCCCcchhccccCCeeEEEecCC-cCCcccccceEEecCCCCcceeEEEeecCCCCCcccccceEEE
Confidence 999999999999999999999999999999999998 6667999999999998 6999999999999999999999999
Q ss_pred EeeccchHHHHHHHHHHHHhhhcchhhhHhhhhcCCchhhhhhhccCCCCCCCCCCCCCCHHHHHHHHHhhcCCeEEEEc
Q 004121 333 FVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQRPISLIQG 412 (772)
Q Consensus 333 ~~~~~~s~~R~~~AL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~~p~~~~~~~~~~LN~sQ~~AV~~aL~~~l~LIqG 412 (772)
|+|+.++|+||+.||+.|+.|+.++++|+|+.+||++.++..++..+|+.|+.|++++||.||..||+++|+++++||||
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 99999999999999999999999999999999999999888888899999999999999999999999999999999999
Q ss_pred cCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccccccccCCchhhhhHHHHHhhccchh
Q 004121 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (772)
Q Consensus 413 PPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~sre~i~~~~~~~~l~~~v~~~~~~~ 492 (772)
|||||||.|+++||++|+++..++||||||||.|||+|+++|++.|++|+|+++++||.+++++.++++|.+++.+..
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 999999999999999999998899999999999999999999999999999999999999999999999999999876
Q ss_pred HHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCcccccCCCcEEEEEcCCCCChhhhhhhh
Q 004121 493 KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPL 572 (772)
Q Consensus 493 ~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe~LipL 572 (772)
.+|+++.+++++.++++..|+++|+++++..+++++.+|+||||||++||+.+|..++|..||||||+|++||+|||||
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 hcCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEecccccCCchHHhHHHHhhhcCCcccccCccccc
Q 004121 573 VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINER 652 (772)
Q Consensus 573 ~~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r 652 (772)
++|++++||||||+||+|++++++++.+||.+||||||+..|..|++|.+||||||.|++|||++||+|.|++|++..+|
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 cCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHc
Q 004121 653 QSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (772)
Q Consensus 653 ~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~ 732 (772)
...++++|||.++.|++||.+.|.|+++.+|+||.|+.||..+++||+.|++.|+++++|||||||.+|+.+|.++|+..
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 CCcccccCCCeEEccCCCCCCCcCCEEEEEeeecCCCC
Q 004121 733 GALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQ 770 (772)
Q Consensus 733 ~~~~~~~~~~I~V~TVD~FQGrEkDvIIlS~VRSn~~~ 770 (772)
+.++..+|..|+|+|||+|||+|||+||+||||||++|
T Consensus 750 gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~q 787 (935)
T KOG1802|consen 750 GSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEHQ 787 (935)
T ss_pred CccccchhheeEEEeeccccCcccceEEEEEeeccccc
Confidence 99999999999999999999999999999999999987
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.7e-76 Score=654.50 Aligned_cols=504 Identities=30% Similarity=0.429 Sum_probs=368.1
Q ss_pred EEecCCceEEEEEEccCC-CCCcCCCCCCEEEEEecCCCCCCcceEEEEEEEecCccEEEEEeecCCCCccccCCCceEE
Q 004121 254 WDIGLNKKRVAYFVFPKE-DNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPVDINHGFSVD 332 (772)
Q Consensus 254 ~~~~l~~k~~~~f~~~~~-~~~~~l~~GD~v~l~~~g~~~~~~~~~~g~V~~v~~~~~v~lel~~~~~~p~~~~~~~~v~ 332 (772)
-..||.||.+..|..... .....+.+||.|.|+...-..+..-...|.|+++... .+.+.+......|.... ..++.
T Consensus 51 ~~tGl~g~~li~f~~~~~~lp~~~~~~gd~v~lr~~~~~~~~~~~~~GvV~~~~~~-~i~~a~ee~~d~~~~~~-~l~l~ 128 (649)
T KOG1803|consen 51 VRTGLGGKSLIVFSKNREVLPSNSFGPGDVVWLRTDKLNNKSKPCTEGVVYRVAED-SIDVAFEEEVDKPLTLS-SLRLL 128 (649)
T ss_pred EeecccceEEEEeccCccccCcCCCCCCcEEEEEcccccccCcccccceeEeeccc-hhhHhHHhhhcccchhh-HHHHH
Confidence 346999999998887663 2456899999999984321111111356889888752 34444434444443332 45666
Q ss_pred EeeccchHHHHHHHHHHHHhhhc-chhhhHhhhhcCCchhhhhhhccCCCCCCCCCCCCCCHHHHHHHHHhhcC-CeEEE
Q 004121 333 FVWKSTSFDRMQGAMKTFAVDET-SVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQR-PISLI 410 (772)
Q Consensus 333 ~~~~~~s~~R~~~AL~~~~~~~~-~~~~~i~~~llg~~~~~~~~~~~~p~~~~~~~~~~LN~sQ~~AV~~aL~~-~l~LI 410 (772)
.+.|..+|+||..+|..+..... ..+.-+.+.+.|...+........ .-..+....||.||++||..++.+ .+++|
T Consensus 129 kl~n~vty~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~~~--~~~~~~~~~ln~SQk~Av~~~~~~k~l~~I 206 (649)
T KOG1803|consen 129 KLENKVTYRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEI--KKITFFNKNLNSSQKAAVSFAINNKDLLII 206 (649)
T ss_pred HhhhhhhheecHHHHhhHhhhcCccchhhhHHHHhccccCCCCchhhh--cccccCCccccHHHHHHHHHHhccCCceEe
Confidence 77889999999999888765211 122223344444432211111000 001223468999999999999976 89999
Q ss_pred EccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccccccccCCchhhhhHHHHHhhccc
Q 004121 411 QGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDT 490 (772)
Q Consensus 411 qGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~sre~i~~~~~~~~l~~~v~~~~~ 490 (772)
+||||||||+|++++|.++++++ .+||||||||.|||||.+||.-.+.+++|+|++.|..... ....+...+..-+.
T Consensus 207 ~GPPGTGKT~TlvEiI~qlvk~~-k~VLVcaPSn~AVdNiverl~~~~~~l~R~g~paRl~~~~--~~~sld~~~~t~d~ 283 (649)
T KOG1803|consen 207 HGPPGTGKTRTLVEIISQLVKQK-KRVLVCAPSNVAVDNIVERLTHLKLNLVRVGHPARLLESV--ADHSLDLLSNTKDN 283 (649)
T ss_pred eCCCCCCceeeHHHHHHHHHHcC-CeEEEEcCchHHHHHHHHHhcccccchhhcCchhhhhhhh--hhhHHHHHHhcCch
Confidence 99999999999999999999987 5999999999999999999998999999999998753221 11122222221111
Q ss_pred hhH-HHHH-HHHHhHhhh-----ccCCchHHHHHHHHHH-------HHHHHHhhcccceeecccccCCcccccCCCcEEE
Q 004121 491 SEK-SELH-KLQQLKDEQ-----GELSSSDEKKYKALKR-------ATEREISQSADVICCTCVGAGDPRLANFRFRQVL 556 (772)
Q Consensus 491 ~~~-~~l~-kl~~l~~~~-----~~ls~~d~k~~~~l~~-------~~~~~il~~a~VI~~T~~~a~~~~L~~~~Fd~VI 556 (772)
... .... .+....... ..+.....+.++.+.+ ....+++.+++||++|..++....+++..||+||
T Consensus 284 ~~~~~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~~~fD~vI 363 (649)
T KOG1803|consen 284 SQNAKDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALDRLLRKRTFDLVI 363 (649)
T ss_pred hhhhhhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhhhhhcccCCCEEE
Confidence 000 0000 111111000 0111111111222222 2335899999999999999999888889999999
Q ss_pred EEcCCCCChhhhhhhhhcCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCC--CccEecccccCCchHHhHHH
Q 004121 557 IDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFP 634 (772)
Q Consensus 557 IDEAsQatEpe~LipL~~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g--~~~~~L~~QYRmhp~I~~f~ 634 (772)
||||+|+.||+||+|+.. .+++||+|||+||||++.+.++...|+..|+|||+.+.. .-.++|++|||||..|+.|+
T Consensus 364 IDEaaQamE~~cWipvlk-~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~ws 442 (649)
T KOG1803|consen 364 IDEAAQAMEPQCWIPVLK-GKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWS 442 (649)
T ss_pred EehhhhhccchhhhHHhc-CCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCc
Confidence 999999999999999975 589999999999999999999999999999999998753 34678999999999999999
Q ss_pred HhhhcCCcccccCccccccCCCCCCCCC--CCCCCeEEEEeCCceeeccc-----CCCCCCHHHHHHHHHHHHHHHHCCC
Q 004121 635 SNSFYEGTLQNGVTINERQSSGIDFPWP--VPNRPMFFYVQMGQEEISAS-----GTSYLNRTEAANVEKIVTTFLRSGV 707 (772)
Q Consensus 635 S~~FY~g~L~~~~s~~~r~~~~~~~~~p--~~~~p~~f~~~~g~ee~~~~-----g~S~~N~~EA~~V~~iV~~Ll~~gv 707 (772)
|..||+|+|.++.++..+.+..+...-+ ....|++|+|+.|.+..+.. -.|++|.+||++|...+..|++.|+
T Consensus 443 n~~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV 522 (649)
T KOG1803|consen 443 NEVFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGV 522 (649)
T ss_pred HhhhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcCC
Confidence 9999999999999998887654433221 25789999999987543322 1389999999999999999999999
Q ss_pred CCCeEEEEccchHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeeecCCC-CCC
Q 004121 708 VPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEH-QVG 772 (772)
Q Consensus 708 ~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I~V~TVD~FQGrEkDvIIlS~VRSn~~-~~G 772 (772)
+|.+|||||||++|+.+|++... ....+++|+|||+|||||+|+||||+||||++ .+|
T Consensus 523 ~p~dIaVIsPY~aQv~llR~~~~-------~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evG 581 (649)
T KOG1803|consen 523 QPSDIAVISPYNAQVSLLREEDE-------EDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVG 581 (649)
T ss_pred ChhHeEEeccchHHHHHHhhccc-------ccCccceeecccccccceeeEEEEEEEeecCccccc
Confidence 99999999999999999993211 12357999999999999999999999999987 455
No 3
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=2.9e-74 Score=674.08 Aligned_cols=495 Identities=31% Similarity=0.443 Sum_probs=376.4
Q ss_pred cccccceEEEEEecCCceEEEEEEccCCCCCcCCCCCCEEEEEecCCCCCCcceEEEEEEEecCccEEEEEeecCCCCcc
Q 004121 244 SQSKDNVTIRWDIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPV 323 (772)
Q Consensus 244 ~~~~~~~~~~~~~~l~~k~~~~f~~~~~~~~~~l~~GD~v~l~~~g~~~~~~~~~~g~V~~v~~~~~v~lel~~~~~~p~ 323 (772)
.....++.+.|..|+.||++..|.-. ...+.+|.+||.|.|+..+. ..|.+.|+|+++.+ ..|.+.+.. ..|.
T Consensus 26 g~~~~~l~~~~~~~~~g~~~~~f~~~-~~~~~~~~~GD~v~i~~~~~---~~~~~~g~V~~v~~-~~i~v~~~~--~~~~ 98 (637)
T TIGR00376 26 GRAILNLQGKIRGGLLGFLLVRFGRR-KAIATEISVGDIVLVSRGNP---LQSDLTGVVTRVGK-RFITVALEE--SVPQ 98 (637)
T ss_pred CceEeceEEEEEeCCCCeEEEEEecC-CCCCCcCCCCCEEEEecCCC---CCCCcEEEEEEEcC-cEEEEEECC--CCCc
Confidence 55667999999999999999999843 34467999999999975332 34678899999986 234444433 2455
Q ss_pred ccCCCceEEEeeccchHHHHHHHHHHHHhhhcchhhhHhhhhcCCchhhhhhhccCCCCCCCCCCCCCCHHHHHHHHHhh
Q 004121 324 DINHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVL 403 (772)
Q Consensus 324 ~~~~~~~v~~~~~~~s~~R~~~AL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~~p~~~~~~~~~~LN~sQ~~AV~~aL 403 (772)
+...+|+++++||++||+||..||..|..... .+++.|+|...+..... ..+.. +..+.||++|++||..++
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 55567999999999999999999999976432 46777888764432111 11111 123689999999999999
Q ss_pred cC-CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccccccccCCchhhhhHH
Q 004121 404 QR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLH 482 (772)
Q Consensus 404 ~~-~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~sre~i~~~~~~~~l~ 482 (772)
.. ++++|+||||||||+|+++++.++++.+. +||+|||||.|||+|+++|.+.+++++|+|++++.. ......+++
T Consensus 171 ~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~-~VLv~a~sn~Avd~l~e~l~~~~~~vvRlg~~~r~~--~~~~~~sl~ 247 (637)
T TIGR00376 171 SSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL-RVLVTAPSNIAVDNLLERLALCDQKIVRLGHPARLL--KSNKQHSLD 247 (637)
T ss_pred cCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC-CEEEEcCcHHHHHHHHHHHHhCCCcEEEeCCchhcc--hhHHhccHH
Confidence 75 89999999999999999999999998765 999999999999999999999999999999987732 223333444
Q ss_pred HHHhhccchh-----HHHHHHHHH---------------------hHhh---hc--cCCc--------------hHH---
Q 004121 483 YQVRHLDTSE-----KSELHKLQQ---------------------LKDE---QG--ELSS--------------SDE--- 514 (772)
Q Consensus 483 ~~v~~~~~~~-----~~~l~kl~~---------------------l~~~---~~--~ls~--------------~d~--- 514 (772)
..+...+... ..++..+.. ++.+ .. .+.. ...
T Consensus 248 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 327 (637)
T TIGR00376 248 YLIENHPKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLL 327 (637)
T ss_pred HHHhcChhHHHHHHHHHHHHHHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHH
Confidence 4443322100 001111100 0000 00 0000 000
Q ss_pred HHHHHHHHHHHHHHhhcccceeecccccCCcccccCCCcEEEEEcCCCCChhhhhhhhhcCCCeEEEecCCCCCCccccc
Q 004121 515 KKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (772)
Q Consensus 515 k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe~LipL~~~~k~lILVGD~~QLpPvv~s 594 (772)
+.+++....+..+++..++|+++| ++...+....||+||||||+|++||++|+|+.. ++++||||||+||||++.+
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 111122234556889999987666 456678888999999999999999999999985 5899999999999999988
Q ss_pred hHHHHhcchhhHHHHHHHCC-CccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCC--C-----CCCCC
Q 004121 595 KKAARAGLAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFP--W-----PVPNR 666 (772)
Q Consensus 595 ~~a~~~gl~~SLFeRL~~~g-~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~--~-----p~~~~ 666 (772)
.. ..++..|||+||+... ....+|++||||||+|++|+|..||+|+|.++.++..+.+..+..+ + .....
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 3588999999999853 4478999999999999999999999999998877766543322111 1 13356
Q ss_pred CeEEEEeCCcee---ecccCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCCcccccCCCe
Q 004121 667 PMFFYVQMGQEE---ISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI 743 (772)
Q Consensus 667 p~~f~~~~g~ee---~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I 743 (772)
|++|+++.|.+. ....++|++|..||..|.+++..|++.|+++.+|||||||++|+.+|++.|.... ..+
T Consensus 482 p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~~-------~~i 554 (637)
T TIGR00376 482 PLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHRH-------IDI 554 (637)
T ss_pred CEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhhC-------CCe
Confidence 999999998764 3456789999999999999999999999999999999999999999999986432 469
Q ss_pred EEccCCCCCCCcCCEEEEEeeecCCC
Q 004121 744 EVASVDSFQGREKDYIILSCVRSNEH 769 (772)
Q Consensus 744 ~V~TVD~FQGrEkDvIIlS~VRSn~~ 769 (772)
+|+|||+|||+|+|+||+|+||||..
T Consensus 555 ~v~TVd~fQG~E~DvIi~S~vrsn~~ 580 (637)
T TIGR00376 555 EVSSVDGFQGREKEVIIISFVRSNRK 580 (637)
T ss_pred EEccccccCCccccEEEEEEEecCCC
Confidence 99999999999999999999999974
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=2.6e-58 Score=528.02 Aligned_cols=337 Identities=34% Similarity=0.547 Sum_probs=279.9
Q ss_pred CCCCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEecc
Q 004121 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~ 466 (772)
+..||..|++|+..+|. ..+.||.|-||||||||++.+|..|+..++ +||++++||.|||||+-||...++.++|+|.
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 45899999999999996 789999999999999999999999998875 9999999999999999999999999999998
Q ss_pred ccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCcc
Q 004121 467 KSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (772)
Q Consensus 467 ~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~ 546 (772)
..+ .|..++.+.. ......+.|..+ +..+++..||+|||.+.+++.
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 653 2333332210 111112333333 245788999999999999998
Q ss_pred cccCCCcEEEEEcCCCCChhhhhhhhhcCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCC-CccEecccccC
Q 004121 547 LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIRLQVQYR 625 (772)
Q Consensus 547 L~~~~Fd~VIIDEAsQatEpe~LipL~~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g-~~~~~L~~QYR 625 (772)
+...+||++|||||+|+..|-+|.|+.. ++++||||||.||||.|.+.+|+..|++.|||+||.... .....|+.|||
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 8888999999999999999999999987 799999999999999999999999999999999998854 34568999999
Q ss_pred CchHHhHHHHhhhcCCcccccCccccccC-------------CCCCCCCC----CCCCCeEEEEeCCceee--cccCCCC
Q 004121 626 MHPSLSEFPSNSFYEGTLQNGVTINERQS-------------SGIDFPWP----VPNRPMFFYVQMGQEEI--SASGTSY 686 (772)
Q Consensus 626 mhp~I~~f~S~~FY~g~L~~~~s~~~r~~-------------~~~~~~~p----~~~~p~~f~~~~g~ee~--~~~g~S~ 686 (772)
|+.+|+.+.|.+||+|+|..|.....+.. .....+|- .+.+++.|+.+..+... .......
T Consensus 871 Mn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~~ie~~~e~~~i 950 (1100)
T KOG1805|consen 871 MNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDTCSTIESQGEKGGI 950 (1100)
T ss_pred hcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCcccchhhhccccCc
Confidence 99999999999999999998754433210 01123553 35678888655443222 2234556
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeeec
Q 004121 687 LNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRS 766 (772)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I~V~TVD~FQGrEkDvIIlS~VRS 766 (772)
.|..||..|.+++..|++.|+++++|||||||++|+.+|++.+... .+||.|||.||||+||+||+|+||+
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 7999999999999999999999999999999999999999988532 3999999999999999999999999
Q ss_pred CCC
Q 004121 767 NEH 769 (772)
Q Consensus 767 n~~ 769 (772)
|+.
T Consensus 1022 n~~ 1024 (1100)
T KOG1805|consen 1022 NKK 1024 (1100)
T ss_pred CCc
Confidence 986
No 5
>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=8.3e-49 Score=370.93 Aligned_cols=95 Identities=78% Similarity=1.533 Sum_probs=73.0
Q ss_pred ccccccCCCCCCceEecCCCccCeeeeCCCCCCCcchhhhhHhhcCcceeeecCCCCCcccceeeeccccccccccccee
Q 004121 143 HACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFIS 222 (772)
Q Consensus 143 ~~c~ycg~~~~~~~~~c~~~~c~~wfcn~~~~~~~shi~~hlv~~~~~~~~lh~~~~~~~~~lecy~c~~~nvf~lgf~~ 222 (772)
|||+|||+|+|+|||+|++ |+||||||+|++++||||+||||||||||+||||+|||||+||||+||+||||+|||||
T Consensus 1 haC~YCG~~~p~~vv~C~~--c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~NvF~LGFip 78 (152)
T PF09416_consen 1 HACAYCGIHDPSCVVKCNT--CNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSRNVFLLGFIP 78 (152)
T ss_dssp TS-TTT----CCCEEEETT--TTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT----TTTEEEEE
T ss_pred CCccccCCCCcccEeEcCC--CCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCCceeeEEEEE
Confidence 8999999999999999999 99999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCceEEEEcchhHHH
Q 004121 223 AKTESVVVLLCREPCLN 239 (772)
Q Consensus 223 ~~~~~~~~~~~r~~~~~ 239 (772)
+|+|+|||||||+||++
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 6
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=6.7e-46 Score=415.48 Aligned_cols=230 Identities=34% Similarity=0.467 Sum_probs=194.0
Q ss_pred HHhhcccceeecccccCCcc--cccCCCcEEEEEcCCCCChhhhhhhhhcCCCeEEEecCCCCCCccccchH-HHHhcch
Q 004121 527 EISQSADVICCTCVGAGDPR--LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKK-AARAGLA 603 (772)
Q Consensus 527 ~il~~a~VI~~T~~~a~~~~--L~~~~Fd~VIIDEAsQatEpe~LipL~~~~k~lILVGD~~QLpPvv~s~~-a~~~gl~ 603 (772)
.+++.++||+.|..+++..+ |.+..+++|||.||+...|+..+..+...+.++||||||+||+|.....+ +..++|.
T Consensus 694 ~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~fnL~ 773 (1025)
T KOG1807|consen 694 FLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIFNLS 773 (1025)
T ss_pred HHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcchhhHhHhcchh
Confidence 57899999999999988765 77889999999999999999977777777899999999999999865433 4457999
Q ss_pred hhHHHHHHHCCCccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccC
Q 004121 604 QSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASG 683 (772)
Q Consensus 604 ~SLFeRL~~~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g 683 (772)
.||||||+..|.+-.+|+.||||+|.|++.....||++.+ +.+++.... .+ +.-...++|+.+...|+.- ++
T Consensus 774 iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYddl~-d~esvk~ye--dI----~gms~nlfFv~hnspee~~-de 845 (1025)
T KOG1807|consen 774 ISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDDLL-DSESVKEYE--DI----RGMSKNLFFVQHNSPEECM-DE 845 (1025)
T ss_pred HHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhhhh-cchhhcccc--cc----ccccceeeEEecCCcccCc-ch
Confidence 9999999999999999999999999999999999999644 333332210 00 1224567888777766543 45
Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEe
Q 004121 684 TSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSC 763 (772)
Q Consensus 684 ~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I~V~TVD~FQGrEkDvIIlS~ 763 (772)
.|+.|..||.+++++++.|+++++++.+|.|+|+|++|...|++.|... ....|.|.|||+|||.|+|||++|+
T Consensus 846 ~S~~NlhEa~mlv~l~kyli~q~y~psdIviLttY~gQk~ci~rllp~~------~~stv~VatVDsfQGeEndIVLlSL 919 (1025)
T KOG1807|consen 846 MSIGNLHEAGMLVKLTKYLIQQQYKPSDIVILTTYNGQKECIKRLLPQN------YRSTVQVATVDSFQGEENDIVLLSL 919 (1025)
T ss_pred hhhhhHHHHHHHHHHHHHHHhcCCCccceEEEeechhHHHHHHHHhHHH------hcCcceEEEeccccCccccEEEEEE
Confidence 8999999999999999999999999999999999999999999988653 2457999999999999999999999
Q ss_pred eecCCCC
Q 004121 764 VRSNEHQ 770 (772)
Q Consensus 764 VRSn~~~ 770 (772)
||||..+
T Consensus 920 VRsn~~g 926 (1025)
T KOG1807|consen 920 VRSNISG 926 (1025)
T ss_pred EeccCCc
Confidence 9999864
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=2e-40 Score=399.79 Aligned_cols=431 Identities=34% Similarity=0.456 Sum_probs=303.8
Q ss_pred cCCCceEEEeec------cchHHHHHHHHHHHHhhhcchhhhHhhhhcCCchhhhhhhccCCCCCCCCCCCCCCHHHHHH
Q 004121 325 INHGFSVDFVWK------STSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFA 398 (772)
Q Consensus 325 ~~~~~~v~~~~~------~~s~~R~~~AL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~~p~~~~~~~~~~LN~sQ~~A 398 (772)
.....++++..+ ...+.++...+..+.........++.+...+.......... ...+ ......++..|..+
T Consensus 206 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~ 282 (767)
T COG1112 206 EKEEVRVDIVENLLELSESILLRRELELLSKFALILKRLLESLFEILRGKDLPIKLLDV--ELEL-VEINKELDNEQKLA 282 (767)
T ss_pred cccceEEEehhhccccchhHHHHhhhhhhHHHhhcccchhhhHHHHhhccccccccCCc--ceee-eccchhccchhHHH
Confidence 334566666666 67888887777776543322222212222211111000000 0001 11234678888888
Q ss_pred HHHhhc-CCeEEE-EccCCCchhh--HHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC--ceEEEecccccccc
Q 004121 399 VKSVLQ-RPISLI-QGPPGTGKTV--TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG--LKVVRLCAKSREAV 472 (772)
Q Consensus 399 V~~aL~-~~l~LI-qGPPGTGKT~--tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~--~~vvRl~~~sre~i 472 (772)
+..... .+..++ .||+|||||. ++.+.+.........+++.++++|.+++++..++.... ...++++++.+...
T Consensus 283 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (767)
T COG1112 283 VKRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTVIKVELLRIGHPSRVLK 362 (767)
T ss_pred HHHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhccccceEEcCCcchhhh
Confidence 877664 555555 4999999999 77777777777756799999999999999999998754 45677776654321
Q ss_pred CCchhhhhHHHHHhhc--cc-hhHHHHHHHHH-----------------------------hHhhhccCCc---------
Q 004121 473 SSPVEHLTLHYQVRHL--DT-SEKSELHKLQQ-----------------------------LKDEQGELSS--------- 511 (772)
Q Consensus 473 ~~~~~~~~l~~~v~~~--~~-~~~~~l~kl~~-----------------------------l~~~~~~ls~--------- 511 (772)
... ...+...+... .. ........+.. .......+..
T Consensus 363 ~~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ 440 (767)
T COG1112 363 KLK--LDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGILPALNKSEALW 440 (767)
T ss_pred hhh--hhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcchhHHHHHHHHHH
Confidence 110 01111110000 00 00000000000 0000000000
Q ss_pred --------hHHHHHHHHHHHHHHHHhhcccceeecccccCCcccccCCCcEEEEEcCCCCChhhhhhhhhcCCCeEEEec
Q 004121 512 --------SDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVG 583 (772)
Q Consensus 512 --------~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe~LipL~~~~k~lILVG 583 (772)
...+............+...+++|++|++.++...+....||+||||||+|+++|.+++|+.. ++++|++|
T Consensus 441 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~~~~fd~viiDEAsQ~~~~~~~~~l~~-~~~~il~G 519 (767)
T COG1112 441 ISLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILKKYEFDYVIIDEASQATEPSALIALSR-AKKVILVG 519 (767)
T ss_pred HhhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhcccccCEEEEcchhcccchhHHHhHhh-cCeEEEec
Confidence 000111112223345677778899999999999888888999999999999999999999988 89999999
Q ss_pred CCCCCCccccchHHHHhcchhhHHHHHHHCCC-ccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCC
Q 004121 584 DHCQLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWP 662 (772)
Q Consensus 584 D~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~-~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p 662 (772)
||+||||++.+......++..++|++++..+. ...+|+.||||||.|+.|+|..||+|+|..+.............++.
T Consensus 520 D~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~ 599 (767)
T COG1112 520 DHKQLPPTVFFKESSPEGLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEV 599 (767)
T ss_pred CCccCCCeecchhhcccchhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhccccccc
Confidence 99999999988755667899999999999886 78899999999999999999999999999877665544333333444
Q ss_pred CCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCCcccccCCC
Q 004121 663 VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKE 742 (772)
Q Consensus 663 ~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~ 742 (772)
.+..|+.|+++.+.++ ...+.++.|..||..+..++..+++.++.+.+|||||||++|+.+|++.+...+ ..
T Consensus 600 ~~~~~~~~~~~~~~~~-~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~~igvis~y~~q~~~i~~~~~~~~-------~~ 671 (767)
T COG1112 600 VISNPLEFYDTLGAEE-FFESKSKLNELEAEIVKVIVDELLKDGLEENDIGVISPYRAQVSLIRRLLNEAG-------KG 671 (767)
T ss_pred cccCceEEEEecCccc-ccCccceecHHHHHHHHHHHHHHHHcCCcHHHcceecccHHHHHHHHHHHHhcC-------Cc
Confidence 4578999999999877 456789999999999999999999999999999999999999999999987543 47
Q ss_pred eEEccCCCCCCCcCCEEEEEeeecCCC
Q 004121 743 IEVASVDSFQGREKDYIILSCVRSNEH 769 (772)
Q Consensus 743 I~V~TVD~FQGrEkDvIIlS~VRSn~~ 769 (772)
++|+|||+|||+|+|+||+|+||||..
T Consensus 672 v~v~tvd~fQG~EkdvIi~S~v~s~~~ 698 (767)
T COG1112 672 VEVGTVDGFQGREKDVIILSLVRSNDD 698 (767)
T ss_pred eEEeeccccCCccCcEEEEEEEeecCC
Confidence 999999999999999999999999987
No 8
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=8.4e-36 Score=346.21 Aligned_cols=319 Identities=32% Similarity=0.404 Sum_probs=240.5
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCceEEE-eccccccccCCchhhhhHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVR-LCAKSREAVSSPVEHLTLH 482 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~~~vvR-l~~~sre~i~~~~~~~~l~ 482 (772)
.....++||||||||.++++.++++... ....|++|+++|+|.|....|++.. .-+.+ .+.+.+... + +..
T Consensus 326 ~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~p-~~~~~~~~~~~~~~~-~-----~~~ 398 (775)
T KOG1804|consen 326 PEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHYP-LTFSTARGEDVRAKS-S-----TAW 398 (775)
T ss_pred ccccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccccccccccc-ccccccccccccccc-h-----hHH
Confidence 4678999999999999998777776443 5568999999999999999998421 11111 001110000 0 000
Q ss_pred HHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCcc---cccCCCcEEEEEc
Q 004121 483 YQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR---LANFRFRQVLIDE 559 (772)
Q Consensus 483 ~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~---L~~~~Fd~VIIDE 559 (772)
....+... ...+..+...+....++++||..+|.-. ..-.+|.++++||
T Consensus 399 -----------~~~~~v~~-----------------~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~De 450 (775)
T KOG1804|consen 399 -----------YNNAEVSE-----------------VVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDE 450 (775)
T ss_pred -----------hhhHHHHH-----------------HHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecc
Confidence 00000000 0001111113556788999998877643 4456899999999
Q ss_pred CCCCChhhhhhhhhc--CCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCC------------CccEecccccC
Q 004121 560 STQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG------------LKPIRLQVQYR 625 (772)
Q Consensus 560 AsQatEpe~LipL~~--~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g------------~~~~~L~~QYR 625 (772)
|++++||++++|+.. ...++||.|||+||+|++.+..+...|++.|||+|++... .-.+.|-.+||
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 999999999999973 2348999999999999999999999999999999998642 12467999999
Q ss_pred CchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHHC
Q 004121 626 MHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS 705 (772)
Q Consensus 626 mhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~ 705 (772)
+||.|...+|++||+|.|.......+... ..-|. ..++|+.+.|..++..++.|++|+.||..|..++..|...
T Consensus 531 shp~il~l~~~l~y~~eL~~~~~~~~v~~---~~~w~---~liif~g~~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~ 604 (775)
T KOG1804|consen 531 SHPIILCLENRLYYLGELTAEASEVDVRG---LELWS---GLILFYGAPGFTERAGNSPSWLNLEEAAVVVRMTKALPLG 604 (775)
T ss_pred hhhHhhhcccccccccceeeeccHHHHHH---HHhcc---cceeccccccccccccCChhhccHHHHHHHHHHHhccCCC
Confidence 99999999999999999986544433221 12343 2388999999999988999999999999998888887654
Q ss_pred C-CCCCeEEEEccchHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeeecCCCC
Q 004121 706 G-VVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQ 770 (772)
Q Consensus 706 g-v~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I~V~TVD~FQGrEkDvIIlS~VRSn~~~ 770 (772)
. ..+.||||||||++|++.|+..+...+ ..++.|++|+.|||+|+.+||+|+|||...-
T Consensus 605 ~~~~~~DIgvitpy~aq~~~i~~~l~~~~------~~~~~vgsVe~fqGqE~~viiiStVrS~~~~ 664 (775)
T KOG1804|consen 605 EVAQPQDIGVITPYTAQVSEIRKALRRLG------VPGVKVGSVEEFQGQEPWVILGSTVRSFALP 664 (775)
T ss_pred CccccccceeeCcHHHHHHHHHHHhcccC------CCCCcccceeeeccccceeeEeecccccCCC
Confidence 3 345689999999999999999987654 5689999999999999999999999998753
No 9
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=100.00 E-value=2.2e-33 Score=288.34 Aligned_cols=204 Identities=38% Similarity=0.569 Sum_probs=128.7
Q ss_pred CCCHHHHHHHHHhhcCCe-EEEEccCCCchhhHHHHHHHHHH-------HcCCCcEEEEcCcHHHHHHHHHHHHh-----
Q 004121 390 ELNASQVFAVKSVLQRPI-SLIQGPPGTGKTVTSAAIVYHMA-------KQGQGQVLVCAPSNVAVDQLAEKISA----- 456 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l-~LIqGPPGTGKT~tla~iI~~L~-------~~~~~rILV~ApSN~AVD~L~erL~~----- 456 (772)
.||++|++||..++.++. ++|+||||||||+|++.++..++ ...+.+||+||+||.|||+++++|.+
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 489999999999998875 99999999999999999999883 34567999999999999999999998
Q ss_pred ---cCceEEEeccccccccCCchhhhhHHHHHhhccc----hhHHHHHHH------HHhHhhhccCCchH---HHHHHHH
Q 004121 457 ---TGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDT----SEKSELHKL------QQLKDEQGELSSSD---EKKYKAL 520 (772)
Q Consensus 457 ---~~~~vvRl~~~sre~i~~~~~~~~l~~~v~~~~~----~~~~~l~kl------~~l~~~~~~ls~~d---~k~~~~l 520 (772)
...+++|++... +..........+...+..... .......++ ..+......+.... .+.++..
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 346799999876 222233333333333332220 001111111 11112222222222 2333444
Q ss_pred HHHHHHHHhhcccceeecccccCCcccccC--CCcEEEEEcCCCCChhhhhhhhhcCCCeEEEecCCCCCCccccc
Q 004121 521 KRATEREISQSADVICCTCVGAGDPRLANF--RFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (772)
Q Consensus 521 ~~~~~~~il~~a~VI~~T~~~a~~~~L~~~--~Fd~VIIDEAsQatEpe~LipL~~~~k~lILVGD~~QLpPvv~s 594 (772)
.+.....+++.++||++|+.++....+... .||+||||||+|++|+++|+|+.++++++||||||+||||++.+
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 455667899999999999999977777776 89999999999999999999998877999999999999999976
No 10
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=99.97 E-value=8.1e-31 Score=314.79 Aligned_cols=239 Identities=35% Similarity=0.486 Sum_probs=196.7
Q ss_pred hcccceeecccccCCccc--ccCCCcEEEEEcCCCCChhhhhhhhhc-CCCeEEEecCCCCCCccccchHHHHhcchhhH
Q 004121 530 QSADVICCTCVGAGDPRL--ANFRFRQVLIDESTQATEPECLIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSL 606 (772)
Q Consensus 530 ~~a~VI~~T~~~a~~~~L--~~~~Fd~VIIDEAsQatEpe~LipL~~-~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SL 606 (772)
+.+.+|++|+.+.+.... ....|+.|+||||.|+.|++.++||.+ +.++.+|+||+.|||++|.+..+...++..|+
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 378899999998777443 334799999999999999999999998 88999999999999999999999999999999
Q ss_pred HHHHHHCCCccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeC-CceeecccCCC
Q 004121 607 FERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQM-GQEEISASGTS 685 (772)
Q Consensus 607 FeRL~~~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~-g~ee~~~~g~S 685 (772)
|+|+...+.....|++||||||+|+.||+..||+|+|..+..+........... .....|+-|++.. |.|... .+.|
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 999999999888999999999999999999999998887766664433222111 2234677777765 777654 4489
Q ss_pred CCCHHHHHHHHHHHHHHHHC----CCCCCeEEEEccchHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEE
Q 004121 686 YLNRTEAANVEKIVTTFLRS----GVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIIL 761 (772)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~----gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I~V~TVD~FQGrEkDvIIl 761 (772)
..|..|+..+..++..|.+. +..+..+|||+||+.|+..+++...............+.|.|||+|||.|+|+||+
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 99999999999999998763 23367899999999999999987755332111112469999999999999999999
Q ss_pred EeeecCCCC
Q 004121 762 SCVRSNEHQ 770 (772)
Q Consensus 762 S~VRSn~~~ 770 (772)
||||++.++
T Consensus 751 s~vrs~~~g 759 (827)
T KOG1801|consen 751 STVRSIDEG 759 (827)
T ss_pred EEEEecccC
Confidence 999999876
No 11
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=99.96 E-value=7.5e-29 Score=251.08 Aligned_cols=164 Identities=40% Similarity=0.631 Sum_probs=115.6
Q ss_pred chhhHHHHHHHCC-CccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeec
Q 004121 602 LAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEIS 680 (772)
Q Consensus 602 l~~SLFeRL~~~g-~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~ 680 (772)
|..|||+||+..+ .+.++|++||||||+|++|+|+.||+|+|.++.+...+... ....++....|++|+++.|.+...
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 4689999999998 88899999999999999999999999999988766554332 122345667899999999987765
Q ss_pred ccC-CCCCCHHHHHHHHHHHHHHHHCCCCC---CeEEEEccchHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcC
Q 004121 681 ASG-TSYLNRTEAANVEKIVTTFLRSGVVP---SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREK 756 (772)
Q Consensus 681 ~~g-~S~~N~~EA~~V~~iV~~Ll~~gv~~---~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I~V~TVD~FQGrEk 756 (772)
..+ +|+.|..||+.|++++..|+..+... .+|||||||++|+.+|++.|........ ...++|+|||+|||+|+
T Consensus 80 ~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~--~~~~~v~Tvd~~QG~E~ 157 (200)
T PF13087_consen 80 ESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSP--IKDIKVSTVDSFQGQEA 157 (200)
T ss_dssp TTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHH--HHCSEEEEHHHHTT--E
T ss_pred cccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccc--cceEEEecHHHhccccc
Confidence 544 89999999999999999999987765 7999999999999999999986543211 11299999999999999
Q ss_pred CEEEEEeeecCC
Q 004121 757 DYIILSCVRSNE 768 (772)
Q Consensus 757 DvIIlS~VRSn~ 768 (772)
|+||+|+||++.
T Consensus 158 diVi~s~v~~~~ 169 (200)
T PF13087_consen 158 DIVIVSLVRTNS 169 (200)
T ss_dssp EEEEEEE---ST
T ss_pred eEEEEEeccCCc
Confidence 999999999974
No 12
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.95 E-value=5.3e-28 Score=278.30 Aligned_cols=375 Identities=29% Similarity=0.373 Sum_probs=262.4
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCce---EEEec
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK---VVRLC 465 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~~~---vvRl~ 465 (772)
..|+.|.+||.+..+.+++++.||||||||.+++.++..+..+ +..|-|+++.||.|.+.+.+++.+.... ..|++
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 4589999999999999999999999999999999999888766 6678999999999999999999875432 33444
Q ss_pred ccccccc-C-----------CchhhhhHHHHHhhccch--------------h-----------HHHHHHHHHhHhh---
Q 004121 466 AKSREAV-S-----------SPVEHLTLHYQVRHLDTS--------------E-----------KSELHKLQQLKDE--- 505 (772)
Q Consensus 466 ~~sre~i-~-----------~~~~~~~l~~~v~~~~~~--------------~-----------~~~l~kl~~l~~~--- 505 (772)
+...+.- + .+...+.+-+.++++..+ . .+-+.++++-.+.
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 0 000111111222111000 0 0011111100000
Q ss_pred ------------hccCCc-------------hHHHHHHHHHHHHH-------------------HHHhhcccceeecccc
Q 004121 506 ------------QGELSS-------------SDEKKYKALKRATE-------------------REISQSADVICCTCVG 541 (772)
Q Consensus 506 ------------~~~ls~-------------~d~k~~~~l~~~~~-------------------~~il~~a~VI~~T~~~ 541 (772)
.++.+. ..+.-|+.+....+ .-+.+.+.+|.+||..
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 00112222221111 1234789999999998
Q ss_pred cCCcc----cccCCCcEEEEEcCCCCChhhhhhhhhcC--------CCeEEEecCCCCCCccccchH-HHHhcchhhHHH
Q 004121 542 AGDPR----LANFRFRQVLIDESTQATEPECLIPLVLG--------AKQVVLVGDHCQLGPVIMCKK-AARAGLAQSLFE 608 (772)
Q Consensus 542 a~~~~----L~~~~Fd~VIIDEAsQatEpe~LipL~~~--------~k~lILVGD~~QLpPvv~s~~-a~~~gl~~SLFe 608 (772)
++..+ -..++||-+++.|++|.+|.+..+|+.+. -+++|++|||.|+||++.+.. +......+|||.
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 77544 23568999999999999999999998753 368999999999999996654 334567899999
Q ss_pred HHHHCCCccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEe---CCceeecccCCC
Q 004121 609 RLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQ---MGQEEISASGTS 685 (772)
Q Consensus 609 RL~~~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~---~g~ee~~~~g~S 685 (772)
|+...+.+.+.|+.|+|..+.|+++.+..+-.-..-.+++...+... .......+..|+++ .|..+...+..-
T Consensus 1058 r~vRl~ip~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f~~----aNagf~~~~qlinv~Df~g~gEt~p~p~f 1133 (1320)
T KOG1806|consen 1058 RLVRLGVPIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPRFQY----ANAGFAYEFQFINVPDFKGSGETEPSPGF 1133 (1320)
T ss_pred cceecccceecchhhhhHHHHHHHHHHhhhcccccCcCCccchhhhc----cccCceeeEEEecchhhccccccCCCccc
Confidence 99999999999999999999999998776543222223332222110 00111245566654 466566566677
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeee
Q 004121 686 YLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVR 765 (772)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I~V~TVD~FQGrEkDvIIlS~VR 765 (772)
+.|.+||+.++.+..+|.-.|++.+.|.|+|.|++|+.+|++.+.++.....-....-.|.|||.|||+..|+||+|+||
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 89999999999999999999999999999999999999999999988766555556778999999999999999999999
Q ss_pred cCC
Q 004121 766 SNE 768 (772)
Q Consensus 766 Sn~ 768 (772)
+..
T Consensus 1214 tr~ 1216 (1320)
T KOG1806|consen 1214 TRE 1216 (1320)
T ss_pred hhh
Confidence 865
No 13
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.87 E-value=5.8e-21 Score=225.88 Aligned_cols=176 Identities=15% Similarity=0.248 Sum_probs=109.2
Q ss_pred CCcEEEEEcCCCCChhhhh-h-hhhc--CCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHC-C-CccEeccccc
Q 004121 551 RFRQVLIDESTQATEPECL-I-PLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-G-LKPIRLQVQY 624 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe~L-i-pL~~--~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g-~~~~~L~~QY 624 (772)
.|++|+|||+++.+..+.- + .+.. ...++++|||+.| .|+.. .|-...++..+... + ...+.|+++|
T Consensus 430 ~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~Q---sIY~f----rGa~~~~~~~f~~~f~~~~~~~L~~nY 502 (684)
T PRK11054 430 PWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQ---AIYRF----SGADLSLTTAFHERFGEGDRCHLDTTY 502 (684)
T ss_pred cccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCc---ccccc----CCCChHHHHHHHhhcCCCeEEEeCCCC
Confidence 5999999999999988732 2 2322 2358999999999 34332 23334455444332 2 2457899999
Q ss_pred CCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHH
Q 004121 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (772)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~ 704 (772)
|+++.|.++++.++-.+.-+-. . .+. +......|.+..... .+.+.+...+..+..
T Consensus 503 Rs~~~I~~~An~~i~~n~~~~~-----k---~l~-s~~~g~~p~v~~~~~---------------~~~~~il~~l~~~~~ 558 (684)
T PRK11054 503 RFNSRIGEVANRFIQQNPHQLK-----K---PLN-SLTKGDKKAVTLLPE---------------DQLEALLDKLSGYAK 558 (684)
T ss_pred CCCHHHHHHHHHHHHhCccccC-----C---ccc-ccCCCCCceEEEeCC---------------HHHHHHHHHHHHhhc
Confidence 9999999999887643211100 0 000 001123343332211 134444444444433
Q ss_pred CCCCCCeEEEEccchHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeee
Q 004121 705 SGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVR 765 (772)
Q Consensus 705 ~gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~~~~~I~V~TVD~FQGrEkDvIIlS~VR 765 (772)
+.++|+||++|+.+...+.+.+.... ...+|.+.|+++.+|.|+|+||+-.+.
T Consensus 559 ---~~~~I~IL~R~~~~~~~~l~~~~~~~-----~~~~i~~~T~h~sKGLEfD~ViI~g~~ 611 (684)
T PRK11054 559 ---PDERILLLARYHHLRPALLDKAATRW-----PKLQIDFMTIHASKGQQADYVIILGLQ 611 (684)
T ss_pred ---CCCcEEEEEechhhHHHHHHHHHhhc-----ccCCeEEEehhhhcCCcCCEEEEecCC
Confidence 45799999999988865544443221 123799999999999999999996554
No 14
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.87 E-value=3e-21 Score=231.73 Aligned_cols=314 Identities=18% Similarity=0.229 Sum_probs=180.6
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcCc---eEE
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL---KVV 462 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~~~---~vv 462 (772)
..||++|++||.+. .+..+|.|+||||||+|++.+|.+|+.. ++.+||++|+||.|+++|.+|+.+..- .-+
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 46999999999764 6788999999999999999999999975 356899999999999999999976411 101
Q ss_pred Eeccc---c----cc-----ccCCchhhhhH-------HHHHhhccchh-----HHHHHHHHHhHhhh------ccCCch
Q 004121 463 RLCAK---S----RE-----AVSSPVEHLTL-------HYQVRHLDTSE-----KSELHKLQQLKDEQ------GELSSS 512 (772)
Q Consensus 463 Rl~~~---s----re-----~i~~~~~~~~l-------~~~v~~~~~~~-----~~~l~kl~~l~~~~------~~ls~~ 512 (772)
.++.- . ++ ........+.- ...++.+.... ......+...+... ......
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 11100 0 00 00000000000 00000000000 00000011111100 000000
Q ss_pred HHHHHHHHHHHHHHH-----HhhcccceeecccccC-Ccccc---cCCCcEEEEEcCCCCChhhhh-hh-hhcCCCeEEE
Q 004121 513 DEKKYKALKRATERE-----ISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPECL-IP-LVLGAKQVVL 581 (772)
Q Consensus 513 d~k~~~~l~~~~~~~-----il~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQatEpe~L-ip-L~~~~k~lIL 581 (772)
..+.+..+...++.. .++..|++.-+..... .+.+. ..+|++|+|||+|+++..+.. +- |....+++++
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 011111122212111 2222333333322211 12222 247999999999999988833 22 3334578999
Q ss_pred ecCCCCCCccccchHHHHhcchhhHHHHHHHC--CCccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCC
Q 004121 582 VGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDF 659 (772)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~--g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~ 659 (772)
|||++| .|++.. |-....|.++... +...+.|+.|||+++.|.+++|.++-.+.-..+. .
T Consensus 241 VGD~~Q---sIY~fR----GA~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~-----------~ 302 (715)
T TIGR01075 241 VGDDDQ---SIYGWR----GAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGK-----------N 302 (715)
T ss_pred EeCCcc---cccccC----CCCHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhccccccc-----------c
Confidence 999999 444432 2233444444332 2346899999999999999999988654321110 0
Q ss_pred CCCC--CCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCC
Q 004121 660 PWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (772)
Q Consensus 660 ~~p~--~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~ 734 (772)
.|.. .+.++.++.... ...||..|++.|..|++.|+++.+|+||++.+.|...|.+.|...+.
T Consensus 303 ~~~~~~~g~~i~~~~~~~------------~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L~~~gI 367 (715)
T TIGR01075 303 LWTDGEVGEPISLYSAFN------------ELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSRVLEEALLQASI 367 (715)
T ss_pred ccCCCCCCCceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCccCEEEEEecCchHHHHHHHHHHcCC
Confidence 1111 122333332111 13689999999999999999999999999999999999999987764
No 15
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.87 E-value=7.7e-21 Score=228.15 Aligned_cols=300 Identities=19% Similarity=0.210 Sum_probs=180.4
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcC-ceEEEe
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATG-LKVVRL 464 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~~-~~vvRl 464 (772)
..||++|++||.+. .+..+|.|+||||||+|++.+|.+|+.. ++.+||++|+||.|+++|.+|+.+.. ...-
T Consensus 8 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~~-- 83 (721)
T PRK11773 8 DSLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQG-- 83 (721)
T ss_pred HhcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccCCC--
Confidence 46999999999865 6788999999999999999999999874 35689999999999999999997641 1100
Q ss_pred ccccccccCCchhhhhHHHHHhhc-----------------cchh---------------------HHHHHHHHHhHhhh
Q 004121 465 CAKSREAVSSPVEHLTLHYQVRHL-----------------DTSE---------------------KSELHKLQQLKDEQ 506 (772)
Q Consensus 465 ~~~sre~i~~~~~~~~l~~~v~~~-----------------~~~~---------------------~~~l~kl~~l~~~~ 506 (772)
.+...|+|....++ +..+ ......+...+..
T Consensus 84 ----------~~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~k~~- 152 (721)
T PRK11773 84 ----------GMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDE- 152 (721)
T ss_pred ----------CCEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHc-
Confidence 00011111111000 0000 0000001111110
Q ss_pred ccCCch--------HHHHHHHHHHHHHH-----HHhhcccceeecccccC-Ccccc---cCCCcEEEEEcCCCCChhhh-
Q 004121 507 GELSSS--------DEKKYKALKRATER-----EISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPEC- 568 (772)
Q Consensus 507 ~~ls~~--------d~k~~~~l~~~~~~-----~il~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQatEpe~- 568 (772)
.+... ..+.+..+...++. ..++-.|++..+..... .+.+. ..+|++|+|||+|+++..+.
T Consensus 153 -~~~~~~~~~~~~~~~~~~~~iy~~Y~~~~~~~~~~DfdDll~~~~~lL~~~~~~~~~~~~~~~~IlVDEfQDtn~~Q~~ 231 (721)
T PRK11773 153 -GLRPQHIQSYGDPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYA 231 (721)
T ss_pred -CCCHHHHHhccChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEchhcCCHHHHH
Confidence 00000 01111111111111 12333344433332221 12221 24799999999999998883
Q ss_pred hh-hhhcCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHC--CCccEecccccCCchHHhHHHHhhhcCCcccc
Q 004121 569 LI-PLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQN 645 (772)
Q Consensus 569 Li-pL~~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~--g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~ 645 (772)
|+ .|.....++++|||++| .|++.. |-....|.++... +...+.|+.|||+++.|.+++|.++-.+.-..
T Consensus 232 ll~~L~~~~~~l~vVGD~dQ---sIY~fR----GA~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~ 304 (721)
T PRK11773 232 WIRLLAGDTGKVMIVGDDDQ---SIYGWR----GAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRL 304 (721)
T ss_pred HHHHHhCCCCeEEEEecCcc---cccccC----CCChHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhccccc
Confidence 22 33334578999999999 444332 2233444444332 34568899999999999999999886543211
Q ss_pred cCccccccCCCCCCCCCC--CCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEccchHHHH
Q 004121 646 GVTINERQSSGIDFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRA 723 (772)
Q Consensus 646 ~~s~~~r~~~~~~~~~p~--~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~ 723 (772)
+. ..|+. .+.++.++... ....||..|++.|..|+..|+++++|+||++.+.|..
T Consensus 305 ~k-----------~~~~~~~~g~~v~~~~~~------------~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~ 361 (721)
T PRK11773 305 GK-----------ELWTDGGDGEPISLYCAF------------NELDEARFVVERIKTWQDNGGALSDCAILYRSNAQSR 361 (721)
T ss_pred Cc-----------ccccCCCCCCeeEEEeCC------------CHHHHHHHHHHHHHHHHHcCCCcccEEEEEecchhHH
Confidence 10 11211 11223222211 1246899999999999999999999999999999999
Q ss_pred HHHHHHHHcCC
Q 004121 724 YIVNYMSRNGA 734 (772)
Q Consensus 724 ~I~~~L~~~~~ 734 (772)
.|.+.|...+.
T Consensus 362 ~le~~L~~~gI 372 (721)
T PRK11773 362 VLEEALLQAGI 372 (721)
T ss_pred HHHHHHHHCCC
Confidence 99999987764
No 16
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.86 E-value=1.7e-20 Score=225.60 Aligned_cols=312 Identities=17% Similarity=0.199 Sum_probs=179.1
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhcCc-eE--E
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL-KV--V 462 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~~~-~v--v 462 (772)
..||++|++||.+. .+..+|.|+||||||+|++..|.+|+.. .+.+||++|+||.|+.+|.+|+.+..- .. +
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 46999999999864 6788999999999999999999999874 346899999999999999999976411 00 0
Q ss_pred Eecc---cc----cc-----ccCCchhhhh-------HHHHHhhccch-----hHHHHHHHHHhHhhhccCCchH-----
Q 004121 463 RLCA---KS----RE-----AVSSPVEHLT-------LHYQVRHLDTS-----EKSELHKLQQLKDEQGELSSSD----- 513 (772)
Q Consensus 463 Rl~~---~s----re-----~i~~~~~~~~-------l~~~v~~~~~~-----~~~~l~kl~~l~~~~~~ls~~d----- 513 (772)
.++. -. ++ ........+. +...++..... ....+..+..++... ++..+
T Consensus 81 ~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~--~~~~~~~~~~ 158 (726)
T TIGR01073 81 WISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNEL--LPPEDFAKEA 158 (726)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHcC--CCHHHHHHhh
Confidence 1110 00 00 0000000000 00000000000 000000111111110 00000
Q ss_pred ----HHHHHHHHHHHHH-----HHhhcccceeecccccC-Ccccc---cCCCcEEEEEcCCCCChhhhh-h-hhhcCCCe
Q 004121 514 ----EKKYKALKRATER-----EISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPECL-I-PLVLGAKQ 578 (772)
Q Consensus 514 ----~k~~~~l~~~~~~-----~il~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQatEpe~L-i-pL~~~~k~ 578 (772)
.+.+..+.+.++. ..++..|++..+..... .+.+. ..+|++|+|||+|+++..+.- + .|....++
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 0111112222221 12333334333322211 12221 237999999999999998842 2 33334578
Q ss_pred EEEecCCCCCCccccchHHHHhcchhhHHHHHHHC--CCccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCC
Q 004121 579 VVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSG 656 (772)
Q Consensus 579 lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~--g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~ 656 (772)
+++|||++| .|++.. |-....|.++... +...+.|++|||+++.|.++++.++-.+.-....
T Consensus 239 l~vVGD~~Q---sIY~fR----gA~~~~~~~f~~~~~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~~--------- 302 (726)
T TIGR01073 239 LCVVGDADQ---SIYGWR----GADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPK--------- 302 (726)
T ss_pred EEEEeCCCc---cccccC----CCChHHHHHHHHhCCCCeEEECccCCCCCHHHHHHHHHHHHhccccccc---------
Confidence 999999999 444332 2233344444332 3446889999999999999999988654211100
Q ss_pred CCCCCCC--CCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHHCC-CCCCeEEEEccchHHHHHHHHHHHHcC
Q 004121 657 IDFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYMSRNG 733 (772)
Q Consensus 657 ~~~~~p~--~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~g-v~~~~IgIITPY~aQv~~I~~~L~~~~ 733 (772)
..|.. .+.++.++.... -..||..|++.|.+|+..| +++.+|+||++.+.|...|...|.+.+
T Consensus 303 --~l~~~~~~g~~v~~~~~~~------------~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~~l~~~L~~~g 368 (726)
T TIGR01073 303 --NLWTENSSGDKITYYEADT------------ERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKAN 368 (726)
T ss_pred --ccccCCCCCcceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHHHHHHHHHHcC
Confidence 01110 122333332211 1358999999999999876 689999999999999999999998776
Q ss_pred C
Q 004121 734 A 734 (772)
Q Consensus 734 ~ 734 (772)
.
T Consensus 369 I 369 (726)
T TIGR01073 369 I 369 (726)
T ss_pred C
Confidence 3
No 17
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.85 E-value=2.6e-20 Score=221.51 Aligned_cols=313 Identities=16% Similarity=0.176 Sum_probs=172.9
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-Cce-E--E
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GLK-V--V 462 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~-~~~-v--v 462 (772)
.||++|++||.+. .+..+|.|+||||||+|++.+|.+|+.. ++.+||++|+||.|+++|.+|+.+. +.. . +
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 5999999999864 6788999999999999999999999864 3468999999999999999999764 211 0 1
Q ss_pred Eecc---cc----cc-----ccCCchhhhh-------HHHHHhhccchhHHHHHH----HHHhHhhhccCCch-------
Q 004121 463 RLCA---KS----RE-----AVSSPVEHLT-------LHYQVRHLDTSEKSELHK----LQQLKDEQGELSSS------- 512 (772)
Q Consensus 463 Rl~~---~s----re-----~i~~~~~~~~-------l~~~v~~~~~~~~~~l~k----l~~l~~~~~~ls~~------- 512 (772)
.++. -. +. .+......+. +...+..+.......+.. +...+.. .++..
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 1110 00 00 0000000000 000000000000000111 1111110 00000
Q ss_pred --HHHHHHHHHHHHHH-----HHhhcccceeeccccc-CCcccc---cCCCcEEEEEcCCCCChhhhh-h-hhhcCCCeE
Q 004121 513 --DEKKYKALKRATER-----EISQSADVICCTCVGA-GDPRLA---NFRFRQVLIDESTQATEPECL-I-PLVLGAKQV 579 (772)
Q Consensus 513 --d~k~~~~l~~~~~~-----~il~~a~VI~~T~~~a-~~~~L~---~~~Fd~VIIDEAsQatEpe~L-i-pL~~~~k~l 579 (772)
..+.+..+.+.++. ..++-.|++.-+.... ..+.+. ..+|++|+|||+|+++..+.. + .|.....++
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 01111122222221 1233333333222111 112211 237999999999999998832 2 232234689
Q ss_pred EEecCCCCCCccccchHHHHhcchhhHHHHHHHC--CCccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCC
Q 004121 580 VLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGI 657 (772)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~--g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~ 657 (772)
++|||++| .|++. .|-....|.++... +...+.|.+|||+++.|.++++.++-.+.-.- ......
T Consensus 238 ~~VGD~~Q---sIY~f----rGA~~~~~~~f~~~~~~~~~~~L~~NyRs~~~I~~~an~li~~n~~~~----~k~~~~-- 304 (672)
T PRK10919 238 TVVGDDDQ---SIYSW----RGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANNPHVF----EKRLFS-- 304 (672)
T ss_pred EEEcCCcc---ccccc----CCCChHHHHHHHHhCCCCcEEECCCCCCCcHHHHHHHHHHHhhCcccc----cccccc--
Confidence 99999999 45443 23344555555432 34568999999999999999999885432110 000000
Q ss_pred CCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHH-HHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCC
Q 004121 658 DFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIV-TTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (772)
Q Consensus 658 ~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV-~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~ 734 (772)
..+ .+.++.++.... -..||..|+..+ ......|++.++|+||+..+.|...|.+.|...+.
T Consensus 305 --~~~-~g~~~~~~~~~~------------~~~ea~~i~~~i~~~~~~~~~~~~diAVL~Rs~~~~~~le~~L~~~gI 367 (672)
T PRK10919 305 --ELG-YGDELKVLSANN------------EEHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRI 367 (672)
T ss_pred --CCC-CCCceEEEcCCC------------HHHHHHHHHHHHHHHHHhcCCCcCcEEEEEeCchhHHHHHHHHHHcCC
Confidence 001 111222222111 125777765443 33334678899999999999999999999987764
No 18
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.82 E-value=3.2e-19 Score=212.85 Aligned_cols=315 Identities=17% Similarity=0.151 Sum_probs=170.8
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc-Cce---EE
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GLK---VV 462 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~-~~~---vv 462 (772)
.||+.|++||.+. .+..+|.|+||||||+|++..|.+|+.. ++.+||++|+||.|+.++.+||.+. +.. -+
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 4899999999764 6788999999999999999999999864 3468999999999999999999763 110 01
Q ss_pred Eecc---cc----cc-----ccCCchhhhh-------HHHHHhhccchhHHHHHHHHHhHhhh--ccCCchH--------
Q 004121 463 RLCA---KS----RE-----AVSSPVEHLT-------LHYQVRHLDTSEKSELHKLQQLKDEQ--GELSSSD-------- 513 (772)
Q Consensus 463 Rl~~---~s----re-----~i~~~~~~~~-------l~~~v~~~~~~~~~~l~kl~~l~~~~--~~ls~~d-------- 513 (772)
.++. -. ++ ........+. +...+..........+.++..+.... ..++..+
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 1110 00 00 0000000000 00000000000000011111100000 0011000
Q ss_pred -HHHHHHHHHHHHHH-----Hhhcccceeeccccc-CCcccc---cCCCcEEEEEcCCCCChhhh--hhhhhcCCCeEEE
Q 004121 514 -EKKYKALKRATERE-----ISQSADVICCTCVGA-GDPRLA---NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVL 581 (772)
Q Consensus 514 -~k~~~~l~~~~~~~-----il~~a~VI~~T~~~a-~~~~L~---~~~Fd~VIIDEAsQatEpe~--LipL~~~~k~lIL 581 (772)
...+..+...++.. .++..|++....... ..+.+. ..+|++|+|||+|+++..+. +-.|.....++++
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 00111111111111 222233332222211 122222 24799999999999999883 2333333468999
Q ss_pred ecCCCCCCccccchHHHHhcchhhHHHHHHHC--CCccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCC
Q 004121 582 VGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDF 659 (772)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~--g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~ 659 (772)
|||++| .|++.. |-....|.++... +...+.|.+|||+++.|.++.+.+|-.+.-.. ... . +
T Consensus 239 vGD~~Q---sIY~fr----ga~~~~~~~~~~~~~~~~~~~L~~NyRs~~~Il~~~n~l~~~~~~~~-----~~~---~-~ 302 (664)
T TIGR01074 239 VGDDDQ---SIYSWR----GARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVF-----EKK---L-F 302 (664)
T ss_pred EcCCcc---cccCCC----CCCHHHHHHHHHhCCCCeEEECCCCCCChHHHHHHHHHHHhcCcccc-----ccc---c-c
Confidence 999999 333321 2233334444331 34567899999999999999998764322110 000 0 0
Q ss_pred CCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHH-HHCCCCCCeEEEEccchHHHHHHHHHHHHcCC
Q 004121 660 PWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF-LRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (772)
Q Consensus 660 ~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~L-l~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~ 734 (772)
+-...+.++.++.... ...|++.|++.|..+ +..|++..+|+||++.+.|...|...|.+.+.
T Consensus 303 ~~~~~g~~v~~~~~~~------------~~~Ea~~ia~~I~~~~~~~~~~~~diAVL~R~~~~~~~l~~~l~~~gI 366 (664)
T TIGR01074 303 SELGYGEKIKVIECNN------------EEHEAERIAGEIIAHKLVNKTQYKDYAILYRGNHQSRLLEKALMQNRI 366 (664)
T ss_pred ccCCCCCceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCCcccEEEEEecCchHHHHHHHHHHcCC
Confidence 0001112333332211 135888887766532 34588999999999999999999999987764
No 19
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.81 E-value=1.7e-18 Score=202.20 Aligned_cols=200 Identities=22% Similarity=0.260 Sum_probs=121.9
Q ss_pred CCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccc
Q 004121 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~---~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~ 467 (772)
..+.|+.|+..++.+++++|.||||||||||+..++..+.+.. ..+|+++|||++|+..|.+++.....+ +.-.
T Consensus 153 ~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~---~~~~ 229 (615)
T PRK10875 153 EVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQ---LPLT 229 (615)
T ss_pred CCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhc---cccc
Confidence 4589999999999999999999999999999999998887642 347999999999999999998643111 1000
Q ss_pred cccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCccc
Q 004121 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (772)
Q Consensus 468 sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L 547 (772)
.......+..-.++|..+..... .. . .....-
T Consensus 230 ~~~~~~~~~~a~TiHrlLg~~~~---------------~~--------~-------------------------~~~~~~ 261 (615)
T PRK10875 230 DEQKKRIPEEASTLHRLLGAQPG---------------SQ--------R-------------------------LRYHAG 261 (615)
T ss_pred hhhhhcCCCchHHHHHHhCcCCC---------------cc--------c-------------------------hhhccc
Confidence 00000001112233332221110 00 0 000011
Q ss_pred ccCCCcEEEEEcCCCCChhhhh--hhhhcCCCeEEEecCCCCCCccccchHHHH------hcchhhHHHHHHH---C---
Q 004121 548 ANFRFRQVLIDESTQATEPECL--IPLVLGAKQVVLVGDHCQLGPVIMCKKAAR------AGLAQSLFERLVL---L--- 613 (772)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~L--ipL~~~~k~lILVGD~~QLpPvv~s~~a~~------~gl~~SLFeRL~~---~--- 613 (772)
....+|+||||||++...+... +-......++|||||+.||||+-.+.-..+ .++...-.+.+.. .
T Consensus 262 ~~l~~dvlIvDEaSMvd~~lm~~ll~al~~~~rlIlvGD~~QL~sV~~G~VL~DL~~~~~~~~~~~~~~~l~~~~~~~~~ 341 (615)
T PRK10875 262 NPLHLDVLVVDEASMVDLPMMARLIDALPPHARVIFLGDRDQLASVEAGAVLGDICRFAEAGYSAERAQQLSRLTGCHLP 341 (615)
T ss_pred cCCCCCeEEEChHhcccHHHHHHHHHhcccCCEEEEecchhhcCCCCCCchHHHHHHhhhcccchhhhhHHhhhcccccc
Confidence 2236899999999999877632 222234579999999999999965532111 1222211122111 0
Q ss_pred -----CCcc-----EecccccCCc--hHHhHHHHhhhcCCc
Q 004121 614 -----GLKP-----IRLQVQYRMH--PSLSEFPSNSFYEGT 642 (772)
Q Consensus 614 -----g~~~-----~~L~~QYRmh--p~I~~f~S~~FY~g~ 642 (772)
..++ ++|++.||.. ..|..++... ..|.
T Consensus 342 ~~~~~~~~~~~~~~~~L~~~~Rf~~~SgI~~lA~~I-~~G~ 381 (615)
T PRK10875 342 AGTGTEAASVRDSLCLLRKSYRFGSDSGIGQLAAAV-NRGD 381 (615)
T ss_pred ccccccCCccccceeecceeecCCCCCcHHHHHHHH-HCCC
Confidence 1122 5899999985 5688887544 4554
No 20
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.79 E-value=5.4e-19 Score=179.77 Aligned_cols=173 Identities=28% Similarity=0.367 Sum_probs=111.3
Q ss_pred CCCHHHHHHHHHhhcC--CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccc
Q 004121 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~ 467 (772)
.||++|++|+..++.+ ++.+|+||||||||+++..++..+...+ .+|+++||||.|+++|.+++. .+.
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 5999999999999999998887776665 699999999999999998852 111
Q ss_pred cccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCccc
Q 004121 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (772)
Q Consensus 468 sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L 547 (772)
.+++..+...... . .....
T Consensus 71 -----------~Ti~~~l~~~~~~----------------~----------------------------------~~~~~ 89 (196)
T PF13604_consen 71 -----------QTIHSFLYRIPNG----------------D----------------------------------DEGRP 89 (196)
T ss_dssp -----------EEHHHHTTEECCE----------------E----------------------------------CCSSC
T ss_pred -----------hhHHHHHhcCCcc----------------c----------------------------------ccccc
Confidence 1223222211110 0 00000
Q ss_pred ccCCCcEEEEEcCCCCChhhhhhhhh--c-CCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEeccccc
Q 004121 548 ANFRFRQVLIDESTQATEPECLIPLV--L-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (772)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~LipL~--~-~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QY 624 (772)
....+++||||||+++........+. . ...++|||||++||+|+-.+ +.|.-+...+...+.|+..+
T Consensus 90 ~~~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~g----------~~~~~l~~~~~~~~~L~~i~ 159 (196)
T PF13604_consen 90 ELPKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGAG----------SPFADLQESGGITVELTEIR 159 (196)
T ss_dssp C-TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCSTT----------CHHHHHCGCSTTEEEE---S
T ss_pred cCCcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcCC----------cHHHHHHhcCCCeEEeChhh
Confidence 02357899999999999887433322 2 24689999999999999643 45666666665588999999
Q ss_pred CCc-hHHhHHHHhhhcCCccc
Q 004121 625 RMH-PSLSEFPSNSFYEGTLQ 644 (772)
Q Consensus 625 Rmh-p~I~~f~S~~FY~g~L~ 644 (772)
|.. +.+. -.+..+.+|...
T Consensus 160 Rq~~~~~~-~~~~~~~~g~~~ 179 (196)
T PF13604_consen 160 RQKDPELR-EAAKAIREGDAE 179 (196)
T ss_dssp CCCCTHHH-HHHHHHCTT---
T ss_pred cCCChHHH-HHHHHHHcCCCc
Confidence 988 5555 445666666544
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=99.75 E-value=9e-17 Score=192.12 Aligned_cols=170 Identities=24% Similarity=0.288 Sum_probs=118.7
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccc
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~ 467 (772)
..||+.|++|+..++.+++++|+|+||||||+++..++..+...+ ..+|++||||+.|++.|.+.+. .
T Consensus 322 ~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g---~-------- 390 (720)
T TIGR01448 322 KGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTG---L-------- 390 (720)
T ss_pred CCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcC---C--------
Confidence 469999999999999999999999999999999988887766554 2589999999999998776541 1
Q ss_pred cccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCccc
Q 004121 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (772)
Q Consensus 468 sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L 547 (772)
...++|..+..... ... . ...-
T Consensus 391 ---------~a~Tih~lL~~~~~-----------------~~~--~------------------------------~~~~ 412 (720)
T TIGR01448 391 ---------TASTIHRLLGYGPD-----------------TFR--H------------------------------NHLE 412 (720)
T ss_pred ---------ccccHHHHhhccCC-----------------ccc--h------------------------------hhhh
Confidence 01234433221100 000 0 0000
Q ss_pred ccCCCcEEEEEcCCCCChhhh--hhhhhcCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCC-CccEeccccc
Q 004121 548 ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIRLQVQY 624 (772)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~--LipL~~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g-~~~~~L~~QY 624 (772)
.....++||||||++...... ++.......++|||||+.||||+-.+ ..|..++..+ .+.++|+..|
T Consensus 413 ~~~~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~G----------~v~~dl~~~~~~~~~~L~~i~ 482 (720)
T TIGR01448 413 DPIDCDLLIVDESSMMDTWLALSLLAALPDHARLLLVGDTDQLPSVGPG----------QVLKDLILSQAIPVTRLTKVY 482 (720)
T ss_pred ccccCCEEEEeccccCCHHHHHHHHHhCCCCCEEEEECccccccCCCCC----------chHHHHHhcCCCCEEEeCeee
Confidence 013689999999999987652 22212235699999999999998542 3455566554 6778999999
Q ss_pred CCc--hHHhHHHHhh
Q 004121 625 RMH--PSLSEFPSNS 637 (772)
Q Consensus 625 Rmh--p~I~~f~S~~ 637 (772)
|.. ..|...+..+
T Consensus 483 RQ~~~s~i~~~a~~i 497 (720)
T TIGR01448 483 RQAAGSPIITLAHGI 497 (720)
T ss_pred ccCCCcHHHHHHHHH
Confidence 986 3588877654
No 22
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.71 E-value=5.1e-16 Score=185.22 Aligned_cols=315 Identities=21% Similarity=0.205 Sum_probs=182.0
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhcCce-E---E
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLK-V---V 462 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~---~~rILV~ApSN~AVD~L~erL~~~~~~-v---v 462 (772)
.||+.|++||... .+..+|.++||||||+|++..|.+|+..+ +.+||++++||+|+.++.+|+.+.... . +
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 5999999999877 78889999999999999999999999873 457999999999999999999875321 0 0
Q ss_pred Eec--c-cc----c---cc--cCCchh------hhhHHHHH-h---hccchh--HHH-HHHHHHhHhhhccC---C----
Q 004121 463 RLC--A-KS----R---EA--VSSPVE------HLTLHYQV-R---HLDTSE--KSE-LHKLQQLKDEQGEL---S---- 510 (772)
Q Consensus 463 Rl~--~-~s----r---e~--i~~~~~------~~~l~~~v-~---~~~~~~--~~~-l~kl~~l~~~~~~l---s---- 510 (772)
.++ + -. + .. ...... ...+...+ . .++... ... ...+...+...... .
T Consensus 80 ~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (655)
T COG0210 80 TVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASALLL 159 (655)
T ss_pred EEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhhhhh
Confidence 010 0 00 0 00 000000 00000000 0 000000 000 00111111100000 0
Q ss_pred ----chHHHHHHHHHHHHHHH-----HhhcccceeecccccC-Ccc-cc--cCCCcEEEEEcCCCCChhhh--hhhhhcC
Q 004121 511 ----SSDEKKYKALKRATERE-----ISQSADVICCTCVGAG-DPR-LA--NFRFRQVLIDESTQATEPEC--LIPLVLG 575 (772)
Q Consensus 511 ----~~d~k~~~~l~~~~~~~-----il~~a~VI~~T~~~a~-~~~-L~--~~~Fd~VIIDEAsQatEpe~--LipL~~~ 575 (772)
....+........+.+. .++-.+.+.-++.... .+. +. ..+|++|+|||+|+++..+. +-.+...
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 00011111122212111 2222333333332222 121 11 34899999999999998773 2333333
Q ss_pred CCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCC--CccEecccccCCchHHhHHHHhhhcCCcccccCcccccc
Q 004121 576 AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ 653 (772)
Q Consensus 576 ~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g--~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~ 653 (772)
...+++|||+.| .|++. .|-....|..+.... .+.+.|..|||+.+.|...++..+-.+.-....
T Consensus 240 ~~~l~~VGD~dQ---sIY~f----rGA~~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r~~k------ 306 (655)
T COG0210 240 AANLFVVGDDDQ---SIYGF----RGADPENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKRQAK------ 306 (655)
T ss_pred CCCEEEEcCCcc---cccee----CCCChHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCccCCC------
Confidence 468889999999 44442 344444554554432 467899999999999999999887632211110
Q ss_pred CCCCCCCC-CCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHHCC-CCCCeEEEEccchHHHHHHHHHHHH
Q 004121 654 SSGIDFPW-PVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYMSR 731 (772)
Q Consensus 654 ~~~~~~~~-p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~~g-v~~~~IgIITPY~aQv~~I~~~L~~ 731 (772)
.+ +.+ -..+..+.++. ......||..|...+..+...| .+..+|+|+...+.|...+.+.+..
T Consensus 307 --~l-~~~~~~~~~~~~~~~------------~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s~~~e~~l~~ 371 (655)
T COG0210 307 --TL-RTEVEGSGEKVVLLL------------ANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQSRLIEEALRA 371 (655)
T ss_pred --cc-eeccCCCCCCceEEe------------CCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcchHHHHHHHHH
Confidence 00 111 11111222221 2334679999999999999988 8999999999999999999999986
Q ss_pred cCC
Q 004121 732 NGA 734 (772)
Q Consensus 732 ~~~ 734 (772)
.+.
T Consensus 372 ~~i 374 (655)
T COG0210 372 AGI 374 (655)
T ss_pred cCC
Confidence 553
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=99.71 E-value=4.2e-16 Score=187.00 Aligned_cols=169 Identities=23% Similarity=0.212 Sum_probs=114.6
Q ss_pred CCCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccc
Q 004121 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~ 467 (772)
..||+.|++||..++. +++++|+|+||||||+++..++..+...+ .+|++||||+.|+..|.+.. ++..
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~g-~~V~~~ApTg~Aa~~L~~~~---g~~a------ 420 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAG-YRVIGAALSGKAAEGLQAES---GIES------ 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhCC-CeEEEEeCcHHHHHHHHhcc---CCce------
Confidence 3699999999999987 58999999999999999988876665554 59999999999999887542 1110
Q ss_pred cccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCccc
Q 004121 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (772)
Q Consensus 468 sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L 547 (772)
.+++.....+. .+. .
T Consensus 421 -----------~Ti~~~~~~~~----------------------------------------------------~~~--~ 435 (744)
T TIGR02768 421 -----------RTLASLEYAWA----------------------------------------------------NGR--D 435 (744)
T ss_pred -----------eeHHHHHhhhc----------------------------------------------------cCc--c
Confidence 12222110000 000 0
Q ss_pred ccCCCcEEEEEcCCCCChhhh--hhhhh-cCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEeccccc
Q 004121 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (772)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~--LipL~-~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QY 624 (772)
.....++||||||+++..... |+-.. ....++|||||+.||||+-.+. .|..++. ..+.+.|+..|
T Consensus 436 ~~~~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG~----------~f~~l~~-~~~~~~Lt~I~ 504 (744)
T TIGR02768 436 LLSDKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAGA----------AFRAIAE-RIGYAELETIR 504 (744)
T ss_pred cCCCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccCc----------HHHHHHH-hhCeEEeeeEE
Confidence 112689999999999987662 22221 2356899999999999997542 3444443 34678999999
Q ss_pred CCchHHhHHHHhhhcCCcc
Q 004121 625 RMHPSLSEFPSNSFYEGTL 643 (772)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L 643 (772)
|....-..-.+..+-.|..
T Consensus 505 RQ~~~~~~~aa~~i~~G~~ 523 (744)
T TIGR02768 505 RQREAWARQASLELARGDV 523 (744)
T ss_pred ecCCHHHHHHHHHHHcCCH
Confidence 9865433344455555543
No 24
>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=99.70 E-value=1.2e-16 Score=186.41 Aligned_cols=194 Identities=23% Similarity=0.267 Sum_probs=117.9
Q ss_pred HHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC----CCcEEEEcCcHHHHHHHHHHHHhcCceEEEecccc
Q 004121 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG----QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (772)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~----~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~s 468 (772)
+.|+.|+..++.+++++|+||||||||||++.++..+.+.. ..+|+++|||++|+.+|.+.+.....+ +....
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~---l~~~~ 224 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKN---LAAAE 224 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcc---cccch
Confidence 78999999999999999999999999999999998876642 248999999999999999998653211 10000
Q ss_pred ccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCcccc
Q 004121 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (772)
Q Consensus 469 re~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L~ 548 (772)
......+....++|..+..... . .. .....-.
T Consensus 225 ~~~~~~~~~a~TiHrlLg~~~~---------------~--------~~-------------------------~~~~~~~ 256 (586)
T TIGR01447 225 ALIAALPSEAVTIHRLLGIKPD---------------T--------KR-------------------------FRHHERN 256 (586)
T ss_pred hhhhccccccchhhhhhcccCC---------------c--------ch-------------------------hhhcccC
Confidence 0000001111222222111000 0 00 0000011
Q ss_pred cCCCcEEEEEcCCCCChhhh--hhhhhcCCCeEEEecCCCCCCccccchHHHH------hcchhhHHHHHH-----H---
Q 004121 549 NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAAR------AGLAQSLFERLV-----L--- 612 (772)
Q Consensus 549 ~~~Fd~VIIDEAsQatEpe~--LipL~~~~k~lILVGD~~QLpPvv~s~~a~~------~gl~~SLFeRL~-----~--- 612 (772)
...+|+||||||++...+.. ++-......++||+||+.||||+-.+.-..+ .++.......+. .
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 23689999999999998752 2222234579999999999999965432111 010000000000 0
Q ss_pred -CCCc--cEecccccCCch--HHhHHHHhh
Q 004121 613 -LGLK--PIRLQVQYRMHP--SLSEFPSNS 637 (772)
Q Consensus 613 -~g~~--~~~L~~QYRmhp--~I~~f~S~~ 637 (772)
...+ .++|++.||... .|..++...
T Consensus 337 ~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I 366 (586)
T TIGR01447 337 RNPLSDNVCFLKTSHRFGKDSGIGQLAKAI 366 (586)
T ss_pred cCCCCCcEEEeceeecCCCCccHHHHHHHH
Confidence 0123 679999999975 588887554
No 25
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.63 E-value=1.9e-14 Score=175.68 Aligned_cols=229 Identities=19% Similarity=0.196 Sum_probs=145.6
Q ss_pred CCCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccc
Q 004121 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~ 467 (772)
..||+.|++||..+.. +++.+|+|+|||||||++..++..+-..+ .+|+.+|||+.|+..|.+.. |+..
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 3699999999998754 78999999999999999988776554444 59999999999999886543 2110
Q ss_pred cccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCccc
Q 004121 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (772)
Q Consensus 468 sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L 547 (772)
.+++..+..+.. +...+
T Consensus 450 -----------~TIas~ll~~~~----------------------------------------------------~~~~l 466 (1102)
T PRK13826 450 -----------RTLSSWELRWNQ----------------------------------------------------GRDQL 466 (1102)
T ss_pred -----------eeHHHHHhhhcc----------------------------------------------------CccCC
Confidence 122221100000 00001
Q ss_pred ccCCCcEEEEEcCCCCChhhhhhhh--h-cCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEeccccc
Q 004121 548 ANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (772)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~LipL--~-~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QY 624 (772)
..-++||||||+++......-.+ . ....++|||||+.||||+-.+. .|..+.. ......|+..|
T Consensus 467 --~~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~----------~f~~l~~-~i~~a~LteI~ 533 (1102)
T PRK13826 467 --DNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAGA----------AFRAIAD-RIGYAELETIY 533 (1102)
T ss_pred --CCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCCc----------HHHHHHh-hcCEEEeeeee
Confidence 13579999999999887743222 2 2356999999999999996542 4555543 45678999999
Q ss_pred CCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHH
Q 004121 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (772)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~ 704 (772)
|....-..-.+..+-.|.......... ....+.. . ....+.+..++..+..
T Consensus 534 RQ~~~~~r~Aa~~i~~G~~~~aL~~~~-------------~~g~v~~----~------------~~~~e~~~~lv~~~~~ 584 (1102)
T PRK13826 534 RQREQWMRDASLDLARGNVGKALDAYR-------------ANGRVIG----S------------RLKAEAVESLIADWNR 584 (1102)
T ss_pred ecCChHHHHHHHHHHcCCchhhhhHhh-------------cCCeEec----c------------ccHHHHHHHHHHHHhh
Confidence 987653334456666665331110000 0001100 0 0012345566666554
Q ss_pred CCCCCCeEEEEccchHHHHHHHHHHHHc
Q 004121 705 SGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (772)
Q Consensus 705 ~gv~~~~IgIITPY~aQv~~I~~~L~~~ 732 (772)
..-+..++-||+|.+.-+..|...++..
T Consensus 585 ~~~~~~~~lILa~tn~~v~~LN~~iR~~ 612 (1102)
T PRK13826 585 DYDPTKTTLILAHLRRDVRMLNEMARAK 612 (1102)
T ss_pred ccCcccceEEECCchHHHHHHHHHHHHH
Confidence 3223457999999999999998877653
No 26
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.63 E-value=1.2e-14 Score=176.67 Aligned_cols=229 Identities=16% Similarity=0.112 Sum_probs=140.8
Q ss_pred CCCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccc
Q 004121 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~ 467 (772)
..||+.|++||..++. +++++|+|+|||||||++..++..+ +..+.+|++||||+.|+..|.+.. |+.
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 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAW-EAAGYEVRGAALSGIAAENLEGGS---GIA------- 413 (988)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHH-HHcCCeEEEecCcHHHHHHHhhcc---Ccc-------
Confidence 3699999999999987 5799999999999999977655444 443459999999999998886521 110
Q ss_pred cccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCccc
Q 004121 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (772)
Q Consensus 468 sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L 547 (772)
-.+++.....+. .+..
T Consensus 414 ----------a~TI~sll~~~~----------------------------------------------------~~~~-- 429 (988)
T PRK13889 414 ----------SRTIASLEHGWG----------------------------------------------------QGRD-- 429 (988)
T ss_pred ----------hhhHHHHHhhhc----------------------------------------------------cccc--
Confidence 112222110000 0000
Q ss_pred ccCCCcEEEEEcCCCCChhhhhhhh--h-cCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEeccccc
Q 004121 548 ANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (772)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~LipL--~-~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QY 624 (772)
.-...++||||||+++......-.+ . ....++|||||+.||||+-.+ ..|.-|+. ....+.|+..+
T Consensus 430 ~l~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~aG----------~~f~~L~~-~~~~a~LteI~ 498 (988)
T PRK13889 430 LLTSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAG----------AAFRSIHE-RHGGAEIGEVR 498 (988)
T ss_pred ccccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCCC----------chHHHHHH-hcCeEEeceee
Confidence 0125789999999999877633222 1 235699999999999999543 34544443 24568999999
Q ss_pred CCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHHHH
Q 004121 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (772)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~Ll~ 704 (772)
|.......-.+..+..|........ +. ... ++... -+.. ..+..++..+..
T Consensus 499 RQ~~~~~r~aa~~i~~G~~~~al~~----~~---------~~g--~v~~~------------~~~e--~~~~~lv~~~~~ 549 (988)
T PRK13889 499 RQREDWQRDATRDLATGRTGEALDA----YE---------AHG--MVHAA------------ATRE--QARADLIDRWDR 549 (988)
T ss_pred cCCCHHHHHHHHHHHcCCchhhhhh----hh---------ccC--eEecc------------CCHH--HHHHHHHHHHHH
Confidence 9976555455566666654321100 00 000 01000 0111 222333433332
Q ss_pred -CCC-CCCeEEEEccchHHHHHHHHHHHHc
Q 004121 705 -SGV-VPSQIGVITPYEGQRAYIVNYMSRN 732 (772)
Q Consensus 705 -~gv-~~~~IgIITPY~aQv~~I~~~L~~~ 732 (772)
... +..++.||||.+..+..|...++..
T Consensus 550 ~r~~~~~~~~lVLaptn~~v~~LN~~iR~~ 579 (988)
T PRK13889 550 DRQAAPDRSRIILTHTNDEVRALNEAARER 579 (988)
T ss_pred hhccCCcccEEEEcCCcccHHHHHHHHHHH
Confidence 122 2367999999999999988877653
No 27
>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=99.59 E-value=5.2e-14 Score=175.70 Aligned_cols=174 Identities=17% Similarity=0.188 Sum_probs=103.9
Q ss_pred CCCcEEEEEcCCCCChhhh--hhhhhcCCC--eEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEecccccC
Q 004121 550 FRFRQVLIDESTQATEPEC--LIPLVLGAK--QVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYR 625 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe~--LipL~~~~k--~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QYR 625 (772)
.+|++|+|||+|+++..+. +-.+..+.. .+++|||++| .|++.. |-+...|-++.......+.|++|||
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ---SIY~FR----GAD~~~~~~~~~~~~~~~~L~~NyR 367 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ---AIYSFR----GADIFTYLQAKSKADARYTLGTNWR 367 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCcc---ccccCC----CCCHHHHHHHHHhcCcEEECCCCCC
Confidence 4899999999999998883 333332233 7999999999 444432 2234445444433335689999999
Q ss_pred CchHHhHHHHhhhcCCcccc--cC---cccc-ccCCCCCCCCC-CCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHH
Q 004121 626 MHPSLSEFPSNSFYEGTLQN--GV---TINE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKI 698 (772)
Q Consensus 626 mhp~I~~f~S~~FY~g~L~~--~~---s~~~-r~~~~~~~~~p-~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~i 698 (772)
++|.|.+++|.+|-...-.. +. .+.. +........-+ ....++.++....... +..-.-..+|+.+.+.
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~~a~~~a~~ 443 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE----GVDDYRQTIAQKCARE 443 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc----ccchHHHHHHHHHHHH
Confidence 99999999999985421110 00 0000 00000000000 1123555554322111 0001123456666666
Q ss_pred HHHHHHC---------------CCCCCeEEEEccchHHHHHHHHHHHHcCC
Q 004121 699 VTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (772)
Q Consensus 699 V~~Ll~~---------------gv~~~~IgIITPY~aQv~~I~~~L~~~~~ 734 (772)
+.+++.. ++++++|+||++.+.|...|.+.|.+.+.
T Consensus 444 I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~~GI 494 (1087)
T TIGR00609 444 IALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKKAQI 494 (1087)
T ss_pred HHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHHCCC
Confidence 6666532 46789999999999999999999987763
No 28
>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=99.59 E-value=7.7e-14 Score=176.02 Aligned_cols=178 Identities=20% Similarity=0.252 Sum_probs=106.9
Q ss_pred CCCcEEEEEcCCCCChhh-hhhhhhcC----CCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHC----C---Ccc
Q 004121 550 FRFRQVLIDESTQATEPE-CLIPLVLG----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL----G---LKP 617 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe-~LipL~~~----~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~----g---~~~ 617 (772)
.+|++|+|||+|+++..+ .++.+..+ ..++++|||++| .|+... |-..++|.++... + ...
T Consensus 387 ~rf~~ILVDEfQDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQ---SIY~FR----GAdp~lf~~~~~~f~~~~~~~~~~ 459 (1232)
T TIGR02785 387 EKFKEVLVDEYQDTNLLQESILQLLKRGEEDEGNLFMVGDVKQ---SIYRFR----QADPSLFLEKYHRFAQEGNEHGKR 459 (1232)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHhccCCCCCeEEEEcCCcc---hhhhhc----CCChHHHHHHHHHhhhhccCCceE
Confidence 379999999999999988 34444333 268999999999 444332 3345666544321 1 345
Q ss_pred EecccccCCchHHhHHHHhhhcCCcc--cccCc--cccccCCC-CCCCCCC-CCCCeEEEEeCCceeecccC------CC
Q 004121 618 IRLQVQYRMHPSLSEFPSNSFYEGTL--QNGVT--INERQSSG-IDFPWPV-PNRPMFFYVQMGQEEISASG------TS 685 (772)
Q Consensus 618 ~~L~~QYRmhp~I~~f~S~~FY~g~L--~~~~s--~~~r~~~~-~~~~~p~-~~~p~~f~~~~g~ee~~~~g------~S 685 (772)
+.|.+|||+++.|.++.|.+|..-.- ..... ...+...+ ..++-.. ....+.++...........+ ..
T Consensus 460 i~L~~NfRS~~~Il~~~N~lF~~~~~~~~~~i~Y~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 539 (1232)
T TIGR02785 460 IDLAENFRSRKEVLDTTNYLFKQLMDEEVGEIDYDEEAQLKFGNAKYPENPDNKTELLLYEKLAIEEEEEEEIDEEEEIL 539 (1232)
T ss_pred EECCcCCCCcHHHHHHHHHHHHHhccccccCcCcchhhhhccccccCCCCCCCCceeEEeeccccccccccccccccccc
Confidence 78999999999999999999964210 00000 00000000 0111100 11111222211000000000 00
Q ss_pred CCCHHHHHHHHHHHHHHHHCC-------------CCCCeEEEEccchHHHHHHHHHHHHcCC
Q 004121 686 YLNRTEAANVEKIVTTFLRSG-------------VVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (772)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~g-------------v~~~~IgIITPY~aQv~~I~~~L~~~~~ 734 (772)
-....||..|++.|..|++.| +++++|+||++.+.+...|.+.|...+.
T Consensus 540 ~~~~~EA~~IA~~I~~l~~~g~~v~d~~~~~~r~~~~~DIAIL~Rs~~~~~~i~~aL~~~GI 601 (1232)
T TIGR02785 540 DKAQQEATMVAERIKALIKEGFKVYDKKTGEYRPVTYRDIVILTRSRGWNLQIMEEFKKYGI 601 (1232)
T ss_pred chhHHHHHHHHHHHHHHHhcCCccccccccccCCCCcCCEEEEEeccccHHHHHHHHHHcCC
Confidence 112468999999999998764 5788999999999999999999988764
No 29
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=99.57 E-value=3.6e-15 Score=160.39 Aligned_cols=65 Identities=25% Similarity=0.318 Sum_probs=56.4
Q ss_pred CCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC---CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~---~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
||++|.++|.. ..+..+|.|+||||||+|+++++.+|+..+ ..+||++|+||.|+++|.+||...
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHh
Confidence 78999999987 589999999999999999999999988764 568999999999999999999763
No 30
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.51 E-value=5.2e-13 Score=169.37 Aligned_cols=260 Identities=18% Similarity=0.216 Sum_probs=156.1
Q ss_pred CCCCHHHHHHHHHhhc--CCeEEEEccCCCchhhHHHHHHHHHHH---cCCCcEEEEcCcHHHHHHHHHHHHhcCceEEE
Q 004121 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAK---QGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~~---~~~~rILV~ApSN~AVD~L~erL~~~~~~vvR 463 (772)
..||+.|++||..++. .++++|+|+||||||+++..++..+.. ....+|+.+|||+.|+..|.+ .|++
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 3699999999999997 469999999999999999887766532 234589999999999988764 2221
Q ss_pred eccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccC
Q 004121 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (772)
Q Consensus 464 l~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~ 543 (772)
-.++|..+..... ....+
T Consensus 1039 --------------A~TI~s~L~~~~~------------------------------------------------~~~~~ 1056 (1747)
T PRK13709 1039 --------------AQTLASFLHDTQL------------------------------------------------QQRSG 1056 (1747)
T ss_pred --------------hhhHHHHhccccc------------------------------------------------ccccc
Confidence 1233433221100 00000
Q ss_pred CcccccCCCcEEEEEcCCCCChhhhhhh--hhc-CCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHC-CCccEe
Q 004121 544 DPRLANFRFRQVLIDESTQATEPECLIP--LVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (772)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQatEpe~Lip--L~~-~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~~~~ 619 (772)
.......+++|||||++.......-. +.. ...++|||||+.||||+-.+ ..|.-|+.. +.+...
T Consensus 1057 --~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG----------~~f~~l~~~~~i~~~~ 1124 (1747)
T PRK13709 1057 --ETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPG----------QPFRLMQTRSAADVAI 1124 (1747)
T ss_pred --cCCCCCCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCC----------hHHHHHHHhCCCCeEE
Confidence 00112458999999999987663222 222 24689999999999999533 567777764 577889
Q ss_pred cccccCCchHHhHHHHhhhcCCcccccCcccccc----CCCCCCCCCCCCCCeEEEEeCCceee---cccCCCCCCHHHH
Q 004121 620 LQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ----SSGIDFPWPVPNRPMFFYVQMGQEEI---SASGTSYLNRTEA 692 (772)
Q Consensus 620 L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~----~~~~~~~~p~~~~p~~f~~~~g~ee~---~~~g~S~~N~~EA 692 (772)
|+..+|-.+.+.+. ...+..|........-... ...-.-.|.. +.-+..+.....+.. ...++-.+.....
T Consensus 1125 L~eI~RQ~~~lr~A-v~~~~~g~~~~al~~L~~~~~~~~~r~~~~~~~-~~~v~e~~~~~~~~~~~~~~~~~~~~~~~~~ 1202 (1747)
T PRK13709 1125 MKEIVRQTPELREA-VYSLINRDVERALSGIESVKPSQVPRQEGAWAP-ESSVTEFSHPQEAKLAEAQQKAMLAFPDVPM 1202 (1747)
T ss_pred eCeEEcCcHHHHHH-HHHHHccCHHHHHHHHHhccccccccccccccc-ccceeecccchhhhhhhhhhccccccccchh
Confidence 99999999854443 4566666443221111100 0000012321 112222211100000 0112222333344
Q ss_pred HHHHHHHHHHHHC-CCCCCeEEEEccchHHHHHHHHHHHH
Q 004121 693 ANVEKIVTTFLRS-GVVPSQIGVITPYEGQRAYIVNYMSR 731 (772)
Q Consensus 693 ~~V~~iV~~Ll~~-gv~~~~IgIITPY~aQv~~I~~~L~~ 731 (772)
+.+..++..++.. .-...+-.||+|.++-+..|...++.
T Consensus 1203 ~~~~~ia~dYl~lt~e~R~~TLIia~tn~~R~aIN~~IR~ 1242 (1747)
T PRK13709 1203 TLYEAIVRDYTGRTPEAREQTLIITHLNEDRRVLNSMIHD 1242 (1747)
T ss_pred HHHHHHHHHHHhcChhhcCceEEEecchHHHHHHHHHHHH
Confidence 5666778777753 12346789999999999888776643
No 31
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.50 E-value=7.3e-13 Score=166.04 Aligned_cols=259 Identities=18% Similarity=0.246 Sum_probs=152.7
Q ss_pred CCCCHHHHHHHHHhhc--CCeEEEEccCCCchhhHHHHHHHHH---HHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEE
Q 004121 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHM---AKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L---~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvR 463 (772)
..||+.|++||..+|. +++++|+|+||||||+++..++..+ .+..+.+|+.+|||+.|+..|.+. |++
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 3799999999999995 4899999999999999987766543 333456899999999999998642 211
Q ss_pred eccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccC
Q 004121 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (772)
Q Consensus 464 l~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~ 543 (772)
-.++|..+..... . ...+
T Consensus 907 --------------A~TIasfL~~~~~---------~---------------------------------------~~~~ 924 (1623)
T PRK14712 907 --------------AQTLASFLHDTQL---------Q---------------------------------------QRSG 924 (1623)
T ss_pred --------------HhhHHHHhccccc---------h---------------------------------------hhcc
Confidence 1233333221100 0 0000
Q ss_pred CcccccCCCcEEEEEcCCCCChhhh--hhhhhc-CCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHC-CCccEe
Q 004121 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (772)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQatEpe~--LipL~~-~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~~~~ 619 (772)
. ......+++|||||+++..... ++-+.. ...++|||||+.||+|+-.+ +.|+-++.. +.+...
T Consensus 925 ~--~~~~~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG----------~~F~~lq~~~~~~ta~ 992 (1623)
T PRK14712 925 E--TPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPG----------QPFRLQQTRSAADVVI 992 (1623)
T ss_pred c--CCCCCCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCC----------HHHHHHHHcCCCCeEE
Confidence 0 0112468999999999988663 222222 34689999999999999643 468888876 578889
Q ss_pred cccccCCchHHhHHHHhhhcCCcccccCcccccc----CCCCCCCCCCCCCCeEEEEeCCceee---cccCC---CCCCH
Q 004121 620 LQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ----SSGIDFPWPVPNRPMFFYVQMGQEEI---SASGT---SYLNR 689 (772)
Q Consensus 620 L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~----~~~~~~~~p~~~~p~~f~~~~g~ee~---~~~g~---S~~N~ 689 (772)
|+..+|-.+++...+.. ..+|....+...-... .+.....|.. ...+..+........ ...++ -..-.
T Consensus 993 L~eI~RQ~~elr~AV~~-~~~g~~~~AL~~L~~~~~~~vpr~~~~~~~-~~~v~e~~~~~e~~~~~~~~~~~~~~~~~~~ 1070 (1623)
T PRK14712 993 MKEIVRQTPELREAVYS-LINRDVERALSGLERVKPSQVPRLEGAWAP-EHSVTEFSHSQEAKLAEAQQKAMLKGEAFPD 1070 (1623)
T ss_pred eCeeecCCHHHHHHHHH-HHcCCHHHHHHHHhhccccccccccccccc-ccccccccccccccchhhhhhcccccccccc
Confidence 99999999988777643 4444322111000000 0000111221 112222211111000 00000 00000
Q ss_pred HHHHHHHHHHHHHHHCC-CCCCeEEEEccchHHHHHHHHHHH
Q 004121 690 TEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYMS 730 (772)
Q Consensus 690 ~EA~~V~~iV~~Ll~~g-v~~~~IgIITPY~aQv~~I~~~L~ 730 (772)
.+...+..++..++... -...+-.||+|.++-+..|...++
T Consensus 1071 ~~~~~~~aia~dYl~lt~e~R~~TLIIa~tN~~R~aIN~~IR 1112 (1623)
T PRK14712 1071 VPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIH 1112 (1623)
T ss_pred cchhHHHHHHHHHHhcCHhhhcceEEEecccHHHHHHHHHHH
Confidence 12244566777776532 234679999999999988877664
No 32
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.44 E-value=6e-12 Score=157.90 Aligned_cols=174 Identities=16% Similarity=0.219 Sum_probs=104.4
Q ss_pred CCCcEEEEEcCCCCChhhh--hhhhhcC--CCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEecccccC
Q 004121 550 FRFRQVLIDESTQATEPEC--LIPLVLG--AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYR 625 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe~--LipL~~~--~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QYR 625 (772)
.+|++|+|||+|+++..+. +..|... ...+++|||++| .|++... -+...|-.........+.|.+|||
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ---sIY~FRG----Ad~~~~l~~~~~~~~~~~L~~NyR 448 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQ---AIYAFRG----ADIFTYMKARSEVSAHYTLDTNWR 448 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc---ccccCCC----CCchHHHHHHhccCCeeECCCCcC
Confidence 3799999999999998883 3333321 347999999999 4544322 122222222222234578999999
Q ss_pred CchHHhHHHHhhhcCCccc---ccCc---ccc-ccCCCCCCCCC-CCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHH
Q 004121 626 MHPSLSEFPSNSFYEGTLQ---NGVT---INE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEK 697 (772)
Q Consensus 626 mhp~I~~f~S~~FY~g~L~---~~~s---~~~-r~~~~~~~~~p-~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~ 697 (772)
+++.|.+++|.+|....-. .+.. +.. .......+... ....|+.++...+... ........||+.|++
T Consensus 449 S~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~eA~~iA~ 524 (1181)
T PRK10876 449 SAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLMEGEGV----GVGDYQQTMAQQCAA 524 (1181)
T ss_pred cCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeecCCCcc----CcchHHHHHHHHHHH
Confidence 9999999999999653210 0000 000 00000000000 1112344443332111 111223558888888
Q ss_pred HHHHHHHCC---------------CCCCeEEEEccchHHHHHHHHHHHHcCC
Q 004121 698 IVTTFLRSG---------------VVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (772)
Q Consensus 698 iV~~Ll~~g---------------v~~~~IgIITPY~aQv~~I~~~L~~~~~ 734 (772)
-|.+|+..| ++++||+||++.+.|...|++.|.+.+.
T Consensus 525 ~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~~gI 576 (1181)
T PRK10876 525 QIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTLLAI 576 (1181)
T ss_pred HHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHhCCC
Confidence 888877542 5778999999999999999999988763
No 33
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.44 E-value=1.5e-12 Score=163.05 Aligned_cols=175 Identities=19% Similarity=0.249 Sum_probs=111.7
Q ss_pred CCCcEEEEEcCCCCChhh--hhhhhhcC----CCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHH--CCCccEecc
Q 004121 550 FRFRQVLIDESTQATEPE--CLIPLVLG----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL--LGLKPIRLQ 621 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~~----~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~--~g~~~~~L~ 621 (772)
.+|++|+|||+|+++..+ .+-.+..+ ...++||||+|| .|++. .|-+..+|..... .....+.|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ---SIY~F----RgAD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ---SIYRF----RGADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchH---Hhhhh----cCCChHHHHHHhhccccCceeecc
Confidence 479999999999999887 33334333 248999999999 33322 3446677777776 456778999
Q ss_pred cccCCchHHhHHHHhhhcCC------cccccCcccc--c-cCCCCCCCCCCCCCCeEEEEeCC--ceeecccCCCCCCHH
Q 004121 622 VQYRMHPSLSEFPSNSFYEG------TLQNGVTINE--R-QSSGIDFPWPVPNRPMFFYVQMG--QEEISASGTSYLNRT 690 (772)
Q Consensus 622 ~QYRmhp~I~~f~S~~FY~g------~L~~~~s~~~--r-~~~~~~~~~p~~~~p~~f~~~~g--~ee~~~~g~S~~N~~ 690 (772)
+|||+.++|++++|.+|-.- .....+.... + .......+|+. ....++.... ...............
T Consensus 450 ~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~e~~~~~~~~~~~~~~~~~~ 527 (1139)
T COG1074 450 TNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGEPL--PALKFWEEEDDWTAPENEEDEREIADL 527 (1139)
T ss_pred cccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCcccc--hhhhhhcCcccccCCCCchhHHHHHHH
Confidence 99999999999999998642 1111110000 0 01111122221 1112222110 000000011344567
Q ss_pred HHHHHHHHHHHHHH--------CCCCCCeEEEEccchHHHHHHHHHHHHcC
Q 004121 691 EAANVEKIVTTFLR--------SGVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (772)
Q Consensus 691 EA~~V~~iV~~Ll~--------~gv~~~~IgIITPY~aQv~~I~~~L~~~~ 733 (772)
||..|...+..+.. ..+.+.||+||++-+.+...|++.|+..+
T Consensus 528 ~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~~~ 578 (1139)
T COG1074 528 EARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKKAG 578 (1139)
T ss_pred HHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHhcC
Confidence 88888888888885 35889999999999999999999998874
No 34
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.42 E-value=2.3e-12 Score=158.71 Aligned_cols=157 Identities=18% Similarity=0.238 Sum_probs=105.5
Q ss_pred cCCCcEEEEEcCCCCChhhh--hhhhhc----C-----CCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHC-CCc
Q 004121 549 NFRFRQVLIDESTQATEPEC--LIPLVL----G-----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLK 616 (772)
Q Consensus 549 ~~~Fd~VIIDEAsQatEpe~--LipL~~----~-----~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~-g~~ 616 (772)
..+|++|+|||+|+++..+. +.+|.. + ...+++|||++| .|++. .|-...+|.++... +..
T Consensus 326 ~~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ---SIY~F----RGA~~~~f~~~~~~~~~~ 398 (910)
T PRK13909 326 DSKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ---SIYRF----RGGKKELFDKVSKDFKQK 398 (910)
T ss_pred hcCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh---hhhhh----cCCChHHHHHHHHHhhhh
Confidence 34799999999999999883 444431 1 357999999999 34332 23345677776542 224
Q ss_pred cEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHH
Q 004121 617 PIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVE 696 (772)
Q Consensus 617 ~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~ 696 (772)
.+.|.+|||++|.|.+|.|..|-... . ....... +-...+..+.++. .. .....+++.|+
T Consensus 399 ~~~L~~NyRS~~~Iv~~~N~~f~~~~-~-~~~~~~~-------~~~~~~g~v~i~~-~~----------~~~~~~a~~ia 458 (910)
T PRK13909 399 VDNLDTNYRSAPLIVDFVNEVFKKKY-K-NYKTQYA-------EQHKSGGYVEVVE-VA----------DESEELLEQLL 458 (910)
T ss_pred hcccccCCCCChHHHHHHHHHHHHHH-H-hhhhhhc-------ccccCCCcEEEEE-CC----------CccHHHHHHHH
Confidence 57899999999999999999985421 0 0000000 0000111222222 11 01234678899
Q ss_pred HHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHc
Q 004121 697 KIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (772)
Q Consensus 697 ~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~ 732 (772)
+.|..+++.|+++++|+||++.+.|...|.+.|...
T Consensus 459 ~~I~~l~~~g~~~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 459 QEIQFLLEKGIDPDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHHHHcCCCcCCEEEEEecCccHHHHHHHHHhc
Confidence 999999999999999999999999999999999877
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=99.34 E-value=1.8e-11 Score=159.31 Aligned_cols=170 Identities=22% Similarity=0.254 Sum_probs=113.9
Q ss_pred CCCCHHHHHHHHHhhc--CCeEEEEccCCCchhhHHHHHHH---HHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEE
Q 004121 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVY---HMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~---~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvR 463 (772)
..||+.|++|+..++. ..+++|+|+||||||+++.+++. .+.+..+.+|+.+|||+.|+.+|.+ .|++
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 3344445689999999999999864 2221
Q ss_pred eccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccC
Q 004121 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (772)
Q Consensus 464 l~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~ 543 (772)
-.+++..+..... ...
T Consensus 1091 --------------a~Ti~s~l~~~~~--------------------------------------------------~~~ 1106 (1960)
T TIGR02760 1091 --------------AQTLDSFLTDISL--------------------------------------------------YRN 1106 (1960)
T ss_pred --------------hHhHHHHhcCccc--------------------------------------------------ccc
Confidence 1133322211000 000
Q ss_pred CcccccCCCcEEEEEcCCCCChhhhhhhh--h-cCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCC-CccEe
Q 004121 544 DPRLANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIR 619 (772)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQatEpe~LipL--~-~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g-~~~~~ 619 (772)
.. .....+++|||||++....+..-.+ . ....++|||||++||+|+-.+ ..|+-++..+ ++.+.
T Consensus 1107 ~~--~~~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~aG----------~~f~~~~~~~~~~~~~ 1174 (1960)
T TIGR02760 1107 SG--GDFRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAAG----------KPFELAITFDIIDTAI 1174 (1960)
T ss_pred cC--CCCcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCCCC----------cCHHHHHhcCCCCeEE
Confidence 00 0125689999999999887633222 2 234789999999999998432 3456666555 77889
Q ss_pred cccccCCc--hHHhHHHHhhhcCCc
Q 004121 620 LQVQYRMH--PSLSEFPSNSFYEGT 642 (772)
Q Consensus 620 L~~QYRmh--p~I~~f~S~~FY~g~ 642 (772)
|+..+|-. |.+.+. ...+-.|.
T Consensus 1175 L~~I~RQ~~~~~l~~a-~~~~~~~~ 1198 (1960)
T TIGR02760 1175 MKEIVRQNNSAELKAA-HNSLDKRS 1198 (1960)
T ss_pred eeeEecCCCCHHHHHH-HHHHhcCc
Confidence 99999984 555444 45554554
No 36
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.34 E-value=1.3e-10 Score=130.99 Aligned_cols=174 Identities=21% Similarity=0.282 Sum_probs=117.6
Q ss_pred CCCcEEEEEcCCCCChhhhhhhhh--cCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHH----CCCccEecccc
Q 004121 550 FRFRQVLIDESTQATEPECLIPLV--LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL----LGLKPIRLQVQ 623 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe~LipL~--~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~----~g~~~~~L~~Q 623 (772)
.++.++|||||++.+..+ +..+. ..+..+-.+||-.| .+.... -..+.++|+.. ..+..+.|..+
T Consensus 527 ~~~kh~vIDeaqdys~~q-~~~~r~l~~~as~tivgd~gq---~i~~~~-----~e~~~~e~~~~~fed~~~e~v~l~~s 597 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQ-FTDNRTLAERASMTIVGDYGQ---VIYDEA-----QELSPMERMDVFFEDPSFEYVGLIAS 597 (747)
T ss_pred ccccceeechhhhcchhh-hHHHhhhhhhccceEeccCCc---eehhhh-----cccCHHHHHHHHHhCCCchhhhhhhh
Confidence 468899999999998877 22221 24678899999999 332211 01234444432 22455789999
Q ss_pred cCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCC-CCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHHH
Q 004121 624 YRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW-PVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF 702 (772)
Q Consensus 624 YRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~-p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~L 702 (772)
||+..+|.+|++.+.-++ . .. .|. .+...|.+.- +..|..=.+.+..++.+|
T Consensus 598 yrSt~eI~efan~~l~d~--~---~~---------~p~~rsge~p~~i~-------------~~~ne~l~qr~~~ii~~m 650 (747)
T COG3973 598 YRSTAEIDEFANSLLPDR--F---RI---------HPLTRSGEKPAVIM-------------SVANEELVQRNPDIIPRM 650 (747)
T ss_pred hcChHHHHHHHHHhccCC--C---cc---------chhhcCCCCceeee-------------ccchHHHHHhhHHHHHHH
Confidence 999999999998876421 0 00 010 1223444322 233444456777888888
Q ss_pred HHCCCCCCeEEEEccchHHHHHHHHHHHHcCCcc------cccCCCeEEccCCCCCCCcCCEEEE
Q 004121 703 LRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALR------QQLYKEIEVASVDSFQGREKDYIIL 761 (772)
Q Consensus 703 l~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~------~~~~~~I~V~TVD~FQGrEkDvIIl 761 (772)
.+.|. +.||||++...|..++...|+.....+ +.......|--|+-.+|.|+|.||+
T Consensus 651 kk~~~--etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv 713 (747)
T COG3973 651 KKRGS--ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIV 713 (747)
T ss_pred HhcCC--CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEE
Confidence 88764 689999999999999999998654432 2234567899999999999999887
No 37
>PF13245 AAA_19: Part of AAA domain
Probab=99.32 E-value=3.1e-12 Score=110.36 Aligned_cols=58 Identities=43% Similarity=0.644 Sum_probs=51.2
Q ss_pred HHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHH
Q 004121 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKI 454 (772)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL 454 (772)
+||..++. +++++|+||||||||+|++.++..++.. +..+||+++|||.|+|+|.+|+
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 36776777 8899999999999999999999998854 2459999999999999999999
No 38
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=99.32 E-value=4.5e-11 Score=155.65 Aligned_cols=165 Identities=18% Similarity=0.204 Sum_probs=109.7
Q ss_pred CCCHHHHHHHHHhhcC--CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccc
Q 004121 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~ 467 (772)
.||+.|++||..++.. ++.+|+|+||||||+++..++..+-..+ .+|.++|||..|+..|.+.+...
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 7999999999999999998886654444 59999999999999998765211
Q ss_pred cccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCccc
Q 004121 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (772)
Q Consensus 468 sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L 547 (772)
-.+++.++..+.... ....+.. .+. ....+
T Consensus 498 ----------A~Ti~~~l~~l~~~~--~~~tv~~--------------------------fl~------------~~~~l 527 (1960)
T TIGR02760 498 ----------ASTFITWVKNLFNDD--QDHTVQG--------------------------LLD------------KSSPF 527 (1960)
T ss_pred ----------hhhHHHHHHhhcccc--cchhHHH--------------------------hhc------------ccCCC
Confidence 113333332211100 0000000 000 00001
Q ss_pred ccCCCcEEEEEcCCCCChhhhhhhhh---cCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEeccccc
Q 004121 548 ANFRFRQVLIDESTQATEPECLIPLV---LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (772)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~LipL~---~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QY 624 (772)
..-++||||||+++...+..-.+. ....++|||||+.||+++-.+ +.|.-|...|.+.++|+..-
T Consensus 528 --~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~aG----------~~f~~L~~~gv~t~~l~~i~ 595 (1960)
T TIGR02760 528 --SNKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAG----------SAIDLLKEGGVTTYAWVDTK 595 (1960)
T ss_pred --CCCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccccc----------hHHHHHHHCCCcEEEeeccc
Confidence 256899999999999887433332 234799999999999998533 34566666677777776654
Q ss_pred CCc
Q 004121 625 RMH 627 (772)
Q Consensus 625 Rmh 627 (772)
|..
T Consensus 596 rq~ 598 (1960)
T TIGR02760 596 QQK 598 (1960)
T ss_pred ccC
Confidence 443
No 39
>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=99.27 E-value=2.7e-11 Score=134.23 Aligned_cols=163 Identities=20% Similarity=0.314 Sum_probs=103.0
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH--HHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccccccccCCchhhhhHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM--AKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHY 483 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L--~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~sre~i~~~~~~~~l~~ 483 (772)
.+++|+|.||||||.++..++..+ ... ..++++++++..-++.+.+.+.+.. ..... ..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~-~~~~~~l~~n~~l~~~l~~~l~~~~-----~~~~~-------------~~ 62 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEE-GKKVLYLCGNHPLRNKLREQLAKKY-----NPKLK-------------KS 62 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhcccc-CCceEEEEecchHHHHHHHHHhhhc-----ccchh-------------hh
Confidence 468999999999999999999998 443 4588888898888888887775431 00000 00
Q ss_pred HHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCcccccCCCcEEEEEcCCCC
Q 004121 484 QVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQA 563 (772)
Q Consensus 484 ~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQa 563 (772)
...... . .+.... ........||+||||||+.+
T Consensus 63 -----------~~~~~~------------------~--------~i~~~~----------~~~~~~~~~DviivDEAqrl 95 (352)
T PF09848_consen 63 -----------DFRKPT------------------S--------FINNYS----------ESDKEKNKYDVIIVDEAQRL 95 (352)
T ss_pred -----------hhhhhH------------------H--------HHhhcc----------cccccCCcCCEEEEehhHhh
Confidence 000000 0 000000 11123347999999999988
Q ss_pred Ch----------hhhhhhhhcCCCeEEEecCCCC-CCccccchHHHHhcchhhHHHHHHH-CCCc--c-EecccccCC--
Q 004121 564 TE----------PECLIPLVLGAKQVVLVGDHCQ-LGPVIMCKKAARAGLAQSLFERLVL-LGLK--P-IRLQVQYRM-- 626 (772)
Q Consensus 564 tE----------pe~LipL~~~~k~lILVGD~~Q-LpPvv~s~~a~~~gl~~SLFeRL~~-~g~~--~-~~L~~QYRm-- 626 (772)
.. +..|.-+...++.+|++-|+.| +.|--. + ....++.+.. .+.. . +.|+.||||
T Consensus 96 ~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q~i~~~e~-------~-~~~~l~~~~~~~~~~~~~~~~L~~q~R~~~ 167 (352)
T PF09848_consen 96 RTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQSIRPSEI-------G-TLENLEEIAENLGIEVRHFFELKTQFRCHG 167 (352)
T ss_pred hhccccccccccHHHHHHHHhcCCEEEEEEccccEeecccC-------C-CHHHHHHHHHhcCCccccCcCcCcceecCC
Confidence 87 2345455555778888889998 333211 1 1222444433 3332 2 489999999
Q ss_pred chHHhHHHHhhhcCCc
Q 004121 627 HPSLSEFPSNSFYEGT 642 (772)
Q Consensus 627 hp~I~~f~S~~FY~g~ 642 (772)
.+++.+|+..+++...
T Consensus 168 ~~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 168 SKEYIDWIDNLLDNKN 183 (352)
T ss_pred CHHHHHHHHHHHhccc
Confidence 8999999999998654
No 40
>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=99.24 E-value=7.7e-12 Score=139.13 Aligned_cols=60 Identities=30% Similarity=0.440 Sum_probs=50.9
Q ss_pred CCCHHHHHHHHHhh------cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHH
Q 004121 390 ELNASQVFAVKSVL------QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQL 450 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL------~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L 450 (772)
.||++|++++..++ ......|.||+|||||+++.+++..+-.. +..|++||+|..|+-++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~-~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR-GKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc-cceEEEecchHHHHHhc
Confidence 48999999988873 34578999999999999999888776443 45899999999999887
No 41
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=99.07 E-value=9.5e-10 Score=112.25 Aligned_cols=54 Identities=30% Similarity=0.586 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCC-cEEEEcC
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQG-QVLVCAP 442 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~-rILV~Ap 442 (772)
..+|..|+.++...+..+++++.||+|||||.++.+...+++..+.. +|+++-|
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp 57 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRP 57 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEec
Confidence 35799999999999999999999999999999999988888877543 5555543
No 42
>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=99.07 E-value=1.3e-10 Score=120.42 Aligned_cols=79 Identities=19% Similarity=0.171 Sum_probs=49.7
Q ss_pred CCcEEEEEcCCCCChhhhhhhh-hcCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHCCCccEecccccCCchH
Q 004121 551 RFRQVLIDESTQATEPECLIPL-VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPS 629 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe~LipL-~~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~g~~~~~L~~QYRmhp~ 629 (772)
.++.+||||+++...-..+..+ ...++.++++||+.|.+..-.........+... ......+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHFISD--------ISHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceecccccc--------eeeeecceeEeecccc
Confidence 6899999999888754533322 235679999999999776543221111111001 1233457788999888
Q ss_pred HhHHHHhh
Q 004121 630 LSEFPSNS 637 (772)
Q Consensus 630 I~~f~S~~ 637 (772)
+..+.+..
T Consensus 134 ~~~~~~~~ 141 (234)
T PF01443_consen 134 RFDIISAL 141 (234)
T ss_pred cceeeecc
Confidence 88777655
No 43
>PRK10536 hypothetical protein; Provisional
Probab=98.94 E-value=3.9e-09 Score=110.73 Aligned_cols=64 Identities=19% Similarity=0.226 Sum_probs=48.0
Q ss_pred CCCCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHH
Q 004121 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ 449 (772)
Q Consensus 386 ~~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~ 449 (772)
.....+|..|..++......+++++.||+|||||+++.++....+..+.-+-++++.++..+++
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge 118 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADE 118 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchh
Confidence 3456799999999998888899999999999999999988886554433344444555544443
No 44
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.93 E-value=1.8e-08 Score=111.50 Aligned_cols=331 Identities=15% Similarity=0.136 Sum_probs=170.0
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHH-HcCCCcEEEEcCcHHHHHHHHHHHHhc----------
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCAPSNVAVDQLAEKISAT---------- 457 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~-~~~~~rILV~ApSN~AVD~L~erL~~~---------- 457 (772)
.+++..|++|+-..- .+.-.|+|-+|+|||.+++..+++|. +++..+|+++.+|..-.-.+..++.+.
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 467888888754332 34558999999999999999988874 568889999999999888887777543
Q ss_pred -CceEEEeccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhccccee
Q 004121 458 -GLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIC 536 (772)
Q Consensus 458 -~~~vvRl~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~ 536 (772)
+-+.++.+..... ++ .+.+....+... ++. .++...-. ++...+ +++..++
T Consensus 240 W~~~l~~h~wgG~t---~~-g~y~~~~~~~~~--------------~~~--~fsg~g~~-F~~aC~----eli~~~~--- 291 (660)
T COG3972 240 WGTKLFCHNWGGLT---KE-GFYGMYRYICHY--------------YEI--PFSGFGNG-FDAACK----ELIADIN--- 291 (660)
T ss_pred ccceEEEeccCCCC---CC-cchHHHHHHhcc--------------ccc--ccCCCCcc-hHHHHH----HHHHhhh---
Confidence 1123333322110 00 001111100000 000 00100000 221111 1221111
Q ss_pred ecccccCCcccccCCCcEEEEEcCCCCChhh--hhhhhhcCCCeEEEecCCCC-CCccccchHHHHhcch------hhHH
Q 004121 537 CTCVGAGDPRLANFRFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQ-LGPVIMCKKAARAGLA------QSLF 607 (772)
Q Consensus 537 ~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe--~LipL~~~~k~lILVGD~~Q-LpPvv~s~~a~~~gl~------~SLF 607 (772)
...-+|+|+|||+++.+..= +..-+....|++|.++|.-| |.-+-+-..+...|-. .+|
T Consensus 292 -----------~~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg~P~V~l- 359 (660)
T COG3972 292 -----------NKKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDGEPRVNL- 359 (660)
T ss_pred -----------ccccccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCCCccccc-
Confidence 13368999999998875321 11122235789999999999 3333222222211110 010
Q ss_pred HHHHHCCCccEecccccCCchHHhHHHHhh---hcCCcccc----------cCccccccC---CCCCCCCCCCCCCeEEE
Q 004121 608 ERLVLLGLKPIRLQVQYRMHPSLSEFPSNS---FYEGTLQN----------GVTINERQS---SGIDFPWPVPNRPMFFY 671 (772)
Q Consensus 608 eRL~~~g~~~~~L~~QYRmhp~I~~f~S~~---FY~g~L~~----------~~s~~~r~~---~~~~~~~p~~~~p~~f~ 671 (772)
.| ..-.-+.|...||..|...-++-.+ .|.|..+- |-++..-.+ ..+...-+....|. |+
T Consensus 360 ~r---adr~DiVL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~-fl 435 (660)
T COG3972 360 AR---ADRNDIVLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPE-FL 435 (660)
T ss_pred cc---CccccchHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcc-cc
Confidence 01 0112367999999988766554333 23332210 000000000 00000000111222 22
Q ss_pred EeCCceeecccCCCCC-CHHHHHHHHHHHHHHHHCCCCCCeEEEEccc----hHHHHHHHHHHHHcCCcc---------c
Q 004121 672 VQMGQEEISASGTSYL-NRTEAANVEKIVTTFLRSGVVPSQIGVITPY----EGQRAYIVNYMSRNGALR---------Q 737 (772)
Q Consensus 672 ~~~g~ee~~~~g~S~~-N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY----~aQv~~I~~~L~~~~~~~---------~ 737 (772)
...+..+....--.+- -..|+.+|+.-+..+.+.++.++||.||.+- ++-...|.+.|...+.-. .
T Consensus 436 ~e~~~p~~i~~fi~fd~~~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e 515 (660)
T COG3972 436 PENHKPTAIHLFIGFDNGPDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHE 515 (660)
T ss_pred cccCChhhhheeeccCCcchhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccc
Confidence 2222211111111112 2468888887777788889999999999874 334444545454433210 0
Q ss_pred ---ccCCCeEEccCCCCCCCcCCEEEEEee
Q 004121 738 ---QLYKEIEVASVDSFQGREKDYIILSCV 764 (772)
Q Consensus 738 ---~~~~~I~V~TVD~FQGrEkDvIIlS~V 764 (772)
.....|.+.+|-+..|.|+.+|+.--+
T Consensus 516 ~~f~~dgkvtis~IyrAKGnEapfV~aL~a 545 (660)
T COG3972 516 TKFKQDGKVTISRIYRAKGNEAPFVYALGA 545 (660)
T ss_pred cccccCceEEeeeehhccCCCCcEEEEehh
Confidence 112268999999999999999987543
No 45
>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=2e-07 Score=118.25 Aligned_cols=152 Identities=16% Similarity=0.123 Sum_probs=93.7
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhcCCCeEEEecCCCCCCccccchHH-HHhcchhhHHHHHH----HCCC---ccEec
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIMCKKA-ARAGLAQSLFERLV----LLGL---KPIRL 620 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~~~k~lILVGD~~QLpPvv~s~~a-~~~gl~~SLFeRL~----~~g~---~~~~L 620 (772)
.+.+|+|||+++.+..+ ++-.|...++.++++||..|-. ..... .-..+....|.++. ..+. .++.+
T Consensus 196 ~~~~I~VDeFqdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~~---~~~~~~~lf~~~~~~~~~l~~~~~~~~~~~~~~i~~ 272 (1158)
T TIGR02773 196 KGAEIYIDGFHSFTPQEYSVIGALMKKAKKVTVTLTLDGPK---SLEDELSLFRATSETYYRLKELAKELGIEVEEPIFL 272 (1158)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCcEEEEEEeCCcc---ccCCccccchhHHHHHHHHHHHHHHcCCCccccccc
Confidence 46799999999999887 3344445578899999999951 00000 00111222333332 2332 23445
Q ss_pred ccccCC--chHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHHHHHHHH
Q 004121 621 QVQYRM--HPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKI 698 (772)
Q Consensus 621 ~~QYRm--hp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~i 698 (772)
..+++. ++.|..+..+++-.+. . ++...+.++.++..... ..|++.|++.
T Consensus 273 ~~~~~~~~~~~l~~Lek~l~~~~~-~---------------~~~~~~~~I~i~~~~~~------------~~Eae~va~~ 324 (1158)
T TIGR02773 273 NEYRPNKKNKELAHLEKQFDARPF-N---------------AYIEEDGSISIFEANNR------------RAEVEGVARQ 324 (1158)
T ss_pred ccccCCCCCHHHHHHHHHHhhCCC-C---------------CCCCCCCCeEEEEcCCH------------HHHHHHHHHH
Confidence 556653 7777777655552211 0 00011223333332221 3599999999
Q ss_pred HHHHHHC-CCCCCeEEEEccc-hHHHHHHHHHHHHcC
Q 004121 699 VTTFLRS-GVVPSQIGVITPY-EGQRAYIVNYMSRNG 733 (772)
Q Consensus 699 V~~Ll~~-gv~~~~IgIITPY-~aQv~~I~~~L~~~~ 733 (772)
|.+|++. |+.+.+|+|+++- +.+...|...+...+
T Consensus 325 I~~l~~~~g~~~~DIAVL~R~~~~y~~~i~~~f~~~~ 361 (1158)
T TIGR02773 325 ILRLTRDKQYRYQDIAILTRDLEDYAKLVEAVFSDYE 361 (1158)
T ss_pred HHHHHHcCCCChhheEEEeCCHHHHHHHHHHHHHhCC
Confidence 9999876 8999999999999 999999999987654
No 46
>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=98.82 E-value=2.9e-08 Score=125.72 Aligned_cols=174 Identities=16% Similarity=0.215 Sum_probs=104.6
Q ss_pred CCCcEEEEEcCCCCChhh--hhhhhhcC-----------CCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHC---
Q 004121 550 FRFRQVLIDESTQATEPE--CLIPLVLG-----------AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--- 613 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~~-----------~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~--- 613 (772)
.+|++|+|||+|+++..+ .+.+|... .+.+++|||++| .|++.. |-+..+|.++...
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ---SIY~FR----GAd~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ---SIYSFQ----GADPDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc---cCcccc----CCCHHHHHHHHHHHHH
Confidence 489999999999999988 34444321 367999999999 454432 3345555554321
Q ss_pred -------CCccEecccccCCchHHhHHHHhhhcCCcccccCccc--cccCCCCCCCCCCCCCCeEEEEeCCce---eec-
Q 004121 614 -------GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTIN--ERQSSGIDFPWPVPNRPMFFYVQMGQE---EIS- 680 (772)
Q Consensus 614 -------g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~--~r~~~~~~~~~p~~~~p~~f~~~~g~e---e~~- 680 (772)
....+.|++|||+++.|.+|.|..|-......+.... ........ .....++.++.....+ +..
T Consensus 463 ~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~~~~~~~~~~~~---~~~~g~v~l~~~~~~~~~~~~~~ 539 (1141)
T TIGR02784 463 KVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDLVVHEAIR---SDLPGEVELWDLISPEEGEDPED 539 (1141)
T ss_pred hhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCCcchhhcccccc---cCCCCceEEEeccCccccccccc
Confidence 1245789999999999999999999653221111000 00000000 0000122222211100 000
Q ss_pred ------ccCCCCCCHHHHHHHHHHHHHHHHCC----------CCCCeEEEEccchHH-HHHHHHHHHHcC
Q 004121 681 ------ASGTSYLNRTEAANVEKIVTTFLRSG----------VVPSQIGVITPYEGQ-RAYIVNYMSRNG 733 (772)
Q Consensus 681 ------~~g~S~~N~~EA~~V~~iV~~Ll~~g----------v~~~~IgIITPY~aQ-v~~I~~~L~~~~ 733 (772)
..........||+.|++.|..+++.| +++.+|+||++.+.+ ...|.+.|.+.+
T Consensus 540 ~~~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~~~~~i~~aL~~~g 609 (1141)
T TIGR02784 540 WTAPVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDAFVSALIRALKRRG 609 (1141)
T ss_pred cccccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCchhHHHHHHHHHHCC
Confidence 00001112258999999999998876 578899999999998 578888887654
No 47
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.81 E-value=5.3e-08 Score=96.19 Aligned_cols=70 Identities=27% Similarity=0.397 Sum_probs=60.4
Q ss_pred CCCCHHHHHHHHHhhcC-CeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 389 PELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~-~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
..+++.|.+++..++.. ...+|.||+|||||++++..+...+... ..++|+++|++.++.++..++....
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 46899999999999887 8999999999999998888777766553 4689999999999999999887653
No 48
>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=98.61 E-value=2.4e-07 Score=86.05 Aligned_cols=51 Identities=31% Similarity=0.504 Sum_probs=44.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..+|.||||||||+++...+..+... ...++++++|++..++++.+++...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 46899999999999999988887765 4569999999999999999988764
No 49
>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=98.51 E-value=8.3e-07 Score=86.82 Aligned_cols=66 Identities=23% Similarity=0.375 Sum_probs=56.1
Q ss_pred CHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
++-|.+++..++++.-++|.||+|+|||.+..-.+...+..+ ..++++++|+...++++.+++...
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 359999999999999999999765
No 50
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.50 E-value=6.4e-08 Score=114.53 Aligned_cols=305 Identities=25% Similarity=0.302 Sum_probs=192.6
Q ss_pred CCCCCHHHHHHHHHhh-----cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc----C
Q 004121 388 LPELNASQVFAVKSVL-----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT----G 458 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL-----~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~----~ 458 (772)
.+.+|..|..++.... ..+..|+.|+ |+|||.+++.-+..+......+++.+.+++.|+|......... +
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 3567777777665533 2356788998 9999999988887776665679999999999976665554321 1
Q ss_pred ce---EEEeccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccce
Q 004121 459 LK---VVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVI 535 (772)
Q Consensus 459 ~~---vvRl~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI 535 (772)
.+ -.|.....+.......... . ...+-. ..-.+ ..-....+++ .+|+
T Consensus 197 ~~~~~~~r~~~~~r~l~~~~pvv~--~--~~~if~----------------------~~~~~---~~pq~~~~~~-Hrv~ 246 (775)
T KOG1804|consen 197 LPEATPLRVYSRKRPLAQVNPVVL--Q--YCFIFD----------------------SHITF---RRPQVEDLFK-HRVV 246 (775)
T ss_pred ccccccccceeecccccccCCcee--e--eeeecc----------------------chhhh---ccchhhhhcc-ccee
Confidence 11 1133322222111100000 0 000000 00000 0000112233 6677
Q ss_pred eecccccC---CcccccCCCcEEEEEcCCCCChhhhhhhhhc--CCCeEEEecCCCCCCccccchHHHHhcchhhHHHHH
Q 004121 536 CCTCVGAG---DPRLANFRFRQVLIDESTQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERL 610 (772)
Q Consensus 536 ~~T~~~a~---~~~L~~~~Fd~VIIDEAsQatEpe~LipL~~--~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL 610 (772)
+.|...+. ...+....|.+.+.|||.|+.+.+.+.|+++ ..++++|+||+.||-|.+.+.......+. .+..++
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 77665543 2334455789999999999999999999765 45799999999999999887665554444 333333
Q ss_pred HHC----CCccEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCC
Q 004121 611 VLL----GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSY 686 (772)
Q Consensus 611 ~~~----g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~ 686 (772)
... +...+-...|||.+-.|..|.+..||........+..+ .+-.....|..|....+.+......+.+
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 322 23445689999999999999999999754332211111 1111124577788777777666667788
Q ss_pred CCHHHHHHHHHHHHHHHHCC-----C-CCCeEEEEccchHHHHHHHHHHHH
Q 004121 687 LNRTEAANVEKIVTTFLRSG-----V-VPSQIGVITPYEGQRAYIVNYMSR 731 (772)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~g-----v-~~~~IgIITPY~aQv~~I~~~L~~ 731 (772)
+|..|...++.-+..+.+.. + .-..+|++++|..|+..++..|..
T Consensus 399 ~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~D 449 (775)
T KOG1804|consen 399 YNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVD 449 (775)
T ss_pred hhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeec
Confidence 88889988888888776431 2 234689999999999999888743
No 51
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.46 E-value=5.4e-06 Score=98.70 Aligned_cols=70 Identities=23% Similarity=0.215 Sum_probs=55.2
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+..+++-|.+++..++...-.++++|.|||||.+..--+.+.+.. ...++||++||...+.++++.+...
T Consensus 26 ~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~ 97 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDF 97 (629)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 356889999999999988889999999999998865433333322 3348999999999999998887653
No 52
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.38 E-value=2e-06 Score=100.03 Aligned_cols=70 Identities=21% Similarity=0.214 Sum_probs=60.4
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
..|.+.|.+||..++.+.-.++++|.|+|||.+++.++..++..+..++||++||...++++.+++.+.+
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhc
Confidence 3688999999999998877899999999999998877766666655599999999999999999997653
No 53
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.38 E-value=3.4e-05 Score=88.76 Aligned_cols=70 Identities=23% Similarity=0.246 Sum_probs=55.2
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+..+++-|.+|+..++...-.+++||.|||||.+..-.+.+.+.. ...++||++||...++++.+.+...
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 456899999999999988889999999999997754433333332 2337999999999999999877653
No 54
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=98.35 E-value=5.1e-06 Score=84.26 Aligned_cols=69 Identities=23% Similarity=0.216 Sum_probs=56.7
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHH-HHHHHHHHHc---CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..+++-|++|+...+...-.+|.+|.|+|||.+. ..++..+... .+.++++++|+..-+.++.+.+...
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 4688999999999998888999999999999884 4555555554 3458999999999999998887654
No 55
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.29 E-value=3e-05 Score=89.21 Aligned_cols=70 Identities=20% Similarity=0.237 Sum_probs=55.1
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHH-HHHcC-------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYH-MAKQG-------QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~-L~~~~-------~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+..+++-|.+||..++...-.++++|.|||||.+..-.+.+ +.... ..++||++||...+.++.+.+...
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 34688999999999998777999999999999886544433 33221 126999999999999999888754
No 56
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.24 E-value=1.1e-05 Score=96.94 Aligned_cols=75 Identities=31% Similarity=0.382 Sum_probs=62.3
Q ss_pred CCCCHHHHHHHHHhhc---CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-CceEEEe
Q 004121 389 PELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GLKVVRL 464 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~-~~~vvRl 464 (772)
..|++.|++|+..++. ....+++||.|+|||.+...++...+..+ .++|+++|+..-++++.+++.+. +.++..+
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g-~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~ 221 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQG-KQALVLVPEIALTPQMLARFRARFGAPVAVL 221 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHHHhCCCEEEE
Confidence 4699999999999876 36799999999999999888887777665 59999999999999999999763 4444433
No 57
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.22 E-value=1e-05 Score=92.35 Aligned_cols=70 Identities=24% Similarity=0.275 Sum_probs=55.1
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHH-HHHHc-----CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVY-HMAKQ-----GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~-~L~~~-----~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+..+++-|.+|+..++...-.++.+|+|||||.+....+. ++... +..++|+++||...+.++.+.+...
T Consensus 21 ~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l 96 (434)
T PRK11192 21 YTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAREL 96 (434)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHH
Confidence 3467899999999999887899999999999988654333 33322 2358999999999999998877653
No 58
>PTZ00424 helicase 45; Provisional
Probab=98.19 E-value=1e-05 Score=91.01 Aligned_cols=70 Identities=24% Similarity=0.265 Sum_probs=56.6
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+..+++-|.+|+..++...-.+|++|.|||||.+....+.+.+.. ...++|+++|+...+.++.+.+...
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 356899999999999987778899999999998866555555432 3458999999999999988777654
No 59
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=98.14 E-value=4.9e-05 Score=93.78 Aligned_cols=67 Identities=24% Similarity=0.288 Sum_probs=55.4
Q ss_pred CCCHHHHHHHHHhhcC------CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.+++.|.+||..++.. .-.+|+||.|||||.+....+...+..+ .+++|++||..-+.+..+.+.+.
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g-~qvlvLvPT~~LA~Q~~~~f~~~ 523 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG-KQVAVLVPTTLLAQQHFETFKER 523 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC-CeEEEEeCcHHHHHHHHHHHHHH
Confidence 5799999999998752 2469999999999998876666555555 59999999999999999888753
No 60
>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=98.12 E-value=1.5e-05 Score=76.72 Aligned_cols=53 Identities=28% Similarity=0.409 Sum_probs=42.5
Q ss_pred CCeEEEEccCCCchhh-HHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 405 RPISLIQGPPGTGKTV-TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~-tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
..+.+|.=.||+|||+ ++.+++.+-++.+ .|+||++||...++++.+.|....
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~-~rvLvL~PTRvva~em~~aL~~~~ 57 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRR-LRVLVLAPTRVVAEEMYEALKGLP 57 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHTTTSS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHcc-CeEEEecccHHHHHHHHHHHhcCC
Confidence 3578899999999998 5788998888875 499999999999999999997653
No 61
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.09 E-value=3.9e-05 Score=91.76 Aligned_cols=67 Identities=30% Similarity=0.401 Sum_probs=55.6
Q ss_pred CCCHHHHHHHHHhhcC---C---eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQR---P---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~---~---l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.|++.|++|+..++.. + ..||+||.|||||.+....+...+..+ .++++++||..-+.++.+.+.+.
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g-~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAG-YQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcC-CcEEEECCHHHHHHHHHHHHHHH
Confidence 6999999999988752 2 369999999999998876666666654 49999999999999999888754
No 62
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.08 E-value=4e-05 Score=92.38 Aligned_cols=67 Identities=30% Similarity=0.380 Sum_probs=56.6
Q ss_pred CCCHHHHHHHHHhhcC------CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.|++.|++|+..++.. .-.|++||.|||||.+....+...+..+ .++|+++||..-+.+..+++.+.
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g-~q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAG-YQAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcC-CeEEEEeccHHHHHHHHHHHHHH
Confidence 6999999999988753 2579999999999999887776666654 59999999999999999988764
No 63
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.06 E-value=8.4e-06 Score=80.39 Aligned_cols=64 Identities=25% Similarity=0.464 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHhhc-------CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+|.+.|.+|+..++. .+..+|.+|+|||||.+++.++..+.. ++++++|+..-++++.+.+...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHHh
Confidence 478999999999884 578999999999999999998888876 9999999999999999998543
No 64
>PRK02362 ski2-like helicase; Provisional
Probab=98.06 E-value=9.6e-06 Score=98.65 Aligned_cols=70 Identities=23% Similarity=0.290 Sum_probs=56.6
Q ss_pred CCCCCCHHHHHHHHH-hhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 387 GLPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 387 ~~~~LN~sQ~~AV~~-aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
++..|++.|.+|+.. .+...-.+|.+|.|+|||.+....+...+.. ++++++++|+..-+++..+++.+.
T Consensus 20 g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~-~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 20 GIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-GGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHHHHh
Confidence 346799999999988 4456789999999999999876554444443 459999999999999999988754
No 65
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.05 E-value=1.7e-05 Score=90.75 Aligned_cols=65 Identities=29% Similarity=0.366 Sum_probs=57.3
Q ss_pred CCCCHHHHHHHHHhhc----CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 389 PELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..|.+-|.+|+.+... ..-.+|.-|+|+|||.++++++..+. .++||++|+...+++..+++...
T Consensus 35 ~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~----~~~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 35 FELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK----RSTLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred CCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc----CCEEEEECcHHHHHHHHHHHHHh
Confidence 4689999999999987 78899999999999999999887763 25999999999999999888654
No 66
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.05 E-value=8.5e-05 Score=93.63 Aligned_cols=66 Identities=24% Similarity=0.292 Sum_probs=55.0
Q ss_pred CCCHHHHHHHHHhhcC------CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.+++.|.+|+..++.. .-.||+||.|+|||.++...+...+..+ .++||++||..-+.++.+.+.+
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g-~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENH-KQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHH
Confidence 6899999999998863 3479999999999998776665555544 5999999999999999888765
No 67
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.01 E-value=2.2e-05 Score=89.36 Aligned_cols=69 Identities=20% Similarity=0.186 Sum_probs=54.2
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHH-HHHHHc--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV-YHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI-~~L~~~--------~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+..+++-|.+|+..++...-.++++|.|||||.+....+ ..+... ...++||++||...+.++.+.+..
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 456789999999999988888999999999998765433 334332 124799999999999998876654
No 68
>PRK01172 ski2-like helicase; Provisional
Probab=97.97 E-value=3.2e-05 Score=93.19 Aligned_cols=66 Identities=20% Similarity=0.263 Sum_probs=55.2
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.|++.|.+|+...+.+...+|.+|.|+|||.+....+...+..+ .++++++|+..-+++..+.+.+
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 58999999999988888899999999999998765555544444 5899999999999998887764
No 69
>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=97.94 E-value=7.9e-05 Score=89.12 Aligned_cols=65 Identities=18% Similarity=0.268 Sum_probs=54.8
Q ss_pred CCCCHHHHHHHHHhhcCC---eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 389 PELNASQVFAVKSVLQRP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~---l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..|=+.|++|+...+.++ -.+|.-|+|+|||.+...++..+ ..++||++|+...+++..+.+.+.
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 57999999999999998777654 358999999999999999998764
No 70
>PRK13766 Hef nuclease; Provisional
Probab=97.90 E-value=7.3e-05 Score=91.55 Aligned_cols=67 Identities=27% Similarity=0.351 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
++-+.|++++..++.+ -.+|..|.|+|||.+...++..++....++||+++||...+++..+.+.+.
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 4457799999888866 679999999999998887777776656679999999999999998888754
No 71
>PRK00254 ski2-like helicase; Provisional
Probab=97.89 E-value=3.3e-05 Score=93.75 Aligned_cols=68 Identities=22% Similarity=0.347 Sum_probs=55.2
Q ss_pred CCCCCHHHHHHHHH-hhcCCeEEEEccCCCchhhHHH-HHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 388 LPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~-aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
...||+-|.+|+.. .+.+.-.+|.+|.|+|||.+.. .++..+... +.++++++|+..-+++..+++..
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 344444443 46999999999999999988864
No 72
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.85 E-value=7.5e-05 Score=93.81 Aligned_cols=68 Identities=25% Similarity=0.274 Sum_probs=57.6
Q ss_pred CCCHHHHHHHHHhhc-----CCeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.|-+.|.+||..+.. .+-.||+.|.|||||.|++.++..|++.+ ..|||++++++.-+++..+.+...
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhc
Confidence 477899999987652 34689999999999999999999888763 459999999999999999988765
No 73
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.83 E-value=0.00013 Score=86.24 Aligned_cols=70 Identities=17% Similarity=0.166 Sum_probs=56.1
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHH-HHHHHHcC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAI-VYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~i-I~~L~~~~--------~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+..+++-|.++|-.++...-.++++|.|||||.+.... +..+++.+ ..++||++||...+.++.+.+.+.
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 35688999999999998888999999999999886543 44444321 248999999999999999887654
No 74
>PTZ00110 helicase; Provisional
Probab=97.81 E-value=0.00022 Score=83.97 Aligned_cols=71 Identities=25% Similarity=0.265 Sum_probs=55.3
Q ss_pred CCCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHH-HHHHHHHHc------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQ------GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 387 ~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~------~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.+..+++-|.+|+-.++...-.++.+|.|||||.+.. -++.++... ....+||++||...+.++.+.+.+.
T Consensus 149 g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 149 GFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 3567899999999999987778899999999998743 333444332 1236999999999999998888764
No 75
>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=97.79 E-value=0.00016 Score=87.99 Aligned_cols=71 Identities=11% Similarity=0.118 Sum_probs=58.6
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHH-HHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~-iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
+..|++-|.+|+..++...-.++..|.|||||....- ++..+.+.+..++|+++||..-+.++.+++.+.+
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 4568999999999999888899999999999987543 3444445455689999999999999999987753
No 76
>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=97.74 E-value=0.00011 Score=92.87 Aligned_cols=67 Identities=33% Similarity=0.350 Sum_probs=55.5
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.+.+-|+.++..++...-+++++|.|||||..+.-++..+... +.++||++||..-+.++.+++.+.
T Consensus 78 ~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~l~~~~~l~~~-g~~vLIL~PTreLa~Qi~~~l~~l 144 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAKK-GKRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEeCHHHHHHHHHHHHHHH
Confidence 4678999999999988888999999999998665444444444 459999999999999999988764
No 77
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.73 E-value=0.00018 Score=83.11 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=55.9
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHH-HHHHHHHHcC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~~--------~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+..+++-|.+|+..++...-.+|.+|.|||||.+.. -++..+++.+ ..++|+++||...+.++.+.+...
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 456899999999999987788899999999997643 3444455432 358999999999999998887654
No 78
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.73 E-value=0.00015 Score=78.57 Aligned_cols=55 Identities=22% Similarity=0.309 Sum_probs=46.7
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcC
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~Ap 442 (772)
....++.|...+.++..+.+.+=.||.|||||...+......++.+ -.|||++=|
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 3457899999999999999999999999999999988877777664 357888877
No 79
>PRK09401 reverse gyrase; Reviewed
Probab=97.73 E-value=0.00016 Score=91.40 Aligned_cols=68 Identities=25% Similarity=0.270 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
.+++-|+.++..++...-+++++|.|||||..+.-++..+.. .+.++||++||..-+.++.+++.+.+
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 KPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVMSLYLAK-KGKKSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHHHHHh
Confidence 578899999999998888899999999999765544444443 34699999999999999999998753
No 80
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=97.73 E-value=0.0001 Score=89.17 Aligned_cols=133 Identities=27% Similarity=0.326 Sum_probs=92.7
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEecccc
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~s 468 (772)
..++++|..|+..++..+.++|.|+||||||+++..++..+.. ..+.+++.+++-.|+-.+.+.-..
T Consensus 318 ~~~~~~q~~a~~vl~~de~smlt~~~~~~~~~~~~~~~~l~~~-~~~~~l~aa~tG~a~~~l~e~tg~------------ 384 (696)
T COG0507 318 LRLSLEQKEALDVLVVDEVSMLTGGPGTGKTTAIKAIARLIKE-GDGDQLLAAPTGKAAKRLNESTGL------------ 384 (696)
T ss_pred CCcCcccHHHHHHHhcCCeeEEeccCCcchHHHHHHHHHHHHh-cCCcEEeechhhHHHHHHHHhhCc------------
Confidence 4789999999999999999999999999999999887765544 445799999999998877765310
Q ss_pred ccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCcccc
Q 004121 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (772)
Q Consensus 469 re~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L~ 548 (772)
.-.++|........ . . ....
T Consensus 385 --------~a~ti~~~~~~~~~---------------~--------------------------~-----------~~~~ 404 (696)
T COG0507 385 --------EARTIHRLLGLWEK---------------T--------------------------G-----------NNEE 404 (696)
T ss_pred --------chhHHHHHHhcccc---------------C--------------------------C-----------CCCC
Confidence 01122221111000 0 0 0112
Q ss_pred cCCCcEEEEEcCCCCChhhhhhhhh---cCCCeEEEecCCCCCCccccch
Q 004121 549 NFRFRQVLIDESTQATEPECLIPLV---LGAKQVVLVGDHCQLGPVIMCK 595 (772)
Q Consensus 549 ~~~Fd~VIIDEAsQatEpe~LipL~---~~~k~lILVGD~~QLpPvv~s~ 595 (772)
....|.+||||++.... ....-+. ....++|++||..||+++..+.
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 23678999999999887 4222221 2357999999999999997665
No 81
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.73 E-value=0.0006 Score=84.53 Aligned_cols=68 Identities=18% Similarity=0.310 Sum_probs=54.1
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHH-HHHHHHHc-------CCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-------GQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~-iI~~L~~~-------~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..|++-|.+|+..++...-.+|.+|.|||||.+..- ++..++.. ...++|+++|+..-+.++..++.+
T Consensus 31 ~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 358999999999998888999999999999988653 34445432 123699999999999998887753
No 82
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=97.71 E-value=0.00023 Score=85.61 Aligned_cols=67 Identities=21% Similarity=0.150 Sum_probs=56.2
Q ss_pred CHHHHHHHHHhhc----------CCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 392 NASQVFAVKSVLQ----------RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 392 N~sQ~~AV~~aL~----------~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
-..|..||..++. .+-.+|+-|.|||||.|++.++..|++. +..+||++++.+.-++++.+.+...+
T Consensus 240 r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 240 RYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 4679999988753 2468999999999999999999888754 45689999999999999999987754
No 83
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.69 E-value=0.00045 Score=79.86 Aligned_cols=74 Identities=20% Similarity=0.307 Sum_probs=58.2
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEec
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~ 465 (772)
+..+.+-|.+||..++...-.+|.+|.|+|||.+.. +-.+. . .+..||++|+..-+.+..+++...++.+.-++
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 LSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQ--LPALC-S-DGITLVISPLISLMEDQVLQLKASGIPATFLN 82 (470)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHH--HHHHH-c-CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEe
Confidence 457889999999999987788999999999996532 22222 2 35899999999999888999988777665554
No 84
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.69 E-value=0.00014 Score=79.23 Aligned_cols=56 Identities=27% Similarity=0.392 Sum_probs=40.2
Q ss_pred CCCCCCHHHHHHHHHhhcC--CeEEEEccCCCchhhHHH-HHHHHHHHcC-CCcEEEEcC
Q 004121 387 GLPELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSA-AIVYHMAKQG-QGQVLVCAP 442 (772)
Q Consensus 387 ~~~~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKT~tla-~iI~~L~~~~-~~rILV~Ap 442 (772)
.+...|..|+-|+...|.. +++-+.|.+|||||-.+. +-+.+.+.++ ..+|+|+=|
T Consensus 225 Gi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp 284 (436)
T COG1875 225 GIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRP 284 (436)
T ss_pred ccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecC
Confidence 3567899999999998864 578889999999998753 3444544443 346666544
No 85
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.68 E-value=0.00059 Score=73.92 Aligned_cols=65 Identities=17% Similarity=0.297 Sum_probs=46.4
Q ss_pred CHHHHHHHHH---hhc-CCeEEEEccCCCchhhHHHHHHH-HHHHcCCC----cEEEEcCcHHHHHHHHHHHHh
Q 004121 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIVY-HMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 392 N~sQ~~AV~~---aL~-~~l~LIqGPPGTGKT~tla~iI~-~L~~~~~~----rILV~ApSN~AVD~L~erL~~ 456 (772)
-+.|.+.+.. ++. .+..+|.+|.|||||..+...+. .+...+.. +|++++.|+.-.+.....+.+
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 343 67899999999999987654443 34443332 899999999988777766654
No 86
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.68 E-value=0.00059 Score=73.92 Aligned_cols=65 Identities=17% Similarity=0.297 Sum_probs=46.4
Q ss_pred CHHHHHHHHH---hhc-CCeEEEEccCCCchhhHHHHHHH-HHHHcCCC----cEEEEcCcHHHHHHHHHHHHh
Q 004121 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIVY-HMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 392 N~sQ~~AV~~---aL~-~~l~LIqGPPGTGKT~tla~iI~-~L~~~~~~----rILV~ApSN~AVD~L~erL~~ 456 (772)
-+.|.+.+.. ++. .+..+|.+|.|||||..+...+. .+...+.. +|++++.|+.-.+.....+.+
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 343 67899999999999987654443 34443332 899999999988777766654
No 87
>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=97.67 E-value=0.00056 Score=81.04 Aligned_cols=59 Identities=15% Similarity=0.346 Sum_probs=42.3
Q ss_pred HHHHHhhc-CCeEEEEccCCCchhhHHHHH-HHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 004121 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAI-VYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKT~tla~i-I~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (772)
++|..++. ....+|.+|.|||||..-..- +..+....+.+|+|+++|..-.+++.+.+.
T Consensus 7 ~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 7 LNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred HHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHH
Confidence 34444554 568899999999999664433 333333345699999999999999997554
No 88
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.64 E-value=0.00036 Score=81.66 Aligned_cols=68 Identities=18% Similarity=0.203 Sum_probs=53.0
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHH-HHHHHHHHc--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~--------~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..+++-|.+|+..++...-.++.+|.|||||.+.. -++.++... .+.++|+++||..-+.++.+.+..
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 46789999999999988889999999999997643 344444321 234799999999999888776654
No 89
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.64 E-value=0.0002 Score=86.70 Aligned_cols=78 Identities=27% Similarity=0.336 Sum_probs=63.0
Q ss_pred CCCCCHHHHHHHHHhhcC-CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH---hcCceEEE
Q 004121 388 LPELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS---ATGLKVVR 463 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~-~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~---~~~~~vvR 463 (772)
..+|.+.|+.||...+-. ...||..|-|+|||-++--.+..-+..++.+++.++|++.-+.+..+++. ..|+++.-
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 347889999999887754 89999999999999988766655555556799999999999999999887 56776654
Q ss_pred ec
Q 004121 464 LC 465 (772)
Q Consensus 464 l~ 465 (772)
..
T Consensus 109 ~T 110 (766)
T COG1204 109 ST 110 (766)
T ss_pred ec
Confidence 43
No 90
>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=97.59 E-value=0.00042 Score=84.07 Aligned_cols=67 Identities=13% Similarity=0.299 Sum_probs=49.2
Q ss_pred CCHHHHHHHHHhh---c-CCeEEEEccCCCchhhHHHHHHHHHHH-cC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 391 LNASQVFAVKSVL---Q-RPISLIQGPPGTGKTVTSAAIVYHMAK-QG-QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 391 LN~sQ~~AV~~aL---~-~~l~LIqGPPGTGKT~tla~iI~~L~~-~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.=+.|++.+..+. . .+..++.+|.|||||..+...+..... .+ ..+|..|+.|+.-..++.+-|.+.
T Consensus 11 ~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~ 83 (705)
T TIGR00604 11 IYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKL 83 (705)
T ss_pred CCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhh
Confidence 3468887766654 3 678999999999999665544433333 32 258999999999998888887763
No 91
>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=97.59 E-value=0.00031 Score=81.80 Aligned_cols=48 Identities=25% Similarity=0.342 Sum_probs=42.3
Q ss_pred EEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
||+||.|+|||.+...++...+..+ +++|+++|+..-+.++.+++.+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g-~~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALG-KSVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHHH
Confidence 5899999999999888887777765 48999999999999999999764
No 92
>PRK14974 cell division protein FtsY; Provisional
Probab=97.55 E-value=0.00078 Score=74.33 Aligned_cols=56 Identities=36% Similarity=0.526 Sum_probs=41.0
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc-Cc--HHHHHHHHHHHHhcCceEE
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A-pS--N~AVD~L~erL~~~~~~vv 462 (772)
.+.++.||||+|||||++.++..+...+ .+|++++ .+ ..|++++.......+++++
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~g-~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~ 199 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKNG-FSVVIAAGDTFRAGAIEQLEEHAERLGVKVI 199 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcC-CeEEEecCCcCcHHHHHHHHHHHHHcCCcee
Confidence 3678999999999999999998876655 4775554 33 5677777766666665554
No 93
>PRK14701 reverse gyrase; Provisional
Probab=97.54 E-value=0.00061 Score=88.40 Aligned_cols=67 Identities=27% Similarity=0.302 Sum_probs=54.6
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.+++-|+.++..++...-+++++|.|||||....-++..+... +.++||++||..-+.++.+++...
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~-g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALK-GKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhc-CCeEEEEECHHHHHHHHHHHHHHH
Confidence 4688999999999998888999999999999544333333333 358999999999999999999764
No 94
>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=97.54 E-value=2.5e-05 Score=78.14 Aligned_cols=169 Identities=18% Similarity=0.221 Sum_probs=77.5
Q ss_pred EEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEeccccccccCCchhhhhHHHHHhhc
Q 004121 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHL 488 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~~sre~i~~~~~~~~l~~~v~~~ 488 (772)
+|.|+.|.|||+++...+.+++..+..+|+||||+-.++..+.+.+... ++-..+ +.+.. ...
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~-l~~~~~--~~~~~--------------~~~ 63 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKG-LKALGY--KEEKK--------------KRI 63 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC----------------------------------
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhh-cccccc--ccccc--------------ccc
Confidence 5899999999999998888887776679999999999999988765431 110000 00000 000
Q ss_pred cchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCcccccCCCcEEEEEcCCCCChhhh
Q 004121 489 DTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPEC 568 (772)
Q Consensus 489 ~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe~ 568 (772)
.....+ ......|-+....... ......|++|||||+.+..|.
T Consensus 64 -----~~~~~~----------------------------~~~~~~i~f~~Pd~l~---~~~~~~DlliVDEAAaIp~p~- 106 (177)
T PF05127_consen 64 -----GQIIKL----------------------------RFNKQRIEFVAPDELL---AEKPQADLLIVDEAAAIPLPL- 106 (177)
T ss_dssp ------------------------------------------CCC--B--HHHHC---CT----SCEEECTGGGS-HHH-
T ss_pred -----cccccc----------------------------ccccceEEEECCHHHH---hCcCCCCEEEEechhcCCHHH-
Confidence 000000 0000011100000000 011136999999999888776
Q ss_pred hhhhhcCCCeEEEecCCCCCCccccchHHHHhcchhhHHHHHHHC---CCccEecccccC--CchHHhHHHHhhh
Q 004121 569 LIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL---GLKPIRLQVQYR--MHPSLSEFPSNSF 638 (772)
Q Consensus 569 LipL~~~~k~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL~~~---g~~~~~L~~QYR--mhp~I~~f~S~~F 638 (772)
|.-+.....++|+. -++.+-+....||..-+...|... +...+.|++=.| .+-.|-.|.++.|
T Consensus 107 L~~ll~~~~~vv~s-------tTi~GYEGtGRgF~lkf~~~L~~~~~~~~~~~~L~~PIR~~~~DPlE~wl~~~l 174 (177)
T PF05127_consen 107 LKQLLRRFPRVVFS-------TTIHGYEGTGRGFSLKFLKQLKKHRPRNWRELELSEPIRYAPGDPLEAWLNDLL 174 (177)
T ss_dssp HHHHHCCSSEEEEE-------EEBSSTTBB-HHHHHHHHCT----ST-TEEEEE--S-SSS-TT-HHHHHHHHHC
T ss_pred HHHHHhhCCEEEEE-------eeccccccCCceeeeehhhhccccCCCccEEEEcCCCccCCCcCcHHHHHHHhh
Confidence 55555567888883 345554545556666666666543 344566776544 5566777766654
No 95
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.53 E-value=0.00069 Score=81.12 Aligned_cols=76 Identities=16% Similarity=0.204 Sum_probs=53.6
Q ss_pred CCCCCCCCCCCC-HHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHH---------HHH----c-CCCcEEEEcCcHH
Q 004121 381 RRFGAPGLPELN-ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYH---------MAK----Q-GQGQVLVCAPSNV 445 (772)
Q Consensus 381 ~~~~~~~~~~LN-~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~---------L~~----~-~~~rILV~ApSN~ 445 (772)
+.|..-.+..|- .-|.+++..++.+...+++|+.|||||+.+-..++. .+. . ...+|+|++|+..
T Consensus 154 ~~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~Prre 233 (675)
T PHA02653 154 EPFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVA 233 (675)
T ss_pred CccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHH
Confidence 334333334443 467888888888899999999999999876443321 111 1 2358999999999
Q ss_pred HHHHHHHHHHh
Q 004121 446 AVDQLAEKISA 456 (772)
Q Consensus 446 AVD~L~erL~~ 456 (772)
+|.++.+++.+
T Consensus 234 La~qi~~~i~~ 244 (675)
T PHA02653 234 LVRLHSITLLK 244 (675)
T ss_pred HHHHHHHHHHH
Confidence 99999988865
No 96
>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=97.52 E-value=0.001 Score=79.16 Aligned_cols=74 Identities=20% Similarity=0.284 Sum_probs=58.9
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEec
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~ 465 (772)
+..+++-|.+||..++...-+++..|.|+|||.+.. +-.++. .+.++|++|+..-+.+..+++...++.+..+.
T Consensus 11 ~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~--lpal~~--~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~ 84 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQ--VPALLL--KGLTVVISPLISLMKDQVDQLRAAGVAAAYLN 84 (591)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHH--HHHHHc--CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEe
Confidence 356889999999999987788999999999998753 222332 34789999999999888899988877665554
No 97
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.49 E-value=0.00035 Score=84.11 Aligned_cols=67 Identities=24% Similarity=0.309 Sum_probs=59.0
Q ss_pred CCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
+-..|+-=.+..+.+.-+-|.+|+|+||||....+...+...+ +|++++-||..-|.+..+||.+..
T Consensus 83 ~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kg-kr~yii~PT~~Lv~Q~~~kl~~~~ 149 (1187)
T COG1110 83 PWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKG-KRVYIIVPTTTLVRQVYERLKKFA 149 (1187)
T ss_pred chHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcC-CeEEEEecCHHHHHHHHHHHHHHH
Confidence 3456888888888888889999999999999998888888877 599999999999999999998763
No 98
>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=97.48 E-value=0.00026 Score=86.60 Aligned_cols=61 Identities=20% Similarity=0.456 Sum_probs=47.9
Q ss_pred HHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 395 QVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 395 Q~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.+..|..++. ++.++|+|++|||||+.+...+..... ...+|+|+.|+..|+.++++|+.+
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 4455555554 689999999999999988766554433 345999999999999999999964
No 99
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.46 E-value=0.00046 Score=82.55 Aligned_cols=68 Identities=32% Similarity=0.395 Sum_probs=60.9
Q ss_pred CCCCCHHHHHHHHHhhcC----CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 388 LPELNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.+.||..|..|+..+... ..+|++|.+|+|||-+-.++|...++.|+ .+||+.|--.-..++.+|+..
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 468999999999998754 57899999999999999999999999874 999999999888999998875
No 100
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.42 E-value=0.00011 Score=86.91 Aligned_cols=66 Identities=30% Similarity=0.389 Sum_probs=52.7
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCC---CcEEEEcCcHHHHHHHHHHHHh
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ---GQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~---~rILV~ApSN~AVD~L~erL~~ 456 (772)
..||.+|..+...- .+..-+|.| ||+|||.++...+.+++..+. .-|++.+.+|.|+|.+.+++..
T Consensus 12 ~~l~~~q~~~~~~~-~~~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~ 80 (853)
T KOG2108|consen 12 SLLNKSQRFSALSP-LRRKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIA 80 (853)
T ss_pred hhhhhhhhhhhcCC-Ccccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHH
Confidence 35778888766542 255667888 999999999999999876632 3599999999999999999975
No 101
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.42 E-value=0.00044 Score=81.97 Aligned_cols=68 Identities=31% Similarity=0.358 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHhhc-----CCeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.+-.-|..||.+... ++-.||.=.+|||||+|+.+++..|++.+ .+|||.+|-.|.-+++........
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 456789999988652 34478888899999999999999999884 468999999999999999877654
No 102
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.39 E-value=0.0012 Score=84.77 Aligned_cols=64 Identities=19% Similarity=0.214 Sum_probs=50.6
Q ss_pred CCCCHHHHHHHHHhhcC--CeEEEEccCC-CchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 004121 389 PELNASQVFAVKSVLQR--PISLIQGPPG-TGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~--~l~LIqGPPG-TGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (772)
..++..|..|+..++.. ++.+|.|.-| ||||+++.+++..+-. .+.+|.++||++.|+..|.+.
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~-~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMARE-QGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHh-CCcEEEEEeCCHHHHHHHHhc
Confidence 34788999999999974 4666666666 9999999976655444 456999999999999888754
No 103
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.38 E-value=0.0008 Score=79.73 Aligned_cols=71 Identities=28% Similarity=0.275 Sum_probs=60.6
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
.-.|-..|.+.+..|| ...++|..|-|.|||++++.+++..++- +.++|+++||+.--|.+-...+...+.
T Consensus 60 ~~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~ 131 (746)
T KOG0354|consen 60 NLELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLI 131 (746)
T ss_pred cccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccC
Confidence 3467789999999999 8889999999999999999888876654 668999999999999888877766543
No 104
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.38 E-value=0.0017 Score=77.55 Aligned_cols=73 Identities=21% Similarity=0.303 Sum_probs=57.2
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEe
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl 464 (772)
+..+.+.|.+|+..++...-.+|.+|.|+|||.+. .+-.+.. .+.+||++|+..-+.+..+++...++...-+
T Consensus 23 ~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y--~lpal~~--~g~tlVisPl~sL~~dqv~~l~~~gi~~~~~ 95 (607)
T PRK11057 23 YQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCY--QIPALVL--DGLTLVVSPLISLMKDQVDQLLANGVAAACL 95 (607)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHH--HHHHHHc--CCCEEEEecHHHHHHHHHHHHHHcCCcEEEE
Confidence 34678999999999998888899999999999653 2333333 3489999999999999999988777655433
No 105
>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=97.37 E-value=0.00039 Score=74.32 Aligned_cols=140 Identities=24% Similarity=0.290 Sum_probs=78.9
Q ss_pred HHHHHHHhhc-------------CCeEEEEccCCCchhhHHHHHHHHHHHcCCC----cEEEEcCcHHHHHHHHHHHHhc
Q 004121 395 QVFAVKSVLQ-------------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG----QVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 395 Q~~AV~~aL~-------------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~----rILV~ApSN~AVD~L~erL~~~ 457 (772)
|++||...+. .+-.++.-.+|+|||.++..++..+...... ++||++|+ ..+.+-...+.+.
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 7777776542 2346777789999999999998877765432 49999999 6667777666554
Q ss_pred C----ceEEEeccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhccc
Q 004121 458 G----LKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSAD 533 (772)
Q Consensus 458 ~----~~vvRl~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~ 533 (772)
. .+++.+...... ...........+
T Consensus 81 ~~~~~~~v~~~~~~~~~---------------------------------------------------~~~~~~~~~~~~ 109 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDSER---------------------------------------------------RRLSKNQLPKYD 109 (299)
T ss_dssp SGT-TS-EEEESSSCHH---------------------------------------------------HHTTSSSCCCSS
T ss_pred ccccccccccccccccc---------------------------------------------------ccccccccccce
Confidence 2 344443322100 000001133456
Q ss_pred ceeecccccC-------CcccccCCCcEEEEEcCCCCChhh-----hhhhhhcCCCeEEEecCCCC
Q 004121 534 VICCTCVGAG-------DPRLANFRFRQVLIDESTQATEPE-----CLIPLVLGAKQVVLVGDHCQ 587 (772)
Q Consensus 534 VI~~T~~~a~-------~~~L~~~~Fd~VIIDEAsQatEpe-----~LipL~~~~k~lILVGD~~Q 587 (772)
++++|..... ...+...+|+.||||||..+.... .+..+ ....+++|-|-|-+
T Consensus 110 vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l-~~~~~~lLSgTP~~ 174 (299)
T PF00176_consen 110 VVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKALRKL-RARYRWLLSGTPIQ 174 (299)
T ss_dssp EEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHHHCC-CECEEEEE-SS-SS
T ss_pred eeeccccccccccccccccccccccceeEEEeccccccccccccccccccc-ccceEEeecccccc
Confidence 6666644333 123455679999999998874333 12222 24567888999887
No 106
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.36 E-value=0.00069 Score=82.95 Aligned_cols=62 Identities=18% Similarity=0.385 Sum_probs=46.5
Q ss_pred HHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+.+..|..++. ++..+|+||+|||||+.+...+..-.. ...+|+|+.|+..|+.++++++.+
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~-~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG-INGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC-cCCeEEEECChHHHHHHHHHHHHH
Confidence 34555666664 678999999999999987644432211 235899999999999999999864
No 107
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.32 E-value=0.00092 Score=72.10 Aligned_cols=76 Identities=20% Similarity=0.216 Sum_probs=62.3
Q ss_pred CCCHHHHHHHHHhhc----CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc--CceEEE
Q 004121 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT--GLKVVR 463 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~--~~~vvR 463 (772)
.|++-|+.|-..+++ ..-.|||+--|+|||..+-..|.+.+++|. +|.+.+|--.-+-+|..||.+. +.++.-
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~-~vciASPRvDVclEl~~Rlk~aF~~~~I~~ 175 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGG-RVCIASPRVDVCLELYPRLKQAFSNCDIDL 175 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCC-eEEEecCcccchHHHHHHHHHhhccCCeee
Confidence 689999988777664 567899999999999999999988888875 9999999988999999999764 234444
Q ss_pred ecc
Q 004121 464 LCA 466 (772)
Q Consensus 464 l~~ 466 (772)
+.+
T Consensus 176 Lyg 178 (441)
T COG4098 176 LYG 178 (441)
T ss_pred Eec
Confidence 443
No 108
>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=97.30 E-value=0.0011 Score=73.45 Aligned_cols=50 Identities=22% Similarity=0.413 Sum_probs=42.0
Q ss_pred EEEEccCCCchhhHHHHHHHHHHH-cCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~-~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.+|+||.|+|||.+....+...+. ....++++++|+...++++.+++...
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHH
Confidence 689999999999997766655543 34569999999999999999999875
No 109
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.26 E-value=0.013 Score=68.62 Aligned_cols=70 Identities=26% Similarity=0.277 Sum_probs=53.8
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHH-HHHHHHHHH--cCCCc-EEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAK--QGQGQ-VLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~--~~~~r-ILV~ApSN~AVD~L~erL~~~ 457 (772)
+...++-|..||-.+|...-.+++++.|||||..- .-++..+.. ..... .||++||...+.++.+-+...
T Consensus 49 f~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~ 122 (513)
T COG0513 49 FEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKL 122 (513)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHH
Confidence 34568999999999999888899999999997553 334444442 22222 899999999999999888654
No 110
>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=97.24 E-value=0.00094 Score=72.55 Aligned_cols=97 Identities=20% Similarity=0.310 Sum_probs=63.5
Q ss_pred EecccccCCchHHhHHHHhhh-----cCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHHHH
Q 004121 618 IRLQVQYRMHPSLSEFPSNSF-----YEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEA 692 (772)
Q Consensus 618 ~~L~~QYRmhp~I~~f~S~~F-----Y~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~EA 692 (772)
+.|++|||+++.|.++.|..| ....-........ .-...+.++.++...+ ...|+
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~------------~~~e~ 60 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENILPNDNKDRYEKEIQS--------AENSEDGKISIIEFDN------------EEEEA 60 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC---TTSSSSCCCEEEE--------SSTCEESSEEEEEESS------------HHHHH
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhhhhhhccchhhhhhcc--------ccccccCCceeeccCC------------HHHHH
Confidence 579999999999999999998 2211110000000 0000112233333222 23589
Q ss_pred HHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCC
Q 004121 693 ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (772)
Q Consensus 693 ~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~ 734 (772)
+.|++.|.++...|+++++|+||++.+.|...|.+.|...+.
T Consensus 61 ~~i~~~I~~l~~~~~~~~diAVL~R~~~~~~~i~~~L~~~gI 102 (351)
T PF13361_consen 61 EYIAEEIKELIRNGIPPSDIAVLVRTNSQIKEIEDALKEAGI 102 (351)
T ss_dssp HHHHHHHHHHHHTTS-GGGEEEEESSGGHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHhhcCCCcccEEEEEECchhHHHHHHHHhhhcc
Confidence 999999999988899999999999999999999999988663
No 111
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=97.21 E-value=0.0015 Score=73.77 Aligned_cols=123 Identities=23% Similarity=0.236 Sum_probs=85.5
Q ss_pred CHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc-Cce---EEEeccc
Q 004121 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GLK---VVRLCAK 467 (772)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~-~~~---vvRl~~~ 467 (772)
-..|...+..++.. .+||.=|-|=|||++++.++...+...+++||++|||.--|.+=++.+.+. +++ ++-+.
T Consensus 17 R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~lt-- 93 (542)
T COG1111 17 RLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALT-- 93 (542)
T ss_pred HHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeeec--
Confidence 35688888888755 889999999999999988877555443449999999999999988888653 211 11111
Q ss_pred cccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCcc-
Q 004121 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR- 546 (772)
Q Consensus 468 sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~- 546 (772)
|+.+.. ...+.+..++|+++|....-+..
T Consensus 94 ---------------------------------------Gev~p~-----------~R~~~w~~~kVfvaTPQvveNDl~ 123 (542)
T COG1111 94 ---------------------------------------GEVRPE-----------EREELWAKKKVFVATPQVVENDLK 123 (542)
T ss_pred ---------------------------------------CCCChH-----------HHHHHHhhCCEEEeccHHHHhHHh
Confidence 111111 11234678899999987655443
Q ss_pred ---cccCCCcEEEEEcCCCCChhh
Q 004121 547 ---LANFRFRQVLIDESTQATEPE 567 (772)
Q Consensus 547 ---L~~~~Fd~VIIDEAsQatEpe 567 (772)
+.-..+.++|+|||..++---
T Consensus 124 ~Grid~~dv~~lifDEAHRAvGny 147 (542)
T COG1111 124 AGRIDLDDVSLLIFDEAHRAVGNY 147 (542)
T ss_pred cCccChHHceEEEechhhhccCcc
Confidence 333479999999999987644
No 112
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.18 E-value=0.0015 Score=78.82 Aligned_cols=69 Identities=23% Similarity=0.319 Sum_probs=58.7
Q ss_pred CCCCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~---------~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+..||.-|-.+...|.. +...||.+|-|+|||.++.-.|.++++. +.-+|..+||+.+-+-++++...+
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 46799999999998885 7899999999999999987777777764 456899999999999998887754
No 113
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.12 E-value=0.0015 Score=60.96 Aligned_cols=55 Identities=27% Similarity=0.399 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhc---CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 004121 393 ASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (772)
Q Consensus 393 ~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD 448 (772)
+.+..++...+. ....+|.||||||||+++..++..+... ..+++.+..+..+..
T Consensus 4 ~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~-~~~v~~~~~~~~~~~ 61 (151)
T cd00009 4 EEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP-GAPFLYLNASDLLEG 61 (151)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC-CCCeEEEehhhhhhh
Confidence 455666666653 4678999999999999888888777643 347777766554443
No 114
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.11 E-value=0.037 Score=65.18 Aligned_cols=249 Identities=20% Similarity=0.245 Sum_probs=144.8
Q ss_pred CCCHHHHHHHHHhhc---CC---eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc----Cc
Q 004121 390 ELNASQVFAVKSVLQ---RP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT----GL 459 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~---l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~----~~ 459 (772)
+|+..|+++++.+.. ++ .-||||-=|||||.+++-..+..+..|. ++.+.|||..-+.+-.+.+.+. ++
T Consensus 262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~-Q~ALMAPTEILA~QH~~~~~~~l~~~~i 340 (677)
T COG1200 262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGY-QAALMAPTEILAEQHYESLRKWLEPLGI 340 (677)
T ss_pred CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCC-eeEEeccHHHHHHHHHHHHHHHhhhcCC
Confidence 699999999999874 22 3489999999999999887777787764 9999999999998888777653 44
Q ss_pred eEEEeccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecc
Q 004121 460 KVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTC 539 (772)
Q Consensus 460 ~vvRl~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~ 539 (772)
.+.-+...-+ . . .. +...+.-.-.+.++|+.|-
T Consensus 341 ~V~lLtG~~k--------------------g--k----------------------~r---~~~l~~l~~G~~~ivVGTH 373 (677)
T COG1200 341 RVALLTGSLK--------------------G--K----------------------AR---KEILEQLASGEIDIVVGTH 373 (677)
T ss_pred eEEEeecccc--------------------h--h----------------------HH---HHHHHHHhCCCCCEEEEcc
Confidence 4443322110 0 0 00 0011111223578888886
Q ss_pred cccCCcccccCCCcEEEEEcCCCCChhhhhhhhhcCCCeEEEecCCCCCCccccchHHH--------HhcchhhHHHHHH
Q 004121 540 VGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAA--------RAGLAQSLFERLV 611 (772)
Q Consensus 540 ~~a~~~~L~~~~Fd~VIIDEAsQatEpe~LipL~~~~k~lILVGD~~QLpPvv~s~~a~--------~~gl~~SLFeRL~ 611 (772)
.-..+.. .-.+.-+|||||=...--.+-.....++.. -|.|| +|+...- ...++.|..+-+
T Consensus 374 ALiQd~V-~F~~LgLVIiDEQHRFGV~QR~~L~~KG~~------~Ph~L---vMTATPIPRTLAlt~fgDldvS~IdEl- 442 (677)
T COG1200 374 ALIQDKV-EFHNLGLVIIDEQHRFGVHQRLALREKGEQ------NPHVL---VMTATPIPRTLALTAFGDLDVSIIDEL- 442 (677)
T ss_pred hhhhcce-eecceeEEEEeccccccHHHHHHHHHhCCC------CCcEE---EEeCCCchHHHHHHHhccccchhhccC-
Confidence 5433321 122577999999666665664444444432 23332 1111111 122333433222
Q ss_pred HCCCc-cEecccccCCchHHhHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCceeecccCCCCCCHH
Q 004121 612 LLGLK-PIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRT 690 (772)
Q Consensus 612 ~~g~~-~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~p~~f~~~~g~ee~~~~g~S~~N~~ 690 (772)
..|-. ....-+.....+.+.++..+..-+|+- .+|+.. =-|+.+ .-
T Consensus 443 P~GRkpI~T~~i~~~~~~~v~e~i~~ei~~GrQ------------------------aY~VcP-LIeESE--------~l 489 (677)
T COG1200 443 PPGRKPITTVVIPHERRPEVYERIREEIAKGRQ------------------------AYVVCP-LIEESE--------KL 489 (677)
T ss_pred CCCCCceEEEEeccccHHHHHHHHHHHHHcCCE------------------------EEEEec-cccccc--------cc
Confidence 12322 345666678889999998776655431 222222 112211 12
Q ss_pred HHHHHHHHHHHHHHCCCCCCeEEEEccc--hHHHHHHHHHHHH
Q 004121 691 EAANVEKIVTTFLRSGVVPSQIGVITPY--EGQRAYIVNYMSR 731 (772)
Q Consensus 691 EA~~V~~iV~~Ll~~gv~~~~IgIITPY--~aQv~~I~~~L~~ 731 (772)
|+..+......|. .-++...||++.-- .++++.+-+.++.
T Consensus 490 ~l~~a~~~~~~L~-~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~ 531 (677)
T COG1200 490 ELQAAEELYEELK-SFLPELKVGLVHGRMKPAEKDAVMEAFKE 531 (677)
T ss_pred hhhhHHHHHHHHH-HHcccceeEEEecCCChHHHHHHHHHHHc
Confidence 4566666666666 32445569999874 5688888777654
No 115
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=97.09 E-value=0.0012 Score=83.50 Aligned_cols=64 Identities=19% Similarity=0.389 Sum_probs=47.9
Q ss_pred HHHHHHHHhh-cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 394 SQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 394 sQ~~AV~~aL-~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+.++.|..++ .++.++|.|+||+||||-+-.+++..-....++|+++-|-..|+-.+++|+.+.
T Consensus 70 ~~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~e 134 (1283)
T TIGR01967 70 AKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEE 134 (1283)
T ss_pred HHHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHH
Confidence 3446666666 478999999999999997765554322122347999999999999999999763
No 116
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=97.08 E-value=0.00073 Score=86.23 Aligned_cols=51 Identities=16% Similarity=0.287 Sum_probs=44.4
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHh
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~--~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.-++|.+++|||||++++..+..++..+ ..+||++|+||.|+.+|.+||.+
T Consensus 11 ~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 11 TSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHH
Confidence 4567999999999999999988887653 46899999999999999999864
No 117
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=97.08 E-value=0.0063 Score=73.72 Aligned_cols=60 Identities=25% Similarity=0.293 Sum_probs=43.9
Q ss_pred HHHHH---HHHHhhcC------CeEEEEccCCCchhhHH-HHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 004121 393 ASQVF---AVKSVLQR------PISLIQGPPGTGKTVTS-AAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (772)
Q Consensus 393 ~sQ~~---AV~~aL~~------~l~LIqGPPGTGKT~tl-a~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (772)
+.|.+ +|..++.. ...+|.+|.|||||.-= +-.++. ....+++|+|.|.|..--++|..+
T Consensus 28 ~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~-A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 28 AGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPI-ARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred HHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHH-HHHcCCeEEEEcCCHHHHHHHHhh
Confidence 67776 77777765 67899999999999641 222222 223346999999999999999865
No 118
>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=97.05 E-value=0.00098 Score=66.53 Aligned_cols=52 Identities=27% Similarity=0.406 Sum_probs=40.8
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
.++|.||||||||+.+..+++..++.+ .++++.+.. ...+++.+++...|.+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g-~~v~~~s~e-~~~~~~~~~~~~~g~~ 52 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARG-EPGLYVTLE-ESPEELIENAESLGWD 52 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCC-CcEEEEECC-CCHHHHHHHHHHcCCC
Confidence 368999999999999999999888776 488888764 4567777777665543
No 119
>PRK12377 putative replication protein; Provisional
Probab=97.03 E-value=0.002 Score=68.20 Aligned_cols=49 Identities=31% Similarity=0.439 Sum_probs=36.1
Q ss_pred CHHHHHHHHHhhc--------CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 392 NASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 392 N~sQ~~AV~~aL~--------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
++.|+.|+..+.. ....+|+||||||||+.+.+++..+.+.+. +|++++
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 4677766655431 246799999999999999999999887654 665543
No 120
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=97.02 E-value=0.0046 Score=70.63 Aligned_cols=53 Identities=30% Similarity=0.406 Sum_probs=35.4
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEE-EcCcH--HHHHHHHHHHHhcCce
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV-CAPSN--VAVDQLAEKISATGLK 460 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV-~ApSN--~AVD~L~erL~~~~~~ 460 (772)
+.++.|+||+|||||++.++..+.+.+. +|++ .+.+. .|.+++..-....++.
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 5788999999999999999988877654 6554 44443 3445554433333333
No 121
>PRK08181 transposase; Validated
Probab=97.01 E-value=0.0026 Score=68.17 Aligned_cols=62 Identities=31% Similarity=0.463 Sum_probs=46.9
Q ss_pred CCCCCHHHHHHHHHhh----cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 004121 388 LPELNASQVFAVKSVL----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL----~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (772)
.+.++..|..++..+- .....+|.||||||||+.+..+..++++.+ .+|+.+. +.++.+.|.
T Consensus 85 ~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g-~~v~f~~-----~~~L~~~l~ 150 (269)
T PRK08181 85 VPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENG-WRVLFTR-----TTDLVQKLQ 150 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcC-Cceeeee-----HHHHHHHHH
Confidence 4678999999987652 245689999999999999999998888775 4777665 244555553
No 122
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.99 E-value=0.0052 Score=75.66 Aligned_cols=61 Identities=28% Similarity=0.358 Sum_probs=45.0
Q ss_pred CCCHHHHH---HHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHH
Q 004121 390 ELNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAE 452 (772)
Q Consensus 390 ~LN~sQ~~---AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~e 452 (772)
+.-+.|.+ +|..++. ....+|++|+|||||..-.-- .+......+|+|.++|..-.+++..
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp--~l~~~~~~~vvI~t~T~~Lq~Ql~~ 309 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLP--LLAQSDQRQIIVSVPTKILQDQIMA 309 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHH--HHHhcCCCcEEEEeCcHHHHHHHHH
Confidence 34578887 7777776 457889999999999764322 2222234699999999999999963
No 123
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.99 E-value=0.0025 Score=67.36 Aligned_cols=59 Identities=27% Similarity=0.380 Sum_probs=43.5
Q ss_pred CCHHHHHHHHHhhc------C--CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 004121 391 LNASQVFAVKSVLQ------R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 391 LN~sQ~~AV~~aL~------~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (772)
.++.|+.|+..+.. . ..+++.|+||||||+++.+++.++.+.+. +|++++ +.++..++.
T Consensus 77 ~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~-~v~~it-----~~~l~~~l~ 143 (244)
T PRK07952 77 ECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGK-SVLIIT-----VADIMSAMK 143 (244)
T ss_pred CCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEEE-----HHHHHHHHH
Confidence 35678777766652 1 46899999999999999999999988754 787773 344555553
No 124
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.98 E-value=0.0035 Score=67.73 Aligned_cols=36 Identities=28% Similarity=0.472 Sum_probs=29.2
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (772)
+++|.||.|+|||||++.++..+... +..+|.+++-
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 67889999999999999999888765 4457765553
No 125
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=96.98 E-value=0.0046 Score=76.67 Aligned_cols=62 Identities=31% Similarity=0.318 Sum_probs=44.7
Q ss_pred CCHHHHH---HHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 004121 391 LNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (772)
Q Consensus 391 LN~sQ~~---AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (772)
..+.|.+ +|..++. ....+|.+|+|||||..-..-+...+. .+.+|+|.++|..-.+++..+
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 567889999999999764333333333 446999999999999998764
No 126
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.96 E-value=0.0036 Score=69.97 Aligned_cols=48 Identities=25% Similarity=0.364 Sum_probs=34.2
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcH---HHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSN---VAVDQLAE 452 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN---~AVD~L~e 452 (772)
..++++.||+|+|||||++.++..++.. +..+|.+++.-. .|++++..
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~ 188 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRI 188 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHH
Confidence 3588999999999999999999887644 445776655322 25555543
No 127
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.93 E-value=0.004 Score=70.08 Aligned_cols=56 Identities=21% Similarity=0.241 Sum_probs=37.5
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHc---CCCcEE-EEcCc--HHHHHHHHHHHHhcCceE
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVL-VCAPS--NVAVDQLAEKISATGLKV 461 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rIL-V~ApS--N~AVD~L~erL~~~~~~v 461 (772)
.+.++.||+|+|||||++.++.++... .+.+|+ +.+-+ ..|++++.......++++
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 478899999999999999999877542 234665 55555 456666544443344443
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=96.92 E-value=0.0066 Score=67.73 Aligned_cols=59 Identities=20% Similarity=0.343 Sum_probs=46.3
Q ss_pred HHHHHHHhhcC--CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 395 QVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 395 Q~~AV~~aL~~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
|.+|+..+... +..+|.+|+|+|||......+. .. ..+.++++|++..+++..+++.+.
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l---~~-~~~~~~~~P~~aL~~~~~~~~~~~ 62 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLL---HG-ENDTIALYPTNALIEDQTEAIKEF 62 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHH---Hc-CCCEEEEeChHHHHHHHHHHHHHH
Confidence 88889888764 4689999999999987543222 22 348899999999999999988764
No 129
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=96.91 E-value=0.0036 Score=76.14 Aligned_cols=68 Identities=19% Similarity=0.166 Sum_probs=49.1
Q ss_pred CCHHHHHHHHHhhcCC-eEEEEccCCCchhhHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 391 LNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~~-l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
.++-|.+++..++... ..+++.|.|||||.+++.-+..+... ...++++++|+..-|+++.+.+.+.+
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~ 86 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIG 86 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHH
Confidence 4688999999998654 68889999999997654212212111 22356668899999999999887653
No 130
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.90 E-value=0.0062 Score=76.13 Aligned_cols=62 Identities=26% Similarity=0.253 Sum_probs=45.1
Q ss_pred CHHHHH---HHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 004121 392 NASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (772)
Q Consensus 392 N~sQ~~---AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (772)
-+.|.+ +|..++. ....+|.+|+|||||..=.--+.......+++|+|.|+|..-.++|..+
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 467877 6666675 4677899999999997532222222333456999999999999999875
No 131
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.87 E-value=0.0065 Score=72.23 Aligned_cols=63 Identities=22% Similarity=0.160 Sum_probs=50.4
Q ss_pred CCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..+-|..++-.++... +.+...|+|||.+.+-.++.....+ ..++|+|||..-+.+..+.+..
T Consensus 104 p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G-~~v~VvTptreLA~qdae~~~~ 166 (656)
T PRK12898 104 HFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAG-LPVHVITVNDYLAERDAELMRP 166 (656)
T ss_pred CChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcC-CeEEEEcCcHHHHHHHHHHHHH
Confidence 4578999998888666 8899999999998876665544444 5999999999998888877754
No 132
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=96.86 E-value=0.0057 Score=73.71 Aligned_cols=64 Identities=17% Similarity=0.287 Sum_probs=44.4
Q ss_pred CCHHHHHHHHHhh-cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 391 LNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 391 LN~sQ~~AV~~aL-~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+-+.|.+++.... ..+ .+++-+.|+|||.|.+--++.-...+ ..|+|++|+..-+.+.++.+..
T Consensus 69 lrpydVQlig~l~l~~G-~Iaem~TGeGKTLta~Lpa~l~aL~g-~~V~VVTpn~yLA~Rdae~m~~ 133 (762)
T TIGR03714 69 MFPYDVQVLGAIVLHQG-NIAEMKTGEGKTLTATMPLYLNALTG-KGAMLVTTNDYLAKRDAEEMGP 133 (762)
T ss_pred CCccHHHHHHHHHhcCC-ceeEecCCcchHHHHHHHHHHHhhcC-CceEEeCCCHHHHHHHHHHHHH
Confidence 4455555554433 344 68999999999998765543333333 4899999999988888877643
No 133
>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=96.86 E-value=0.0011 Score=79.09 Aligned_cols=55 Identities=29% Similarity=0.409 Sum_probs=49.3
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
+++.+|.+|=|||||+.+..-+...++.+..+||+++.-+.-+.++++|+...++
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 6889999999999999988888777767778999999999999999999987655
No 134
>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=96.86 E-value=0.0028 Score=64.80 Aligned_cols=57 Identities=30% Similarity=0.411 Sum_probs=42.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcE-EEEcCcH--HHHHHHHHHHHhcCceEEEe
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKVVRL 464 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rI-LV~ApSN--~AVD~L~erL~~~~~~vvRl 464 (772)
+.++.||+|+|||||++.+++++...+ .+| |+++.+. .|+++|..--...++++...
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~-~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~ 62 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKG-KKVALISADTYRIGAVEQLKTYAEILGVPFYVA 62 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEESTSSTHHHHHHHHHHHHHTEEEEES
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhcc-ccceeecCCCCCccHHHHHHHHHHHhccccchh
Confidence 568899999999999999999998874 465 5666555 58888876655566666543
No 135
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.83 E-value=0.0067 Score=73.91 Aligned_cols=65 Identities=17% Similarity=0.178 Sum_probs=49.3
Q ss_pred CCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+.+.|.+++-.++...=.+.+.+.|||||.+.+--++.-+..+ ..++|++||..-+.+.++-+..
T Consensus 93 ~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g-~~v~IVTpTrELA~Qdae~m~~ 157 (970)
T PRK12899 93 MVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTG-KPVHLVTVNDYLAQRDCEWVGS 157 (970)
T ss_pred CChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhc-CCeEEEeCCHHHHHHHHHHHHH
Confidence 7899999988777655578999999999998765444322233 3699999999888888777654
No 136
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.83 E-value=0.0056 Score=68.50 Aligned_cols=55 Identities=25% Similarity=0.430 Sum_probs=39.4
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEE-EEcCcHH--HHHHHHHHHHhcCceE
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL-VCAPSNV--AVDQLAEKISATGLKV 461 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rIL-V~ApSN~--AVD~L~erL~~~~~~v 461 (772)
...+|.||+|+||||+++.++..+...+. +|+ +.+.+.. |++++.......++.+
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 46789999999999999999998876654 665 4454543 7777776544444443
No 137
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.76 E-value=0.014 Score=72.43 Aligned_cols=70 Identities=24% Similarity=0.383 Sum_probs=52.1
Q ss_pred CCCHHHHHHHHHhhcC--CeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHH-HhcCce
Q 004121 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKI-SATGLK 460 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL-~~~~~~ 460 (772)
.|-+.|..++..++.+ +-+||-=..|.|||..+..++.+++..+ .++|||++|+.. +.+-.+.+ .+.++.
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL-~~QW~~El~~kF~l~ 225 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETL-QHQWLVEMLRRFNLR 225 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHH-HHHHHHHHHHHhCCC
Confidence 5789999999887753 4578899999999999988888877665 369999999854 44444444 333443
No 138
>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=96.75 E-value=0.0011 Score=61.10 Aligned_cols=42 Identities=31% Similarity=0.563 Sum_probs=30.8
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AV 447 (772)
....+|.||||||||+++..++..+.... ..++.++.+....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~~~~~~~~ 43 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG-GGVIYIDGEDILE 43 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC-CCEEEECCEEccc
Confidence 35789999999999999988887765543 2566666655443
No 139
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.73 E-value=0.0076 Score=68.75 Aligned_cols=47 Identities=32% Similarity=0.427 Sum_probs=33.0
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHH-HcCCCcEE-EEcCcHH--HHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVL-VCAPSNV--AVDQLAE 452 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~-~~~~~rIL-V~ApSN~--AVD~L~e 452 (772)
.+.++.||+|+|||||++.++..+. ..++.+|+ |.+.+.. |++++..
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~ 272 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKT 272 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHH
Confidence 4678899999999999999998876 44445665 4454533 4444443
No 140
>COG4889 Predicted helicase [General function prediction only]
Probab=96.73 E-value=0.01 Score=70.60 Aligned_cols=62 Identities=27% Similarity=0.255 Sum_probs=48.2
Q ss_pred CCCCHHHHHHHHHhhc-----CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 004121 389 PELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (772)
.++-+.|+.|+..++. .+=-||.+ +|||||+|+..|...|.+ .+||.++||=...-+-+...
T Consensus 160 kk~R~hQq~Aid~a~~~F~~n~RGkLIMA-cGTGKTfTsLkisEala~---~~iL~LvPSIsLLsQTlrew 226 (1518)
T COG4889 160 KKPRPHQQTAIDAAKEGFSDNDRGKLIMA-CGTGKTFTSLKISEALAA---ARILFLVPSISLLSQTLREW 226 (1518)
T ss_pred CCCChhHHHHHHHHHhhcccccCCcEEEe-cCCCccchHHHHHHHHhh---hheEeecchHHHHHHHHHHH
Confidence 4678999999999874 22345665 699999999998888776 69999999987766555443
No 141
>PRK06526 transposase; Provisional
Probab=96.72 E-value=0.0034 Score=66.77 Aligned_cols=52 Identities=23% Similarity=0.400 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHh---hcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 388 LPELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~a---L~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
.+.++..|...+... -.....+|.||||||||+++..+...+++.+. +|++.
T Consensus 78 ~~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~-~v~f~ 132 (254)
T PRK06526 78 QRSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGH-RVLFA 132 (254)
T ss_pred CCCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCC-chhhh
Confidence 457888877665432 12457899999999999999999988887654 66653
No 142
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=96.71 E-value=0.0016 Score=69.64 Aligned_cols=27 Identities=44% Similarity=0.615 Sum_probs=23.3
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
-+.+|.+||||||||.|+....++|.-
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 378999999999999999888887743
No 143
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.67 E-value=0.0055 Score=71.45 Aligned_cols=46 Identities=24% Similarity=0.353 Sum_probs=30.1
Q ss_pred CCCcEEEEEcCCCCChhh--hhhhhhc-CC--CeEEEe-cCCCCCCccccch
Q 004121 550 FRFRQVLIDESTQATEPE--CLIPLVL-GA--KQVVLV-GDHCQLGPVIMCK 595 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~-~~--k~lILV-GD~~QLpPvv~s~ 595 (772)
.+|+++||||+..++... .|+.... .. ..+||+ .|+..++|++.+.
T Consensus 118 ~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SR 169 (509)
T PRK14958 118 GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSR 169 (509)
T ss_pred CCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHH
Confidence 378999999999988644 2333322 22 345554 6888898887653
No 144
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=96.67 E-value=0.018 Score=75.32 Aligned_cols=62 Identities=23% Similarity=0.292 Sum_probs=46.5
Q ss_pred CCHHHHHHHHHhhcC--CeEEEEccCCC-chhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 004121 391 LNASQVFAVKSVLQR--PISLIQGPPGT-GKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~--~l~LIqGPPGT-GKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (772)
.+..|.+|+..+++. .+.+|+|+.|. |+++++.+++ .++...+.+|.++|||+.|+..|.+.
T Consensus 414 ~~~~~~~av~~~~q~~~~~~il~g~~G~aG~g~~l~~l~-~~a~~~G~~V~glAPt~~a~~~L~~~ 478 (1747)
T PRK13709 414 RTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELV-MMAREQGREVQILAADRRSQMNLKQD 478 (1747)
T ss_pred cchhhhHHHHHHhcccCcEEEEEcCCcchHHHHHHHHHH-HHHHhCCcEEEEEeCcHHHHHHHHHh
Confidence 456889999988864 58899988884 6665555544 44455556999999999999988754
No 145
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.66 E-value=0.0039 Score=71.57 Aligned_cols=24 Identities=25% Similarity=0.469 Sum_probs=20.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+|+.||||||||+++..++..+.
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcC
Confidence 469999999999998877776654
No 146
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=96.65 E-value=0.013 Score=70.71 Aligned_cols=67 Identities=22% Similarity=0.242 Sum_probs=49.8
Q ss_pred CCHHHHHHHHH---hhcCC-eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 391 LNASQVFAVKS---VLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 391 LN~sQ~~AV~~---aL~~~-l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.-+.|++.+.. ++.++ ..+|++|.|||||.-....+.......+.+|++++.|+..-+++.++....
T Consensus 16 ~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 16 PRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 34677765544 45544 599999999999987655544444444579999999999999999987653
No 147
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.51 E-value=0.0034 Score=79.26 Aligned_cols=62 Identities=18% Similarity=0.365 Sum_probs=45.2
Q ss_pred HHHHHHHhh-cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 395 QVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 395 Q~~AV~~aL-~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.++.|..++ .++.++|.|++||||||.+-.++..+-....++|.++-|-..|+-+++.|+.+
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 345555555 57899999999999999765554433211234788888999999999999975
No 148
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.48 E-value=0.0085 Score=70.84 Aligned_cols=45 Identities=18% Similarity=0.328 Sum_probs=30.2
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhc---CCCeEEEec-CCCCCCccccch
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVG-DHCQLGPVIMCK 595 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~---~~k~lILVG-D~~QLpPvv~s~ 595 (772)
+|.++||||+.+++... .|+-..- ..-.|||+. |+.+|+|+|.|.
T Consensus 124 r~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSR 174 (700)
T PRK12323 124 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR 174 (700)
T ss_pred CceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHH
Confidence 68999999999988654 2333221 223677765 556788988764
No 149
>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=96.46 E-value=0.0056 Score=63.48 Aligned_cols=54 Identities=31% Similarity=0.582 Sum_probs=40.8
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
..+++|.||||||||+.+...++.-+++ +. +++.++... ..+++.+++...+.+
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge-~vlyvs~ee-~~~~l~~~~~s~g~d 73 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGE-KVLYVSFEE-PPEELIENMKSFGWD 73 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT---EEEEESSS--HHHHHHHHHTTTS-
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC-cEEEEEecC-CHHHHHHHHHHcCCc
Confidence 4689999999999999999988887777 65 888887644 448888888776643
No 150
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.45 E-value=0.0029 Score=59.19 Aligned_cols=52 Identities=27% Similarity=0.464 Sum_probs=33.9
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~-----~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+++.+|.||||+|||+++..++..+... ...-+.+.++.......+...+..
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 60 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILE 60 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence 4678999999999999999999887653 232345555555546666666643
No 151
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.45 E-value=0.0077 Score=71.77 Aligned_cols=46 Identities=24% Similarity=0.318 Sum_probs=29.5
Q ss_pred CCCcEEEEEcCCCCChhh--hhhhhhc-CCCe--EEEec-CCCCCCccccch
Q 004121 550 FRFRQVLIDESTQATEPE--CLIPLVL-GAKQ--VVLVG-DHCQLGPVIMCK 595 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~-~~k~--lILVG-D~~QLpPvv~s~ 595 (772)
.++.++||||+..++... .|+...- ...+ +||+- |+..|+|+|.|.
T Consensus 118 g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SR 169 (647)
T PRK07994 118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 169 (647)
T ss_pred CCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhh
Confidence 378999999999998754 3443332 2334 44432 666688887753
No 152
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=96.45 E-value=0.02 Score=57.22 Aligned_cols=37 Identities=24% Similarity=0.326 Sum_probs=32.0
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
.++..|.+++|.|||+.+..++.+.+.++. +|+++=+
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~-~v~ivQF 41 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGK-KVGVIQF 41 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEE
Confidence 578999999999999999999998888765 8988744
No 153
>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=96.42 E-value=0.0082 Score=64.50 Aligned_cols=56 Identities=36% Similarity=0.503 Sum_probs=40.0
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc-C--cHHHHHHHHHHHHhcCceEE
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-P--SNVAVDQLAEKISATGLKVV 462 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A-p--SN~AVD~L~erL~~~~~~vv 462 (772)
...++.||||+|||||++.++..+.+.+ .+|++++ . ...|++++.......++.++
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g-~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~ 131 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQG-KSVLLAAGDTFRAAAIEQLEEWAKRLGVDVI 131 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcC-CEEEEEeCCCCCHHHHHHHHHHHHhCCeEEE
Confidence 3566779999999999999998887665 4776554 3 34466777766666665554
No 154
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=96.41 E-value=0.0093 Score=59.99 Aligned_cols=45 Identities=31% Similarity=0.519 Sum_probs=33.1
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (772)
..-.+|.||||||||+.+++++..+++.+. +|+.+. +.+|.++|.
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 346789999999999999999999988654 777765 345666664
No 155
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.39 E-value=0.012 Score=70.42 Aligned_cols=46 Identities=17% Similarity=0.299 Sum_probs=29.5
Q ss_pred CCCcEEEEEcCCCCChhh--hhhhhhc-C--CCeEEEec-CCCCCCccccch
Q 004121 550 FRFRQVLIDESTQATEPE--CLIPLVL-G--AKQVVLVG-DHCQLGPVIMCK 595 (772)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~-~--~k~lILVG-D~~QLpPvv~s~ 595 (772)
.+|+++||||+..++... .|+-... . ..+|||+. |..+++++|.|.
T Consensus 118 gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSR 169 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSR 169 (830)
T ss_pred CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhh
Confidence 368999999999988643 3433332 1 23566654 555688887653
No 156
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=96.36 E-value=0.044 Score=54.18 Aligned_cols=59 Identities=15% Similarity=0.204 Sum_probs=42.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCc----HHHHHHHHHHHHhcCceEEEecc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS----NVAVDQLAEKISATGLKVVRLCA 466 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApS----N~AVD~L~erL~~~~~~vvRl~~ 466 (772)
.++..|.+++|+|||+.+..++.+.+.++. +|+++=+- ...=.++++++ .++.+.|.+.
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 468889999999999999999988888765 88883331 23334455555 2577777764
No 157
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.35 E-value=0.0059 Score=64.96 Aligned_cols=53 Identities=26% Similarity=0.285 Sum_probs=38.5
Q ss_pred CCCCHHHHHHHHHhhc-------CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 389 PELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
...+..+++|+..+.. ..-.++.||||||||+.++++...+++.+ .+|++++.
T Consensus 82 ~~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g-~sv~f~~~ 141 (254)
T COG1484 82 EFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAG-ISVLFITA 141 (254)
T ss_pred cCCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcC-CeEEEEEH
Confidence 3344566666665542 34678999999999999999999999554 47776643
No 158
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.34 E-value=0.032 Score=69.65 Aligned_cols=73 Identities=15% Similarity=0.196 Sum_probs=56.5
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEec
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~ 465 (772)
..|.+-|++||..++...-+++..|.|+|||.+-. +-.|+ .+ +.+||++|+-..+.+-..+|...+++...+.
T Consensus 459 ~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQ--LPAL~-~~-GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L~ 531 (1195)
T PLN03137 459 HSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQ--LPALI-CP-GITLVISPLVSLIQDQIMNLLQANIPAASLS 531 (1195)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHH--HHHHH-cC-CcEEEEeCHHHHHHHHHHHHHhCCCeEEEEE
Confidence 46889999999999988889999999999997532 22222 23 4899999999988777777777777665543
No 159
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.28 E-value=0.0081 Score=73.18 Aligned_cols=25 Identities=24% Similarity=0.308 Sum_probs=20.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
..+|+.||||||||+++..++..|.
T Consensus 39 HAyLFtGPpGtGKTTLARiLAk~Ln 63 (944)
T PRK14949 39 HAYLFTGTRGVGKTSLARLFAKGLN 63 (944)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhcc
Confidence 3568999999999999887777664
No 160
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.23 E-value=0.014 Score=68.94 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=20.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+|+.||||||||+++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 478999999999999888777664
No 161
>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=96.21 E-value=0.007 Score=63.52 Aligned_cols=54 Identities=24% Similarity=0.385 Sum_probs=42.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
..+++|.||||||||+.+..+++..++.+ .++++++.. ...+++.+++...+.+
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~~~~~g-e~~lyvs~e-e~~~~i~~~~~~~g~~ 74 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWNGLQMG-EPGIYVALE-EHPVQVRRNMAQFGWD 74 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcC-CcEEEEEee-CCHHHHHHHHHHhCCC
Confidence 45789999999999999999888777665 488888854 5677788888766543
No 162
>PRK05973 replicative DNA helicase; Provisional
Probab=96.20 E-value=0.0089 Score=62.87 Aligned_cols=53 Identities=19% Similarity=0.327 Sum_probs=43.2
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
..+++|.|+||+|||+.+..+++..++++ .++++.+.--. .+++.+|+...++
T Consensus 64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~G-e~vlyfSlEes-~~~i~~R~~s~g~ 116 (237)
T PRK05973 64 GDLVLLGARPGHGKTLLGLELAVEAMKSG-RTGVFFTLEYT-EQDVRDRLRALGA 116 (237)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEEEeCC-HHHHHHHHHHcCC
Confidence 45899999999999999999998888775 48887776554 5888888877654
No 163
>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=96.20 E-value=0.0059 Score=62.34 Aligned_cols=37 Identities=32% Similarity=0.562 Sum_probs=28.7
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
+++.+|.||+|+||||++..++..+.....++|+..-
T Consensus 1 ~GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 4789999999999999998888777655444665543
No 164
>PRK08116 hypothetical protein; Validated
Probab=96.16 E-value=0.017 Score=61.89 Aligned_cols=34 Identities=32% Similarity=0.419 Sum_probs=28.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
..+++|+||||||+.+.+++..+.+.+ .+|+++.
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 478999999999999999999988874 4776664
No 165
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.16 E-value=0.0034 Score=67.62 Aligned_cols=27 Identities=37% Similarity=0.679 Sum_probs=23.5
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
+++.|++||||||||+...+++..|.-
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLSI 203 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLSI 203 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhhee
Confidence 789999999999999998888877643
No 166
>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=96.15 E-value=0.0036 Score=58.25 Aligned_cols=22 Identities=45% Similarity=0.800 Sum_probs=18.7
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.||||||||+++..++.++
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 4899999999999887777664
No 167
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=96.15 E-value=0.013 Score=64.42 Aligned_cols=55 Identities=31% Similarity=0.420 Sum_probs=39.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc-CcH--HHHHHHHHHHHhcCceEE
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PSN--VAVDQLAEKISATGLKVV 462 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A-pSN--~AVD~L~erL~~~~~~vv 462 (772)
+.++.||||+|||||++.++..+...+ ++|++.+ .+. .|++++.......++.++
T Consensus 116 vi~lvGpnGsGKTTt~~kLA~~l~~~g-~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~ 173 (318)
T PRK10416 116 VILVVGVNGVGKTTTIGKLAHKYKAQG-KKVLLAAGDTFRAAAIEQLQVWGERVGVPVI 173 (318)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHhcC-CeEEEEecCccchhhHHHHHHHHHHcCceEE
Confidence 677899999999999999998887665 4777654 443 366776655544455544
No 168
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.11 E-value=0.016 Score=60.74 Aligned_cols=52 Identities=17% Similarity=0.166 Sum_probs=37.7
Q ss_pred CCCHHHHHHHHHhhc---CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 390 ELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
.-|.....++..... .+..+|+||||||||+.+..+..++.+.+ .+++.+..
T Consensus 27 ~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~-~~v~y~~~ 81 (235)
T PRK08084 27 GDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRG-RAVGYVPL 81 (235)
T ss_pred CccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEEH
Confidence 456777777766542 35789999999999999988887776654 46666544
No 169
>PRK09183 transposase/IS protein; Provisional
Probab=96.05 E-value=0.014 Score=62.19 Aligned_cols=53 Identities=23% Similarity=0.362 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHh--h-cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 388 LPELNASQVFAVKSV--L-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~a--L-~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
.+.+|..|...+... + .....+|.||||||||+.+..+...+...+ .+|+.+.
T Consensus 82 ~~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G-~~v~~~~ 137 (259)
T PRK09183 82 ATGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVRAG-IKVRFTT 137 (259)
T ss_pred CCCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEEe
Confidence 467888888777553 2 245688999999999999998877666654 4777654
No 170
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=96.05 E-value=0.018 Score=68.13 Aligned_cols=25 Identities=32% Similarity=0.469 Sum_probs=20.6
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
..+|+.||||||||+++..++..+.
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3578899999999999887776654
No 171
>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=96.05 E-value=0.015 Score=57.69 Aligned_cols=37 Identities=35% Similarity=0.574 Sum_probs=28.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE-cCcH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC-APSN 444 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~-ApSN 444 (772)
+.++.||||+|||+++..++..+.+.+. +|+++ +...
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~-~v~~i~~D~~ 39 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGK-KVLLVAADTY 39 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEEcCCC
Confidence 4688999999999999999988877754 66554 4443
No 172
>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=96.04 E-value=0.011 Score=63.39 Aligned_cols=50 Identities=22% Similarity=0.419 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
.+.+.|.+++..++. .++++|.||+|+||||++..++..+.. ...+|+.+
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 367889998888775 579999999999999999888877643 23355544
No 173
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.03 E-value=0.015 Score=57.46 Aligned_cols=41 Identities=24% Similarity=0.436 Sum_probs=29.0
Q ss_pred HHHHHHHHHhhc------CCeEEEEccCCCchhhHHHHHHHHHHHcC
Q 004121 393 ASQVFAVKSVLQ------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (772)
Q Consensus 393 ~sQ~~AV~~aL~------~~l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (772)
++|.+.+...+. .+..+|.|+||+|||+++.++...+.+.+
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 456677777761 46789999999999999999888887764
No 174
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.03 E-value=0.011 Score=61.94 Aligned_cols=53 Identities=21% Similarity=0.378 Sum_probs=39.8
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
..+++|.||||||||+.+..+++.+++.+ .+++.++... ..+++.+.+.+.+.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g-~~~~yi~~e~-~~~~~~~~~~~~g~ 76 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNG-YSVSYVSTQL-TTTEFIKQMMSLGY 76 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEEeCCC-CHHHHHHHHHHhCC
Confidence 46899999999999999999988888776 4777777444 44666666655443
No 175
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.00 E-value=0.066 Score=67.03 Aligned_cols=149 Identities=17% Similarity=0.262 Sum_probs=90.8
Q ss_pred CCCHHHHHHHHHhhc---C-CeEEEEccCCCchhhHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHhc--CceE
Q 004121 390 ELNASQVFAVKSVLQ---R-PISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~-~l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~--~~~v 461 (772)
.|=+.|.+++...+. + .-.++-=..|.|||..+..++..+... ..+++||++|... +.+-..-+.+. .+++
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~Sl-L~nW~~Ei~kw~p~l~v 247 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKST-LGNWMNEIRRFCPVLRA 247 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHH-HHHHHHHHHHHCCCCce
Confidence 577899999988763 3 345677789999999988888777543 2458999999755 55566555543 2233
Q ss_pred EEeccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccc
Q 004121 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVG 541 (772)
Q Consensus 462 vRl~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~ 541 (772)
+.+.....+ ...+. . ........+|+++|...
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 333221100 00000 0 00001235667666544
Q ss_pred cCC--cccccCCCcEEEEEcCCCCChhhhhhhh----hcCCCeEEEecCCCC
Q 004121 542 AGD--PRLANFRFRQVLIDESTQATEPECLIPL----VLGAKQVVLVGDHCQ 587 (772)
Q Consensus 542 a~~--~~L~~~~Fd~VIIDEAsQatEpe~LipL----~~~~k~lILVGD~~Q 587 (772)
+.. ..+..+.|++||||||..+.-+...+.- .....+++|-|=|-|
T Consensus 280 l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlq 331 (1033)
T PLN03142 280 AIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQ 331 (1033)
T ss_pred HHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCC
Confidence 322 2366778999999999887766532221 123468999999988
No 176
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=95.99 E-value=0.043 Score=67.81 Aligned_cols=68 Identities=22% Similarity=0.326 Sum_probs=59.3
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHH-HHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.|=..|.+|.+.+.....++|.-|.|||||-.- .-|+.++++.+..+-|++-|||+-+..=++||.+.
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 367899999999988889999999999999774 56777888888889999999999999999998764
No 177
>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=95.97 E-value=0.013 Score=60.84 Aligned_cols=54 Identities=20% Similarity=0.319 Sum_probs=44.0
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
..+++|.|+||+|||+.+..+++..++++ .+++.++... ..+++.+++...+..
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g-~~~~y~s~e~-~~~~l~~~~~~~~~~ 69 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNG-EKAMYISLEE-REERILGYAKSKGWD 69 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEECCC-CHHHHHHHHHHcCCC
Confidence 45789999999999999999988877775 5888887755 678999988776544
No 178
>PRK06893 DNA replication initiation factor; Validated
Probab=95.97 E-value=0.013 Score=61.28 Aligned_cols=37 Identities=19% Similarity=0.235 Sum_probs=29.8
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
++..+|+||||||||+.+..+...+.+.+. ++..+..
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 567899999999999999999988887754 6655544
No 179
>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=95.95 E-value=0.012 Score=56.47 Aligned_cols=41 Identities=27% Similarity=0.524 Sum_probs=32.2
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD 448 (772)
+++|.||||+|||+++..++..+...+ .+|++........+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~-~~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKG-GKVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcC-CEEEEEECCcchHH
Confidence 368999999999999999998887754 47887777554433
No 180
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.94 E-value=0.046 Score=66.55 Aligned_cols=62 Identities=18% Similarity=0.174 Sum_probs=43.6
Q ss_pred CHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.+-|..+.-..+ .+- +.+...|+|||.+.+-.++..... +.+|+|+|||..-+.+..+.+..
T Consensus 80 ~~vQl~~~~~l~-~G~-Iaem~TGeGKTL~a~lp~~l~al~-G~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 80 YDVQLIGALVLH-EGN-IAEMQTGEGKTLTATMPLYLNALE-GKGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred chHHHHhHHHHc-CCc-eeeecCCCcchHHHHHHHHHHHHc-CCCeEEEeCCHHHHHHHHHHHHH
Confidence 345665554333 333 889999999999876555433333 45999999999988888877654
No 181
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.93 E-value=0.022 Score=68.06 Aligned_cols=26 Identities=35% Similarity=0.579 Sum_probs=21.5
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
+.+|+.||||||||+++..++..|.-
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhcC
Confidence 45699999999999998888777643
No 182
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.92 E-value=0.03 Score=64.94 Aligned_cols=37 Identities=30% Similarity=0.418 Sum_probs=28.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~A 441 (772)
.++.+|.||.|+||||++..++..+...+ ..+|.++.
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 35788899999999999999998876653 34665543
No 183
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.91 E-value=0.03 Score=65.78 Aligned_cols=44 Identities=16% Similarity=0.321 Sum_probs=28.5
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhc---CCCeEEEec-CCCCCCccccc
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVG-DHCQLGPVIMC 594 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~---~~k~lILVG-D~~QLpPvv~s 594 (772)
++.++|||||..++... .|+-... ..-.+||+. |+..+++++.+
T Consensus 119 ~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~S 168 (527)
T PRK14969 119 RFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLS 168 (527)
T ss_pred CceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHH
Confidence 68899999998888643 3333322 223567766 66667777654
No 184
>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=95.90 E-value=0.012 Score=62.78 Aligned_cols=48 Identities=19% Similarity=0.275 Sum_probs=36.4
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (772)
..+++|.||||||||+.+..++++.++++ .+++.++.-. ..+.+.+++
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~G-e~vlyis~Ee-~~~~~~~~l 83 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRG-NPVLFVTVES-PANFVYTSL 83 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCC-CcEEEEEecC-CchHHHHHH
Confidence 46899999999999999999988887775 4888887653 334444444
No 185
>PRK10867 signal recognition particle protein; Provisional
Probab=95.88 E-value=0.017 Score=65.93 Aligned_cols=58 Identities=28% Similarity=0.363 Sum_probs=40.8
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcE-EEEcCcHH--HHHHHHHHHHhcCceEEEe
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSNV--AVDQLAEKISATGLKVVRL 464 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rI-LV~ApSN~--AVD~L~erL~~~~~~vvRl 464 (772)
+.++.||||+|||||++.++..+.+..+.+| ||.+.+.. |++++.......++.++..
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~ 162 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPS 162 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEec
Confidence 5688999999999999999999887723465 45565554 4566655445556665543
No 186
>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=95.84 E-value=0.02 Score=63.51 Aligned_cols=26 Identities=23% Similarity=0.420 Sum_probs=21.8
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
+.+.++.||||||||+.+..++..|-
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~ 103 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLE 103 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence 46889999999999998877776653
No 187
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.83 E-value=0.021 Score=62.23 Aligned_cols=58 Identities=28% Similarity=0.347 Sum_probs=45.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcH--HHHHHHHHHHHhcCceEEEe
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVVRL 464 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN--~AVD~L~erL~~~~~~vvRl 464 (772)
+.|+.|..|+|||||++.+++.+.+++..-+|+.+.|= .|+++|...-.+.|.+++.-
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 46889999999999999999999888763344555554 47788887777778888764
No 188
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.81 E-value=0.013 Score=62.94 Aligned_cols=35 Identities=34% Similarity=0.600 Sum_probs=29.3
Q ss_pred cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEE
Q 004121 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL 438 (772)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rIL 438 (772)
.+++.||.||-|+|||||++++|-++=++....||
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIl 158 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHIL 158 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceE
Confidence 37999999999999999999999988666544444
No 189
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.79 E-value=0.021 Score=67.87 Aligned_cols=44 Identities=20% Similarity=0.327 Sum_probs=29.2
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhc-CC--CeEEEe-cCCCCCCccccc
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVL-GA--KQVVLV-GDHCQLGPVIMC 594 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~-~~--k~lILV-GD~~QLpPvv~s 594 (772)
+|+++||||+.+++... .|+-..- .. -.+||+ .|+..+++++.+
T Consensus 124 ~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlS 173 (618)
T PRK14951 124 RFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLS 173 (618)
T ss_pred CceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHH
Confidence 68999999999988754 2332221 12 256654 588888888765
No 190
>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=95.78 E-value=0.027 Score=58.03 Aligned_cols=50 Identities=18% Similarity=0.212 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHhh---cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 391 LNASQVFAVKSVL---QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 391 LN~sQ~~AV~~aL---~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
-|.+-.++++..+ ..+..+|.||||||||+++..+..++...+ .+++.+.
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~-~~~~~i~ 73 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERG-KSAIYLP 73 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcC-CcEEEEe
Confidence 3455555565543 246789999999999999988887766543 3555443
No 191
>PRK06851 hypothetical protein; Provisional
Probab=95.76 E-value=0.0083 Score=66.90 Aligned_cols=48 Identities=27% Similarity=0.441 Sum_probs=40.4
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCC-CcEEEEcCcHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAE 452 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~-~rILV~ApSN~AVD~L~e 452 (772)
..+++|.||||||||+++..++..+.+.+. -..+.|+..|.++|-+.-
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvii 78 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVII 78 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEEe
Confidence 678999999999999999999998887643 137889999999987764
No 192
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.76 E-value=0.019 Score=60.00 Aligned_cols=54 Identities=31% Similarity=0.487 Sum_probs=43.1
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
..+++|.||||||||+.+..+++..++++ .+++.++..+. .+.+.+++.+.++.
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g-~~~~y~~~e~~-~~~~~~~~~~~g~~ 78 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQG-KKVYVITTENT-SKSYLKQMESVKID 78 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCC-CEEEEEEcCCC-HHHHHHHHHHCCCC
Confidence 45889999999999999999988877765 48888888654 46788877776644
No 193
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=95.73 E-value=0.019 Score=57.72 Aligned_cols=52 Identities=31% Similarity=0.520 Sum_probs=39.0
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHc---------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~---------~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..+++|.||||+|||+.+..++..++.. ...+||++..-+. ...+..|+...
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 5699999999999999999999988862 3458998888776 56777777654
No 194
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=95.71 E-value=0.022 Score=67.48 Aligned_cols=44 Identities=25% Similarity=0.499 Sum_probs=38.3
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (772)
...+|.|-+|||||+.+..+...+ +.+|+++|.+|+-|+-.+|.
T Consensus 72 s~~~itG~AGsGKst~i~~l~~~l------~cvitg~T~vAAqN~~~~L~ 115 (828)
T PHA03311 72 SVYLITGTAGAGKSTSIQTLNENL------DCVITGATRVAAQNLSAKLS 115 (828)
T ss_pred EEEEEecCCCCChHHHHHHHHHhc------CEEEEcchHHHHHhhhcccc
Confidence 467999999999999887776654 78899999999999998876
No 195
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=95.70 E-value=0.0079 Score=62.18 Aligned_cols=27 Identities=37% Similarity=0.645 Sum_probs=23.4
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
-|..+|.|||||||||.+..++..|+-
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 467899999999999999888887764
No 196
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.69 E-value=0.021 Score=62.74 Aligned_cols=50 Identities=20% Similarity=0.401 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEE
Q 004121 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLV 439 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV 439 (772)
.+++.|.+.+..++. +...+|.||+||||||++.+++..+... +..||++
T Consensus 128 ~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 467888888888775 4578999999999999999888877654 3345554
No 197
>PRK04296 thymidine kinase; Provisional
Probab=95.68 E-value=0.014 Score=59.30 Aligned_cols=36 Identities=28% Similarity=0.480 Sum_probs=29.9
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
.+.+|.||||+|||+.+..++..+...+ .+|++..+
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g-~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERG-MKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcC-CeEEEEec
Confidence 3679999999999999999988887765 48888744
No 198
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=95.67 E-value=0.0094 Score=55.10 Aligned_cols=22 Identities=32% Similarity=0.748 Sum_probs=19.0
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.||||+||||++..+...+
T Consensus 2 I~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 6899999999999988877655
No 199
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.67 E-value=0.033 Score=57.82 Aligned_cols=50 Identities=18% Similarity=0.214 Sum_probs=35.7
Q ss_pred CCCHHHHHHHHHhhc----CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
.-|.....+++.... .+..+|.||||||||+.+..+..++...+. ++.++
T Consensus 23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~-~~~~i 76 (227)
T PRK08903 23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGR-NARYL 76 (227)
T ss_pred CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEE
Confidence 456667676666533 357899999999999998888877766543 44433
No 200
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=95.66 E-value=0.049 Score=60.71 Aligned_cols=38 Identities=18% Similarity=0.322 Sum_probs=27.7
Q ss_pred HHHHHHHhhcC----CeEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 395 QVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 395 Q~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
-.+.+..++.. ...||.||+|+|||+++-.++..|+..
T Consensus 31 a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 31 AEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred HHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 33444445542 258999999999999998888887653
No 201
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.66 E-value=0.023 Score=62.53 Aligned_cols=53 Identities=26% Similarity=0.324 Sum_probs=39.4
Q ss_pred CCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcC
Q 004121 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (772)
.+++.|.+.+..++. +...+|.||+||||||++.+++..+... +..+|+++-.
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd 186 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIED 186 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcC
Confidence 367788888887765 6788999999999999998888776533 3446665433
No 202
>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=95.65 E-value=0.061 Score=64.78 Aligned_cols=61 Identities=21% Similarity=0.203 Sum_probs=41.7
Q ss_pred HHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+-|.......+ .+. +.+.+.|+|||.+++-.++.....+ .+|+|+|||..-+.+.++.+..
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 45655544333 343 8899999999987654443222233 4899999999988888887654
No 203
>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=95.63 E-value=0.023 Score=61.97 Aligned_cols=51 Identities=25% Similarity=0.389 Sum_probs=39.1
Q ss_pred CCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEc
Q 004121 391 LNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (772)
Q Consensus 391 LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~A 441 (772)
+++.|.+.+..++. +...+|.||+|+||||++..++..+.+. +..+|+++-
T Consensus 117 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiE 169 (299)
T TIGR02782 117 MTAAQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIE 169 (299)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEEC
Confidence 56777777777765 5688999999999999998888776653 345776654
No 204
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=95.63 E-value=0.14 Score=65.20 Aligned_cols=155 Identities=11% Similarity=0.033 Sum_probs=96.6
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhcCCCeEEEecCCCCCCccccchHHHHhcc-h---hhHHHHHHHCCCccEeccccc
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGL-A---QSLFERLVLLGLKPIRLQVQY 624 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~~~k~lILVGD~~QLpPvv~s~~a~~~gl-~---~SLFeRL~~~g~~~~~L~~QY 624 (772)
+-..|+|||+++.+..+ ++-.|...++++.+++|..|..+. .+. ...++ . ..|.......+.+...+..+|
T Consensus 185 ~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~~-~~~--~~~~LF~~s~~~L~~la~~~~i~v~~~~~~~ 261 (1076)
T TIGR02774 185 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAYK-SSF--SEGNLYQASVKFLHDLAQKYQTKAEFISSTH 261 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCccccc-cCC--CcccchHHHHHHHHHHHHHcCCCcccCcccc
Confidence 45689999999999888 344455568899999998884420 000 00011 0 223333333456666666889
Q ss_pred CCchHHhHHHHhhhcCCcccccCccccccCCCCCCCC--CCC-CCCeEEEEeCCceeecccCCCCCCHHHHHHHHHHHHH
Q 004121 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW--PVP-NRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTT 701 (772)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~--p~~-~~p~~f~~~~g~ee~~~~g~S~~N~~EA~~V~~iV~~ 701 (772)
|.+|+|....+..+-..... . .+| +.. +..+.++...+. ..|++.|.+.|.+
T Consensus 262 R~~~~L~~Le~~~~~~~~~~-~------------~~~~~~~~~~~~I~i~~a~n~------------~~Eve~va~~I~~ 316 (1076)
T TIGR02774 262 ESKDSFDKLSRLLEASHDFS-E------------LALDLDDKDKDNLTIWSCLTQ------------KEEVEHVARSIRQ 316 (1076)
T ss_pred ccCHHHHHHHHHHhhcccCC-c------------ccccCCCCCCCceEEEEcCCH------------HHHHHHHHHHHHH
Confidence 99999988876333210000 0 011 000 012333322221 3599999999999
Q ss_pred HHHCCCCCCeEEEEccchHH-HHHHHHHHHHcC
Q 004121 702 FLRSGVVPSQIGVITPYEGQ-RAYIVNYMSRNG 733 (772)
Q Consensus 702 Ll~~gv~~~~IgIITPY~aQ-v~~I~~~L~~~~ 733 (772)
|++.|+.+.+|+|+++-..+ ..+|...+...+
T Consensus 317 lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~~~~ 349 (1076)
T TIGR02774 317 KLYEGYRYKDILVLLGDVDSYQLQLGKIFDQYD 349 (1076)
T ss_pred HHHcCCChhheEEEcCCHHHHHHHHHHHHhhcC
Confidence 99889999999999998877 778888887654
No 205
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=95.62 E-value=0.16 Score=51.58 Aligned_cols=60 Identities=15% Similarity=0.196 Sum_probs=42.2
Q ss_pred cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHH----HHHHHHHHHHhcCceEEEecc
Q 004121 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV----AVDQLAEKISATGLKVVRLCA 466 (772)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~----AVD~L~erL~~~~~~vvRl~~ 466 (772)
..+...|.+++|+|||+.+..++...+..+. +|+++=+-.- .=.++++++ .++.+.+.+.
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~-~V~ivQFlKg~~~~GE~~~l~~l--~~v~~~~~g~ 84 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGK-KVGVVQFIKGAWSTGERNLLEFG--GGVEFHVMGT 84 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEEecCCCccCHHHHHhcC--CCcEEEECCC
Confidence 5789999999999999999999988888765 8988866332 223333333 1455665543
No 206
>PRK04328 hypothetical protein; Provisional
Probab=95.60 E-value=0.023 Score=60.19 Aligned_cols=53 Identities=25% Similarity=0.400 Sum_probs=40.7
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
..+++|.||||||||+.+..+++.-++.+. ++++++.... .+.+.+++...+.
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge-~~lyis~ee~-~~~i~~~~~~~g~ 75 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE-PGVYVALEEH-PVQVRRNMRQFGW 75 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEEeeCC-HHHHHHHHHHcCC
Confidence 457899999999999999999888777754 8887776554 4447777766654
No 207
>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=95.60 E-value=0.028 Score=63.99 Aligned_cols=56 Identities=27% Similarity=0.437 Sum_probs=38.8
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEE-EEcCcH--HHHHHHHHHHHhcCceEEE
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL-VCAPSN--VAVDQLAEKISATGLKVVR 463 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rIL-V~ApSN--~AVD~L~erL~~~~~~vvR 463 (772)
+.++.||+|+|||||++.++..+.+.+. +|+ |++.+. .|++++...-...++.++.
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~~G~-kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~ 160 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQRKGF-KPCLVCADTFRAGAFDQLKQNATKARIPFYG 160 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEcCcccchhHHHHHHHHhhccCCeEEe
Confidence 6789999999999999999988776654 654 555554 4666664333334455543
No 208
>PF05729 NACHT: NACHT domain
Probab=95.58 E-value=0.012 Score=56.99 Aligned_cols=28 Identities=25% Similarity=0.501 Sum_probs=24.8
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (772)
++.+|.|+||+|||+++..++..+....
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 3679999999999999999999888764
No 209
>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=95.57 E-value=0.022 Score=60.72 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=41.3
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..+++|.||||+|||+.+..++.+++...+.+|++.+.-. ..++++.|+..
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 4689999999999999999999888776346899988755 45677777754
No 210
>PRK09694 helicase Cas3; Provisional
Probab=95.57 E-value=0.039 Score=68.16 Aligned_cols=67 Identities=19% Similarity=0.371 Sum_probs=55.4
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..++-|..+.......++++|.+|.|+|||..+...+..++.. +..+|+++.||...++++.+|+.+
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 4678898775444457899999999999999988777777655 346899999999999999999975
No 211
>PRK08727 hypothetical protein; Validated
Probab=95.56 E-value=0.062 Score=56.36 Aligned_cols=35 Identities=26% Similarity=0.335 Sum_probs=29.0
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
...+|.||+|||||+.+.++..++.+.+ .++..+.
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~-~~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQAG-RSSAYLP 76 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcC-CcEEEEe
Confidence 4689999999999999999888877765 4776665
No 212
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=95.56 E-value=0.032 Score=68.14 Aligned_cols=47 Identities=17% Similarity=0.224 Sum_probs=35.8
Q ss_pred EEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+.+.+.|+|||.+.+-.++.-+..+ ..|+|+|||..-+.+.++.+..
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~al~G-~~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNAISG-RGVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred cccccCCCCchHHHHHHHHHHHhcC-CCEEEEcCCHHHHHHHHHHHHH
Confidence 5788999999998765554333334 4799999999988888877754
No 213
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=95.55 E-value=0.013 Score=65.09 Aligned_cols=40 Identities=23% Similarity=0.357 Sum_probs=30.9
Q ss_pred CHHHHHHHHHhhc-------CCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 392 N~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
-+.|.+.+...+. .+..+|.||||||||+++..++.++..
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3567766666653 257899999999999999888887754
No 214
>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=95.54 E-value=0.03 Score=63.93 Aligned_cols=57 Identities=35% Similarity=0.505 Sum_probs=39.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHH-cCCCcE-EEEcCcHH--HHHHHHHHHHhcCceEEEe
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQV-LVCAPSNV--AVDQLAEKISATGLKVVRL 464 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~-~~~~rI-LV~ApSN~--AVD~L~erL~~~~~~vvRl 464 (772)
+.++.||||+|||||++.++..+.. .+. +| ||.+.+.. |.+++.......++++...
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~-kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~ 161 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGK-KVLLVACDLYRPAAIEQLKVLGQQVGVPVFAL 161 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCC-eEEEEeccccchHHHHHHHHHHHhcCCceEec
Confidence 5789999999999999999998764 444 55 56666554 4566555544556665543
No 215
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.48 E-value=0.028 Score=62.05 Aligned_cols=36 Identities=31% Similarity=0.412 Sum_probs=30.1
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
....++.||||||||+.+.+++..++..+. +|+.++
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 467899999999999999999999888754 776655
No 216
>PRK10436 hypothetical protein; Provisional
Probab=95.43 E-value=0.022 Score=65.62 Aligned_cols=41 Identities=29% Similarity=0.510 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEccCCCchhhHHHHHHHHHH
Q 004121 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+.+.|.+.+..++. +++.||.||.|+|||||+.+++..+.
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~ 243 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLN 243 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhC
Confidence 467888888888764 68999999999999999988776653
No 217
>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=95.41 E-value=0.023 Score=66.09 Aligned_cols=54 Identities=22% Similarity=0.295 Sum_probs=44.2
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
...+||.||||||||+.+...++..++++ .+++.+++ ....+++..+....|++
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~g-e~~~y~s~-eEs~~~i~~~~~~lg~~ 316 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACANK-ERAILFAY-EESRAQLLRNAYSWGID 316 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEEEe-eCCHHHHHHHHHHcCCC
Confidence 35789999999999999999999988876 48888884 56677888888766653
No 218
>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=95.40 E-value=0.021 Score=66.31 Aligned_cols=55 Identities=18% Similarity=0.237 Sum_probs=43.4
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
...++|.||||||||+.+...+++-+++++.++|.++.- ...+++.+...+.|..
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 468999999999999999999887666634588888875 5667888887776653
No 219
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=95.40 E-value=0.02 Score=66.54 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEccCCCchhhHHHHHHHHHH
Q 004121 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+.+.|.+.++.++. .++.+|.||+|+|||||+..++..+.
T Consensus 225 g~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~ 267 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLN 267 (486)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccC
Confidence 467899999988775 57999999999999999987776553
No 220
>PLN03025 replication factor C subunit; Provisional
Probab=95.37 E-value=0.021 Score=62.74 Aligned_cols=40 Identities=30% Similarity=0.520 Sum_probs=28.5
Q ss_pred CHHHHHHHHHhhc---CCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 392 NASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 392 N~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
|+...+.++..+. -+..+++||||||||+++..++..+..
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~ 60 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG 60 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhc
Confidence 3444555555443 246789999999999998888877653
No 221
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=95.36 E-value=0.013 Score=62.30 Aligned_cols=26 Identities=27% Similarity=0.408 Sum_probs=21.1
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
...++.||||||||+++..++..+..
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 35789999999999998777766644
No 222
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.32 E-value=0.027 Score=59.89 Aligned_cols=44 Identities=34% Similarity=0.609 Sum_probs=36.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ 449 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~ 449 (772)
...++|.|+||||||+.+...++..++.+ .+++.++....+.+-
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~g-e~vlyvs~~e~~~~l 66 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREG-EPVLYVSTEESPEEL 66 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcC-CcEEEEEecCCHHHH
Confidence 56899999999999999999999998885 488888876655443
No 223
>PRK06921 hypothetical protein; Provisional
Probab=95.30 E-value=0.048 Score=58.45 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=30.5
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
....+++||||||||+.+.+++..+++..+..|+.++.
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 35689999999999999999999888762347776653
No 224
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.27 E-value=0.063 Score=64.28 Aligned_cols=45 Identities=11% Similarity=0.306 Sum_probs=29.3
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhc---CCCeEEEec-CCCCCCccccch
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVG-DHCQLGPVIMCK 595 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~---~~k~lILVG-D~~QLpPvv~s~ 595 (772)
++++|||||+..++... .|+-..- ....+||+. |+..+++++.+.
T Consensus 119 k~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSR 169 (709)
T PRK08691 119 KYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSR 169 (709)
T ss_pred CcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHH
Confidence 57899999998887643 2333321 233566654 777888887653
No 225
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=95.27 E-value=0.031 Score=59.64 Aligned_cols=24 Identities=29% Similarity=0.425 Sum_probs=20.0
Q ss_pred cCCeEEEEccCCCchhhHHHHHHH
Q 004121 404 QRPISLIQGPPGTGKTVTSAAIVY 427 (772)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~ 427 (772)
.+...+|.||||||||+++..+..
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHH
Confidence 356788999999999998877665
No 226
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.24 E-value=0.043 Score=61.71 Aligned_cols=40 Identities=33% Similarity=0.439 Sum_probs=29.7
Q ss_pred HHHHHHHHHhhc-------CCeEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 393 ~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
+.|.+.+...+. .+..+|.||||||||+++..++..+...
T Consensus 36 e~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~ 82 (394)
T PRK00411 36 EEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEI 82 (394)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 455555655542 2568999999999999998888877554
No 227
>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=95.23 E-value=0.033 Score=57.80 Aligned_cols=53 Identities=21% Similarity=0.409 Sum_probs=38.0
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
..+++|.||||||||+.+..++...++.+. +++..+. ....+++.++....+.
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 458899999999999999988877776654 6666654 3334666666555443
No 228
>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=95.23 E-value=0.032 Score=56.98 Aligned_cols=39 Identities=33% Similarity=0.568 Sum_probs=31.1
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN 444 (772)
..+++|.||||||||+.+..++....+.+. +++.++..+
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 458999999999999999999888877754 666555543
No 229
>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=95.22 E-value=0.035 Score=57.97 Aligned_cols=50 Identities=24% Similarity=0.284 Sum_probs=39.7
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (772)
..+++|.|+||+|||+.+..++.+++...+.+||..+.-..+- ++..|+.
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 3589999999999999999999998887456999988766444 5555553
No 230
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=95.22 E-value=0.024 Score=53.98 Aligned_cols=22 Identities=41% Similarity=0.732 Sum_probs=19.0
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.||||||||+++..++..+
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 5899999999999887777665
No 231
>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=95.19 E-value=0.028 Score=53.23 Aligned_cols=29 Identities=41% Similarity=0.666 Sum_probs=24.2
Q ss_pred CCeEE-EEccCCCchhhHHHHHHHHHHHcC
Q 004121 405 RPISL-IQGPPGTGKTVTSAAIVYHMAKQG 433 (772)
Q Consensus 405 ~~l~L-IqGPPGTGKT~tla~iI~~L~~~~ 433 (772)
++++| .+||||||||.++-.|+.+|.+.+
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 35544 799999999999999999988875
No 232
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.15 E-value=0.21 Score=56.30 Aligned_cols=58 Identities=28% Similarity=0.435 Sum_probs=42.3
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcH--HHHHHHHHHHHhcCceEEEe
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVVRL 464 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN--~AVD~L~erL~~~~~~vvRl 464 (772)
+.+..|-=|+|||||++.++++|.+.+.+..||+|.+- .|+|+|..--.+.++.++..
T Consensus 102 vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~ 161 (451)
T COG0541 102 VILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGS 161 (451)
T ss_pred EEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecC
Confidence 46779999999999999999999996654455666654 47777766555556655543
No 233
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.14 E-value=0.068 Score=58.97 Aligned_cols=69 Identities=23% Similarity=0.180 Sum_probs=57.4
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHH-HHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
...+.-|++||=.+|...-.+.-+--|+|||-+-+ -|+..|+..+ ....||++||..-+-+|++-....
T Consensus 82 ~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~L 152 (476)
T KOG0330|consen 82 KKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEAL 152 (476)
T ss_pred CCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHh
Confidence 35678999999999999889999999999997754 5666677664 346999999999999999888765
No 234
>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=95.13 E-value=0.026 Score=58.08 Aligned_cols=36 Identities=33% Similarity=0.546 Sum_probs=29.9
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
..+++|.|+||||||+.+..++..+.+.+. ++++.+
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 457899999999999999999988877654 776664
No 235
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.12 E-value=0.069 Score=63.45 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=26.1
Q ss_pred HHHHHHHHhhcC----CeEEEEccCCCchhhHHHHHHHHHH
Q 004121 394 SQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 394 sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
...+.+..++.. ..+|+.||||||||+++..++..+.
T Consensus 23 ~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~ 63 (576)
T PRK14965 23 HVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN 63 (576)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence 334445555432 3578999999999999887777664
No 236
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.11 E-value=0.051 Score=61.91 Aligned_cols=68 Identities=19% Similarity=0.262 Sum_probs=53.8
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhH-HHHHHHHHHHcC-----------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~t-la~iI~~L~~~~-----------~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..++-|+.+|......+=.++.|+-|+|||.. +.=++.++++.+ ..++|++|||+.-|+++.++-.+.
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 46788999988877766678999999999976 345556666542 247999999999999999988764
No 237
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.09 E-value=0.011 Score=66.36 Aligned_cols=24 Identities=42% Similarity=0.578 Sum_probs=20.9
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
+=+|+.||||||||+.+++++.+|
T Consensus 236 RGYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 236 RGYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred ccceeeCCCCCCHHHHHHHHHhhc
Confidence 347999999999999999888765
No 238
>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=95.04 E-value=0.03 Score=61.45 Aligned_cols=40 Identities=20% Similarity=0.259 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.++++-..+|..++. ++..+|.||||||||+++..++..+
T Consensus 48 ~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 48 LFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 578888888887774 6678999999999999887776654
No 239
>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=95.01 E-value=0.016 Score=60.28 Aligned_cols=33 Identities=18% Similarity=0.403 Sum_probs=20.0
Q ss_pred CcEEEEEcCCCCChhh--hhhhhhcCCCeE-EEecCC
Q 004121 552 FRQVLIDESTQATEPE--CLIPLVLGAKQV-VLVGDH 585 (772)
Q Consensus 552 Fd~VIIDEAsQatEpe--~LipL~~~~k~l-ILVGD~ 585 (772)
-++++|||....+..+ .|.|..-. .++ |++|--
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 4678999998888764 67776543 344 666653
No 240
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=95.00 E-value=0.037 Score=60.59 Aligned_cols=41 Identities=29% Similarity=0.497 Sum_probs=29.7
Q ss_pred CHHHHHHHHHhhcC---CeEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 392 N~sQ~~AV~~aL~~---~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
++...+.+..++.. +..++.||||||||+++..++..+...
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 34555555555543 368999999999999998888776543
No 241
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.00 E-value=0.32 Score=57.90 Aligned_cols=65 Identities=15% Similarity=0.098 Sum_probs=52.8
Q ss_pred HHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
-.+.+++-..+....+++..|=|.|||.++..++..++...+.+|+++|+.-..+.++.+++...
T Consensus 175 ~~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~ 239 (752)
T PHA03333 175 LREIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETV 239 (752)
T ss_pred HHHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHH
Confidence 35667777777889999999999999999987766666523469999999999999998887653
No 242
>PRK05642 DNA replication initiation factor; Validated
Probab=94.99 E-value=0.074 Score=55.82 Aligned_cols=35 Identities=14% Similarity=0.293 Sum_probs=27.3
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
+..+|+||+|||||+.+..+..++...+ .+|+.+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~-~~v~y~~ 80 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRG-EPAVYLP 80 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEee
Confidence 4678999999999999888877776554 4666554
No 243
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.97 E-value=0.047 Score=61.09 Aligned_cols=56 Identities=23% Similarity=0.337 Sum_probs=41.1
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcE-EEEcCcH--HHHHHHHHHHHhcCceE
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKV 461 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rI-LV~ApSN--~AVD~L~erL~~~~~~v 461 (772)
..+.+|.||.|+|||||++.++..+...+. +| +|.+.+. .|++++.......++.+
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 457899999999999999999988877654 66 4666555 35777776665554443
No 244
>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=94.96 E-value=0.017 Score=54.93 Aligned_cols=22 Identities=27% Similarity=0.691 Sum_probs=17.7
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
+.++.|||||||||.+..+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~ 22 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKR 22 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999987665543
No 245
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.90 E-value=0.063 Score=60.87 Aligned_cols=36 Identities=22% Similarity=0.326 Sum_probs=26.9
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
.+.+|.||+|+|||||++.++..+....+.+|++++
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit 259 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYT 259 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEec
Confidence 357899999999999999999866433334665444
No 246
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=94.89 E-value=0.034 Score=57.56 Aligned_cols=38 Identities=34% Similarity=0.569 Sum_probs=30.4
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApS 443 (772)
..+++|.||||||||+.+..++...++.+. +++.+..-
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 358999999999999999999988887754 66655443
No 247
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=94.89 E-value=0.038 Score=65.42 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+.+.|.+.+..++. +++.+|.||.|+|||||+..++..+
T Consensus 299 g~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 467888888888765 6899999999999999998877665
No 248
>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=94.89 E-value=0.026 Score=62.65 Aligned_cols=36 Identities=31% Similarity=0.634 Sum_probs=28.5
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
.++.+|.||+|+||||++..++..+.+....+|+..
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti 157 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI 157 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE
Confidence 689999999999999999988877654434466654
No 249
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=94.83 E-value=0.024 Score=52.49 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=19.3
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.|+|||||||++.++...+
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 4799999999999998888776
No 250
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=94.83 E-value=0.15 Score=57.16 Aligned_cols=37 Identities=22% Similarity=0.280 Sum_probs=27.6
Q ss_pred HHHHHHhhcC----CeEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 396 VFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 396 ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
++.+..++.+ ...|+.||+|+||++++..++..|+-.
T Consensus 28 ~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~ 68 (365)
T PRK07471 28 EAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLAT 68 (365)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCC
Confidence 3445555543 258899999999999999888888644
No 251
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=94.77 E-value=0.025 Score=61.20 Aligned_cols=26 Identities=27% Similarity=0.400 Sum_probs=21.3
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
..++.||||||||+++..+...+.+.
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~ 85 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRL 85 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 57899999999999887777666554
No 252
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=94.77 E-value=0.061 Score=60.32 Aligned_cols=47 Identities=19% Similarity=0.333 Sum_probs=33.1
Q ss_pred CCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEE
Q 004121 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLV 439 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV 439 (772)
|.+...+.+.. .+++.+|.||+|+||||++..++.++.... ..+|+.
T Consensus 137 l~~~~~~~l~~--~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 137 IEPDLFNSLLP--AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred CCHHHHHHHHh--cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 33444444332 478999999999999999999988877643 335544
No 253
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.77 E-value=0.045 Score=62.70 Aligned_cols=42 Identities=26% Similarity=0.425 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
.+++.|.+.+..++. .++.|+.||-|+|||||+-.++..+-.
T Consensus 241 g~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~ 284 (500)
T COG2804 241 GMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNT 284 (500)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcC
Confidence 358899999999886 579999999999999999888776644
No 254
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=94.76 E-value=0.065 Score=53.71 Aligned_cols=57 Identities=30% Similarity=0.440 Sum_probs=35.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC--cHHHHHHHHHHHHhcCceEEEecc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP--SNVAVDQLAEKISATGLKVVRLCA 466 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap--SN~AVD~L~erL~~~~~~vvRl~~ 466 (772)
|+++|.|..|+||||++..++. ....+.++.|+.. ....+| .+.+.+.+..++.+.+
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 5789999999999999988887 3334457766643 323333 2344555666766654
No 255
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=94.76 E-value=0.037 Score=60.59 Aligned_cols=48 Identities=23% Similarity=0.428 Sum_probs=30.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (772)
+-.++|||||||||+.+.. +..-.+....+.+-++.||.-+..+..-+
T Consensus 163 pSmIlWGppG~GKTtlArl-ia~tsk~~SyrfvelSAt~a~t~dvR~if 210 (554)
T KOG2028|consen 163 PSMILWGPPGTGKTTLARL-IASTSKKHSYRFVELSATNAKTNDVRDIF 210 (554)
T ss_pred CceEEecCCCCchHHHHHH-HHhhcCCCceEEEEEeccccchHHHHHHH
Confidence 5678899999999985433 33323333345666777777666655444
No 256
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=94.75 E-value=0.083 Score=63.22 Aligned_cols=111 Identities=28% Similarity=0.317 Sum_probs=69.4
Q ss_pred EEEEccC-----CCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh----cCceEEEeccccccccCCchhh
Q 004121 408 SLIQGPP-----GTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA----TGLKVVRLCAKSREAVSSPVEH 478 (772)
Q Consensus 408 ~LIqGPP-----GTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~----~~~~vvRl~~~sre~i~~~~~~ 478 (772)
.|.+|-= |.|||.|++..++..+..+ ..|-|+|++..-+..=++.+.. .|+.+--+....
T Consensus 89 ~Ll~G~VaEM~TGEGKTLvA~l~a~l~AL~G-~~VhvvT~NdyLA~RDae~m~~ly~~LGLsvg~i~~~~---------- 157 (764)
T PRK12326 89 RLLAGDVIEMATGEGKTLAGAIAAAGYALQG-RRVHVITVNDYLARRDAEWMGPLYEALGLTVGWITEES---------- 157 (764)
T ss_pred HHhCCCcccccCCCCHHHHHHHHHHHHHHcC-CCeEEEcCCHHHHHHHHHHHHHHHHhcCCEEEEECCCC----------
Confidence 3456666 9999999887776555554 5999999998877766666543 244433221100
Q ss_pred hhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeecccccCCccccc---------
Q 004121 479 LTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLAN--------- 549 (772)
Q Consensus 479 ~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a~~~~L~~--------- 549 (772)
. . .++.....+||+-+|....|...|+.
T Consensus 158 ----------~----------------------~-----------~err~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~ 194 (764)
T PRK12326 158 ----------T----------------------P-----------EERRAAYACDVTYASVNEIGFDVLRDQLVTDVADL 194 (764)
T ss_pred ----------C----------------------H-----------HHHHHHHcCCCEEcCCcccccccchhhhccChHhh
Confidence 0 0 01122346899999998887666543
Q ss_pred --CCCcEEEEEcCCCCChhhhhhhh
Q 004121 550 --FRFRQVLIDESTQATEPECLIPL 572 (772)
Q Consensus 550 --~~Fd~VIIDEAsQatEpe~LipL 572 (772)
..|.++||||+-.+..-+.-.|+
T Consensus 195 v~R~~~faIVDEvDSiLIDeArtPL 219 (764)
T PRK12326 195 VSPNPDVAIIDEADSVLVDEALVPL 219 (764)
T ss_pred cCCccceeeecchhhheeccccCce
Confidence 25889999998655544433343
No 257
>PF13173 AAA_14: AAA domain
Probab=94.73 E-value=0.052 Score=51.21 Aligned_cols=41 Identities=22% Similarity=0.320 Sum_probs=31.8
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AV 447 (772)
+++.+|.||.|+||||++..++..+. ...+++.+.......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRD 42 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHH
Confidence 56889999999999999988887776 334777776655444
No 258
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=94.63 E-value=0.2 Score=62.47 Aligned_cols=75 Identities=25% Similarity=0.331 Sum_probs=56.7
Q ss_pred CCCCHHHHHHHHHhhc---CC-e--EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHH----HHHHHHhcC
Q 004121 389 PELNASQVFAVKSVLQ---RP-I--SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ----LAEKISATG 458 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~---~~-l--~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~----L~erL~~~~ 458 (772)
..-++.|..||..+.. ++ . =||.|--|-|||-++...+...+..+ ++|.|++||-.-+.+ +.+|+....
T Consensus 593 yeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~G-KQVAvLVPTTlLA~QHy~tFkeRF~~fP 671 (1139)
T COG1197 593 YEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDG-KQVAVLVPTTLLAQQHYETFKERFAGFP 671 (1139)
T ss_pred CcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCC-CeEEEEcccHHhHHHHHHHHHHHhcCCC
Confidence 3678999999998874 22 2 38999999999999988877766665 599999999998865 555555555
Q ss_pred ceEEEe
Q 004121 459 LKVVRL 464 (772)
Q Consensus 459 ~~vvRl 464 (772)
++|-.+
T Consensus 672 V~I~~L 677 (1139)
T COG1197 672 VRIEVL 677 (1139)
T ss_pred eeEEEe
Confidence 554433
No 259
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.63 E-value=0.14 Score=61.65 Aligned_cols=48 Identities=27% Similarity=0.333 Sum_probs=42.2
Q ss_pred EEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
++++.||+|||.+...++...+..++ ++||+.|.-.-+.++.+++.+.
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 44555799999999999999988865 8999999999999999999864
No 260
>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=94.59 E-value=0.055 Score=46.97 Aligned_cols=33 Identities=33% Similarity=0.535 Sum_probs=28.1
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
.++.|.+|+|||+++..++..+.+.+ .+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g-~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRG-KRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEEC
Confidence 57889999999999999999888764 4888776
No 261
>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=94.58 E-value=0.043 Score=59.44 Aligned_cols=24 Identities=42% Similarity=0.627 Sum_probs=19.3
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
+..++.||||||||+++..++..+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 358999999999999887766543
No 262
>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=94.56 E-value=0.07 Score=56.52 Aligned_cols=38 Identities=24% Similarity=0.322 Sum_probs=27.3
Q ss_pred CHHHHHHHHHh---hc--CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 392 NASQVFAVKSV---LQ--RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 392 N~sQ~~AV~~a---L~--~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
...+++|+... +. .++.+|.||||+|||+++..++..+
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l 67 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRL 67 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhc
Confidence 45566666554 22 4588999999999999888776554
No 263
>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=94.51 E-value=0.05 Score=54.88 Aligned_cols=39 Identities=26% Similarity=0.286 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHH
Q 004121 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+++.|.+.+..++. ....+|.||+|+||||++..++..
T Consensus 9 ~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~ 48 (186)
T cd01130 9 TFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAF 48 (186)
T ss_pred CCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhh
Confidence 467889999988886 568899999999999998776644
No 264
>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=94.50 E-value=0.066 Score=58.81 Aligned_cols=39 Identities=26% Similarity=0.358 Sum_probs=31.4
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~ 445 (772)
.+++|.||||||||+.+..++....+.+ ++++....-+.
T Consensus 56 ~iteI~G~~GsGKTtLaL~~~~~~~~~g-~~v~yId~E~~ 94 (321)
T TIGR02012 56 RIIEIYGPESSGKTTLALHAIAEAQKAG-GTAAFIDAEHA 94 (321)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcC-CcEEEEcccch
Confidence 4899999999999999999998888775 47766655443
No 265
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=94.48 E-value=0.052 Score=60.42 Aligned_cols=43 Identities=26% Similarity=0.377 Sum_probs=25.0
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAE 452 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~e 452 (772)
.-++.||||||||||++.. |..-. +..+.-+..+..-+.++.+
T Consensus 49 ~SmIl~GPPG~GKTTlA~l-iA~~~---~~~f~~~sAv~~gvkdlr~ 91 (436)
T COG2256 49 HSMILWGPPGTGKTTLARL-IAGTT---NAAFEALSAVTSGVKDLRE 91 (436)
T ss_pred ceeEEECCCCCCHHHHHHH-HHHhh---CCceEEeccccccHHHHHH
Confidence 4578899999999986543 33322 2344444444444444433
No 266
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=94.47 E-value=0.13 Score=56.90 Aligned_cols=45 Identities=20% Similarity=0.330 Sum_probs=30.6
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhc---CCCeEEEec-CCCCCCccccch
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVG-DHCQLGPVIMCK 595 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~---~~k~lILVG-D~~QLpPvv~s~ 595 (772)
.+++||||||..+++.. .|+...- +...+||+- ++.+|.|+|.|.
T Consensus 106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SR 156 (328)
T PRK05707 106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSR 156 (328)
T ss_pred CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhh
Confidence 58899999999998865 3444332 223556654 556899998764
No 267
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=94.46 E-value=0.36 Score=57.35 Aligned_cols=55 Identities=16% Similarity=0.109 Sum_probs=44.0
Q ss_pred hhcCCeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 402 VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 402 aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
......+++.-|=-.|||..++.++..++.. .+-+|+++|+....++.+.+++..
T Consensus 251 ~fkqk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~ 306 (738)
T PHA03368 251 HFRQRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGA 306 (738)
T ss_pred HhhccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHH
Confidence 3446788888899999999888666655543 566999999999999998888865
No 268
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=94.42 E-value=0.089 Score=58.98 Aligned_cols=64 Identities=23% Similarity=0.272 Sum_probs=44.4
Q ss_pred HHHHHHHHHhhc-------CCeEEEEccCCCchhhHHHHHHHHHHHcCCC--cEEEEcCcHHHHHHHHHHHHh
Q 004121 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG--QVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 393 ~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~--rILV~ApSN~AVD~L~erL~~ 456 (772)
++|.+.+..+|. ....+|.||||||||.|+..+..++...... -+-|=|..+....++..+|..
T Consensus 23 e~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 23 EEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred HHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence 677777776653 2348899999999999999988887665222 255556666666666666654
No 269
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.42 E-value=0.066 Score=61.62 Aligned_cols=53 Identities=28% Similarity=0.486 Sum_probs=40.8
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
..+++|.|+||+|||+.+..++..+.+.+ .+||.++.-. ..+++..|....+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g-~~vlYvs~Ee-s~~qi~~ra~rlg~ 132 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAG-GKVLYVSGEE-SASQIKLRAERLGL 132 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEEccc-cHHHHHHHHHHcCC
Confidence 45889999999999999999998887654 4888887543 45677777665544
No 270
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.39 E-value=0.14 Score=60.10 Aligned_cols=53 Identities=19% Similarity=0.384 Sum_probs=41.1
Q ss_pred cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.+.+.+|.|.-|+||||=+-..++..--...++|.++=|-..|+-.++.|+..
T Consensus 65 ~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAe 117 (674)
T KOG0922|consen 65 DNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAE 117 (674)
T ss_pred HCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHH
Confidence 47899999999999999765544322111234699999999999999999975
No 271
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.37 E-value=0.041 Score=60.19 Aligned_cols=34 Identities=29% Similarity=0.299 Sum_probs=28.2
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
-.+|.||||||||+.+.+++..+++.+. +|+++.
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~g~-~v~~~~ 191 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKKGV-SSTLLH 191 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEEE
Confidence 5789999999999999999999987664 555543
No 272
>PHA00729 NTP-binding motif containing protein
Probab=94.35 E-value=0.033 Score=58.05 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=20.9
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
..+|.|+||||||+.+..++..+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 578999999999999988887664
No 273
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.35 E-value=0.067 Score=62.60 Aligned_cols=54 Identities=26% Similarity=0.409 Sum_probs=43.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
..+++|.||||||||+.+..++...++.+. ++++++.... .+++.+++...|++
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 457899999999999999999988887764 8888887654 67788887766543
No 274
>CHL00181 cbbX CbbX; Provisional
Probab=94.34 E-value=0.036 Score=60.03 Aligned_cols=26 Identities=31% Similarity=0.394 Sum_probs=21.0
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
..++.||||||||+++..++..+...
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 37899999999999988777666544
No 275
>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=94.33 E-value=0.1 Score=57.48 Aligned_cols=40 Identities=25% Similarity=0.293 Sum_probs=32.0
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~ 445 (772)
..++.|.||||||||+.+..++....+.+. +++.+..-+.
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 348999999999999999999988887754 7776665443
No 276
>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=94.30 E-value=0.23 Score=59.31 Aligned_cols=48 Identities=25% Similarity=0.458 Sum_probs=39.9
Q ss_pred hcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 403 LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 403 L~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
|.-..+||.|-+|+|||+-+..+...| .-||++.|.+|+.||-.+|..
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 434568999999999999887665443 689999999999999999973
No 277
>PRK04195 replication factor C large subunit; Provisional
Probab=94.29 E-value=0.05 Score=63.27 Aligned_cols=39 Identities=26% Similarity=0.405 Sum_probs=27.4
Q ss_pred CCHHHHHHHHHhhc-------CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 391 LNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 391 LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.++.+.+.+...+. .+..||.||||||||+++..++..+
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 34555555555442 4578999999999999887776554
No 278
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=94.28 E-value=0.1 Score=67.62 Aligned_cols=47 Identities=17% Similarity=0.399 Sum_probs=36.2
Q ss_pred EEccCCCchhhHHHH-HHHHHHHcC-----------CCcEEEEcCcHHHHHHHHHHHHh
Q 004121 410 IQGPPGTGKTVTSAA-IVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 410 IqGPPGTGKT~tla~-iI~~L~~~~-----------~~rILV~ApSN~AVD~L~erL~~ 456 (772)
|.+|.|||||.+..- ++..+++.+ ..++|+++|+..-+.++.++|..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 568999999998654 555665431 35799999999999888888753
No 279
>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=94.26 E-value=0.07 Score=44.92 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=19.1
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
..|.|+||+|||+.+..+...+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 4689999999999988888776
No 280
>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=94.26 E-value=0.077 Score=59.59 Aligned_cols=52 Identities=29% Similarity=0.502 Sum_probs=40.0
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
..+++|.|+||+|||+.+..++..+.+.+ .+||.++... ..+++..|....+
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g-~~VlYvs~EE-s~~qi~~Ra~rlg 133 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRG-GKVLYVSGEE-SPEQIKLRADRLG 133 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEECCc-CHHHHHHHHHHcC
Confidence 45889999999999999999998887765 4888877643 3566776665443
No 281
>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=94.25 E-value=0.05 Score=58.04 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=32.4
Q ss_pred HHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
...+.+..++. ++..+|.||+||||||++..++..+-.. ..+|+++-
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 33444444432 6789999999999999998887655443 34666654
No 282
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.14 E-value=0.059 Score=65.44 Aligned_cols=39 Identities=31% Similarity=0.492 Sum_probs=29.2
Q ss_pred HHHHHHHHHhhc--------CCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 393 ASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 393 ~sQ~~AV~~aL~--------~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
+.|.+.|...|. ..+.+|.|+||||||.|+..++..|..
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 577777766653 124569999999999999988877643
No 283
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.14 E-value=0.3 Score=52.49 Aligned_cols=53 Identities=25% Similarity=0.376 Sum_probs=36.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC-cH--HHHHHHHHHHHhcCc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP-SN--VAVDQLAEKISATGL 459 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap-SN--~AVD~L~erL~~~~~ 459 (772)
+..++.||+|+|||+++..+...+...+ .+|.+++. +. .+++++.......++
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~-~~v~~i~~D~~ri~~~~ql~~~~~~~~~ 131 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQFHGKK-KTVGFITTDHSRIGTVQQLQDYVKTIGF 131 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHHHHcC-CeEEEEecCCCCHHHHHHHHHHhhhcCc
Confidence 5789999999999999998888776554 36654443 43 366666655444433
No 284
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.14 E-value=0.16 Score=62.49 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=20.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+|++||+|+|||+++..++..|.
T Consensus 39 a~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 39 AYLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhC
Confidence 478999999999999888777664
No 285
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=94.13 E-value=0.12 Score=63.33 Aligned_cols=64 Identities=17% Similarity=0.301 Sum_probs=50.7
Q ss_pred HHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..+..|..++. ++..+|.||+|+||||-+-..++..--.+.++|.++=|-..|+-.+++|+.+.
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 34555666664 78999999999999998877666544344568999999999999999999763
No 286
>PRK06851 hypothetical protein; Provisional
Probab=94.10 E-value=0.059 Score=60.21 Aligned_cols=45 Identities=24% Similarity=0.422 Sum_probs=33.3
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcE--EEEcCcHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV--LVCAPSNVAVDQL 450 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rI--LV~ApSN~AVD~L 450 (772)
...++|.||||||||+++..++..+.+++. +| .-|+.-+..+|-+
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~-~v~~~hC~~dPdslD~v 260 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGF-DVEVYHCGFDPDSLDMV 260 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCC-eEEEEeCCCCCCCcceE
Confidence 578999999999999999999998888764 43 3344444444443
No 287
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=94.09 E-value=0.039 Score=54.32 Aligned_cols=22 Identities=36% Similarity=0.650 Sum_probs=18.5
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
..|.|||||||||++..++.++
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999988777654
No 288
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.09 E-value=0.083 Score=61.83 Aligned_cols=55 Identities=16% Similarity=0.257 Sum_probs=43.2
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~ 460 (772)
..+++|.|+||||||+.+..+++..+++.+.++|.++... ..+++.+++...+.+
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 4688999999999999999998887776345888887655 566777777776654
No 289
>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=94.08 E-value=0.065 Score=53.52 Aligned_cols=46 Identities=26% Similarity=0.359 Sum_probs=35.2
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+++|.||||||||+.+..++.. . ..+++.++-....-+++.+|+..
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 4789999999999988777654 3 35888887776666778888754
No 290
>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=94.08 E-value=0.093 Score=58.64 Aligned_cols=29 Identities=38% Similarity=0.578 Sum_probs=25.4
Q ss_pred cCCeEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
.+++.+|.||.|+||||++..++..+...
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~ 161 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEA 161 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence 36899999999999999999988877654
No 291
>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=94.05 E-value=0.19 Score=52.21 Aligned_cols=35 Identities=31% Similarity=0.354 Sum_probs=27.3
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~A 441 (772)
..+|+||+|+|||+.+.++...+.+. ++.+|+.+.
T Consensus 36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred ceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 57899999999999999998888765 445666554
No 292
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=94.03 E-value=0.17 Score=58.41 Aligned_cols=37 Identities=24% Similarity=0.227 Sum_probs=28.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~Ap 442 (772)
+..+|.||||||||+.+..+...+.+.. ..+|+.+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 3578999999999999999888887763 446665543
No 293
>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=94.00 E-value=0.041 Score=54.87 Aligned_cols=22 Identities=36% Similarity=0.652 Sum_probs=18.0
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
+.+|.|||||||||.+..++..
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~ 22 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVEN 22 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 3689999999999987776654
No 294
>PF12846 AAA_10: AAA-like domain
Probab=93.98 E-value=0.071 Score=56.81 Aligned_cols=57 Identities=25% Similarity=0.423 Sum_probs=42.0
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEecc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~ 466 (772)
++.++|.|++|+|||+++..++.+++..+. +|++.=+...-.+ +++. .+..++.+..
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 467899999999999999999999988875 8888877654444 3332 4555665543
No 295
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=93.97 E-value=0.067 Score=58.94 Aligned_cols=24 Identities=42% Similarity=0.649 Sum_probs=19.8
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
+..+|.||||||||+++..++..+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 468999999999999887666554
No 296
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.96 E-value=0.47 Score=52.71 Aligned_cols=57 Identities=30% Similarity=0.465 Sum_probs=45.4
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHH--HHHHHHHHHHhcCceEE
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV--AVDQLAEKISATGLKVV 462 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~--AVD~L~erL~~~~~~vv 462 (772)
.+.++.|--|+|||||+..+++++-+.+.+.-||||.|=. |.|+|..--.+.+++++
T Consensus 102 sVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~y 160 (483)
T KOG0780|consen 102 SVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFY 160 (483)
T ss_pred cEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeE
Confidence 3678899999999999999999999888877899998866 56777665555555544
No 297
>PRK13768 GTPase; Provisional
Probab=93.93 E-value=0.069 Score=56.77 Aligned_cols=34 Identities=29% Similarity=0.488 Sum_probs=28.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
..+|.||+|+||||++..++..+...+. +|+++.
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~-~v~~i~ 37 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGY-DVAIVN 37 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCC-ceEEEE
Confidence 5689999999999999999988877654 777763
No 298
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.91 E-value=0.14 Score=55.89 Aligned_cols=39 Identities=31% Similarity=0.453 Sum_probs=27.1
Q ss_pred CCHHHHHHHHHhhcC----CeEEEEccCCCchhhHHHHHHHHH
Q 004121 391 LNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 391 LN~sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.++...+.+...+.+ .+.++.||||||||+.+..+..++
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV 67 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence 455666666655532 356779999999999877776554
No 299
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=93.90 E-value=0.86 Score=55.13 Aligned_cols=67 Identities=19% Similarity=0.237 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHhh---c--CCeEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEcCcHHHHHHHHHHHHh
Q 004121 390 ELNASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL---~--~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.+++.|.+|+.... . ....+|.+.=|=|||..+--.++.+.... ..+|+|+|||-.||..+.+.+.+
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 46788888776543 2 34889999999999998874444444443 35999999999999999987754
No 300
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=93.87 E-value=0.063 Score=58.94 Aligned_cols=20 Identities=50% Similarity=0.878 Sum_probs=16.0
Q ss_pred EEEEccCCCchhhHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVY 427 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~ 427 (772)
+|+.||||||||..+.+.+.
T Consensus 188 VLLYGPPGTGKTLLAkAVA~ 207 (406)
T COG1222 188 VLLYGPPGTGKTLLAKAVAN 207 (406)
T ss_pred eEeeCCCCCcHHHHHHHHHh
Confidence 68999999999986655443
No 301
>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=93.82 E-value=0.051 Score=54.15 Aligned_cols=25 Identities=36% Similarity=0.509 Sum_probs=20.7
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
-++.+|.||||+||||++..++..+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 3678999999999999887777543
No 302
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=93.80 E-value=0.053 Score=49.68 Aligned_cols=24 Identities=33% Similarity=0.657 Sum_probs=20.9
Q ss_pred EEEccCCCchhhHHHHHHHHHHHc
Q 004121 409 LIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
.|.||||+|||+.+..++..+++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKH 25 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHH
Confidence 689999999999998888887754
No 303
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=93.79 E-value=0.068 Score=59.76 Aligned_cols=23 Identities=43% Similarity=0.684 Sum_probs=18.6
Q ss_pred eEEEEccCCCchhhHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L 429 (772)
-.+|.||||||||+++..++..+
T Consensus 158 gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHhC
Confidence 37899999999999877766543
No 304
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=93.76 E-value=0.08 Score=60.47 Aligned_cols=40 Identities=25% Similarity=0.527 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHhh-cCCeEEEEccCCCchhhHHHHHHHHHH
Q 004121 391 LNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 391 LN~sQ~~AV~~aL-~~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
..+...+.+..++ ..+..++.||||||||+++..+...+.
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 467889999999999998877665553
No 305
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=93.75 E-value=0.078 Score=59.97 Aligned_cols=22 Identities=45% Similarity=0.724 Sum_probs=18.2
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
-.|+.||||||||+++.+++..
T Consensus 167 gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred ceEEECCCCCChHHHHHHHHHH
Confidence 3789999999999987776654
No 306
>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=93.71 E-value=0.068 Score=56.63 Aligned_cols=34 Identities=35% Similarity=0.644 Sum_probs=25.4
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
..=|.||||.||+|.+.+++..+.+.+. +|-|+|
T Consensus 31 ~iGiTG~PGaGKSTli~~l~~~~~~~g~-~VaVlA 64 (266)
T PF03308_consen 31 VIGITGPPGAGKSTLIDALIRELRERGK-RVAVLA 64 (266)
T ss_dssp EEEEEE-TTSSHHHHHHHHHHHHHHTT---EEEEE
T ss_pred EEEeeCCCCCcHHHHHHHHHHHHhhcCC-ceEEEE
Confidence 3448999999999999999999988754 765554
No 307
>PRK13531 regulatory ATPase RavA; Provisional
Probab=93.71 E-value=0.082 Score=60.92 Aligned_cols=30 Identities=20% Similarity=0.482 Sum_probs=24.0
Q ss_pred HHhhcCCeEEEEccCCCchhhHHHHHHHHH
Q 004121 400 KSVLQRPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 400 ~~aL~~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
..++.++..+|.||||||||+++..+...+
T Consensus 34 ~aalag~hVLL~GpPGTGKT~LAraLa~~~ 63 (498)
T PRK13531 34 LAALSGESVFLLGPPGIAKSLIARRLKFAF 63 (498)
T ss_pred HHHccCCCEEEECCCChhHHHHHHHHHHHh
Confidence 344568899999999999999887766654
No 308
>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=93.69 E-value=0.12 Score=59.70 Aligned_cols=53 Identities=26% Similarity=0.416 Sum_probs=40.7
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
..+++|.|+||+|||+.+..++..+.+.+ .+||.++.-. ..+++..|....++
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g-~kvlYvs~EE-s~~qi~~ra~rlg~ 146 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQ-MKVLYVSGEE-SLQQIKMRAIRLGL 146 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcC-CcEEEEECcC-CHHHHHHHHHHcCC
Confidence 46889999999999999999998888765 4888777643 45677776655443
No 309
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.61 E-value=0.31 Score=55.35 Aligned_cols=46 Identities=35% Similarity=0.449 Sum_probs=34.6
Q ss_pred CCe-EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC---cHHHHHHHH
Q 004121 405 RPI-SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP---SNVAVDQLA 451 (772)
Q Consensus 405 ~~l-~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap---SN~AVD~L~ 451 (772)
+|+ +.+.|-.|-||+|.++.|.+.|+.++ -|||+.|= ---||++|.
T Consensus 377 rPYVi~fvGVNGVGKSTNLAKIayWLlqNk-frVLIAACDTFRsGAvEQLr 426 (587)
T KOG0781|consen 377 RPYVISFVGVNGVGKSTNLAKIAYWLLQNK-FRVLIAACDTFRSGAVEQLR 426 (587)
T ss_pred CCeEEEEEeecCccccchHHHHHHHHHhCC-ceEEEEeccchhhhHHHHHH
Confidence 344 45699999999999999999888875 49887752 334666664
No 310
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=93.56 E-value=0.081 Score=61.64 Aligned_cols=24 Identities=42% Similarity=0.707 Sum_probs=19.9
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
-.|+.||||||||+++..++..+.
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhhc
Confidence 478999999999998877776653
No 311
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=93.56 E-value=0.07 Score=53.20 Aligned_cols=25 Identities=36% Similarity=0.689 Sum_probs=20.7
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHc
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
.+|.|+||+||||.+..++..+.+.
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 5899999999999999988777654
No 312
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=93.54 E-value=0.21 Score=57.43 Aligned_cols=36 Identities=22% Similarity=0.171 Sum_probs=28.8
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (772)
..+|.||||+|||+.+..+...+.+. +..+|+.+..
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 57999999999999998888887765 3457776653
No 313
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=93.52 E-value=1 Score=51.62 Aligned_cols=65 Identities=20% Similarity=0.354 Sum_probs=45.6
Q ss_pred CCHHHHHH---HHHhhc-CCeEEEEccCCCchhhHHHHHHHH-HHHcC--CCcEEEEcCcHHHHHHHHHHHH
Q 004121 391 LNASQVFA---VKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH-MAKQG--QGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 391 LN~sQ~~A---V~~aL~-~~l~LIqGPPGTGKT~tla~iI~~-L~~~~--~~rILV~ApSN~AVD~L~erL~ 455 (772)
.-++|.+. ++.+|. .+..|+.=|.|||||..+..++.. .+..+ ..+++.|+.|-.-++..++.|.
T Consensus 17 iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~ 88 (755)
T KOG1131|consen 17 IYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELK 88 (755)
T ss_pred cCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHH
Confidence 34567544 455664 689999999999999998765533 33333 4589999999877766665543
No 314
>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=93.52 E-value=0.086 Score=54.18 Aligned_cols=34 Identities=29% Similarity=0.389 Sum_probs=21.8
Q ss_pred HHHHHHHHHhh-cCCeEEEEccCCCchhhHHHHHH
Q 004121 393 ASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIV 426 (772)
Q Consensus 393 ~sQ~~AV~~aL-~~~l~LIqGPPGTGKT~tla~iI 426 (772)
+.-++|+.-+. ...-.|+.||||||||+.+..+.
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~ 43 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLP 43 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHH
Confidence 44556665544 45678999999999999765544
No 315
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.52 E-value=0.12 Score=60.51 Aligned_cols=56 Identities=25% Similarity=0.456 Sum_probs=41.5
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHH-HHcCCCcEEEEcCcHHHHHHHHHHHHh-cCce
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHM-AKQGQGQVLVCAPSNVAVDQLAEKISA-TGLK 460 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L-~~~~~~rILV~ApSN~AVD~L~erL~~-~~~~ 460 (772)
+.+.+|.|-+|+||||-+=.-++.- +..++++|-++-|-.+|+--++.|+.+ .|++
T Consensus 280 ~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~EMgvk 337 (902)
T KOG0923|consen 280 HQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEEMGVK 337 (902)
T ss_pred CcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHHhCcc
Confidence 6899999999999999764433221 222444699999999999999999975 3443
No 316
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=93.51 E-value=0.11 Score=50.34 Aligned_cols=36 Identities=25% Similarity=0.504 Sum_probs=27.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
+...|.||.||||||.+..++..|.+++. +|.++-.
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~-~v~~ik~ 36 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGY-RVAVIKH 36 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEE
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCC-ceEEEEE
Confidence 46789999999999999999999988764 6665433
No 317
>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=93.46 E-value=0.14 Score=58.14 Aligned_cols=35 Identities=26% Similarity=0.266 Sum_probs=27.9
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcC-CCcEEEEc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~A 441 (772)
..+|.||||||||+.+.++...+.+.. +.+|+.+.
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 578999999999999988888877653 44676664
No 318
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=93.43 E-value=0.096 Score=60.00 Aligned_cols=23 Identities=39% Similarity=0.678 Sum_probs=18.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L 429 (772)
-.|+.||||||||+++..++..+
T Consensus 219 gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 219 GVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 47899999999999887766543
No 319
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=93.38 E-value=0.26 Score=51.97 Aligned_cols=60 Identities=22% Similarity=0.351 Sum_probs=40.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcH-HHHHHHHHHHHhcCceEEEec
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN-VAVDQLAEKISATGLKVVRLC 465 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN-~AVD~L~erL~~~~~~vvRl~ 465 (772)
...+|++|+.|||||.++.+++......+ -|++=+.... .....|.+.|.....+++-++
T Consensus 52 annvLL~G~rGtGKSSlVkall~~y~~~G-LRlIev~k~~L~~l~~l~~~l~~~~~kFIlf~ 112 (249)
T PF05673_consen 52 ANNVLLWGARGTGKSSLVKALLNEYADQG-LRLIEVSKEDLGDLPELLDLLRDRPYKFILFC 112 (249)
T ss_pred CcceEEecCCCCCHHHHHHHHHHHHhhcC-ceEEEECHHHhccHHHHHHHHhcCCCCEEEEe
Confidence 34689999999999999988887777665 3655444443 345566666665555555443
No 320
>PRK08233 hypothetical protein; Provisional
Probab=93.33 E-value=0.058 Score=53.47 Aligned_cols=24 Identities=25% Similarity=0.343 Sum_probs=19.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+..|.|+||+||||.+..++.++
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 467889999999999887777654
No 321
>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=93.32 E-value=0.12 Score=54.16 Aligned_cols=50 Identities=22% Similarity=0.385 Sum_probs=36.9
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHH-----------cCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAK-----------QGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~-----------~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+.+|.||||+|||+.+..++..+.. ....+||+.+-=+. .+++.+|+...
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~-~~~i~~Rl~~i 63 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDP-REEIHRRLEAI 63 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCC-HHHHHHHHHHH
Confidence 6799999999999999988877653 13457888875443 35677777654
No 322
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.32 E-value=0.11 Score=56.25 Aligned_cols=38 Identities=37% Similarity=0.556 Sum_probs=28.0
Q ss_pred HHHHHHHHHhhcC---CeEEEEccCCCchhhHHHHHHHHHH
Q 004121 393 ASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 393 ~sQ~~AV~~aL~~---~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
+.+.+.+...+.. +..+|.||||||||+++..++..+.
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~ 63 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY 63 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence 4455566655542 4579999999999999888777664
No 323
>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=93.31 E-value=0.1 Score=56.83 Aligned_cols=36 Identities=31% Similarity=0.399 Sum_probs=29.2
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
..+..|.||||+|||+++..++..+.+.+ .+|.+++
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~~-~~v~~i~ 69 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELRRRG-LKVAVIA 69 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEEe
Confidence 35778899999999999999998877764 4777655
No 324
>PRK09354 recA recombinase A; Provisional
Probab=93.30 E-value=0.19 Score=55.79 Aligned_cols=39 Identities=23% Similarity=0.300 Sum_probs=31.1
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~ 445 (772)
.++.|.||||||||+.+..++....+.+. +++.+..-+.
T Consensus 61 ~IteI~G~~GsGKTtLal~~~~~~~~~G~-~~~yId~E~s 99 (349)
T PRK09354 61 RIVEIYGPESSGKTTLALHAIAEAQKAGG-TAAFIDAEHA 99 (349)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEECCccc
Confidence 48999999999999999999888877754 6666655443
No 325
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=93.28 E-value=0.09 Score=43.64 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=22.5
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
+.++|.||.|+||||++-++...|.-
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 38999999999999999888877654
No 326
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=93.27 E-value=0.39 Score=52.83 Aligned_cols=45 Identities=13% Similarity=0.220 Sum_probs=32.3
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhc---CCCeEEEecC-CCCCCccccch
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVGD-HCQLGPVIMCK 595 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~---~~k~lILVGD-~~QLpPvv~s~ 595 (772)
.+++||||+|..+++.. .|+-..- ....+||+.+ +.+|.|+|.|.
T Consensus 113 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSR 163 (319)
T PRK08769 113 IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSR 163 (319)
T ss_pred CcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhh
Confidence 57899999999999865 3433332 2346888887 56799998764
No 327
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=93.27 E-value=0.078 Score=54.18 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=23.9
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (772)
++.++.|+||+|||+.+.+++..|-+..
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i 29 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEI 29 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence 5789999999999999999988776553
No 328
>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=93.26 E-value=0.062 Score=51.79 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=18.2
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
+.+|.|+||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4689999999999988776654
No 329
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.25 E-value=0.15 Score=61.95 Aligned_cols=56 Identities=29% Similarity=0.384 Sum_probs=40.0
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHH-HcCCCcEEE-EcCcHH--HHHHHHHHHHhcCceE
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLV-CAPSNV--AVDQLAEKISATGLKV 461 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~-~~~~~rILV-~ApSN~--AVD~L~erL~~~~~~v 461 (772)
.++++.||.|+|||||++.+...+. ..+..+|.+ .+.+-. |++++...-...++.+
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv 245 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPV 245 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCc
Confidence 4789999999999999999998774 444457754 444544 7777776555555544
No 330
>PRK13342 recombination factor protein RarA; Reviewed
Probab=93.24 E-value=0.13 Score=58.59 Aligned_cols=23 Identities=39% Similarity=0.595 Sum_probs=18.4
Q ss_pred CeEEEEccCCCchhhHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
+..+++||||||||+++..+...
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~ 59 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGA 59 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 46788999999999987666543
No 331
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=93.23 E-value=0.18 Score=57.89 Aligned_cols=61 Identities=25% Similarity=0.287 Sum_probs=50.5
Q ss_pred HHHHHHHHHhhc-----CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 393 ASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 393 ~sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
-.|-+||+.... ...-.+.|--|||||+|++.+|..+ +.+-||+|+...-+-+|..-+.+.
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 357888887653 3467889999999999999988765 358999999999999999988775
No 332
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=93.19 E-value=0.31 Score=59.52 Aligned_cols=68 Identities=19% Similarity=0.330 Sum_probs=56.2
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHH-HHHHHHHHcC-C-----CcEEEEcCcHHHHHHHHHHHHh
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG-Q-----GQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~~-~-----~rILV~ApSN~AVD~L~erL~~ 456 (772)
..+++-|+.|+..++....+||.+|-|||||-++. -++..|++.+ . -.+|.++|=.+-...+..||..
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 46899999999999988899999999999998875 4555667662 1 2479999999988888888864
No 333
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.18 E-value=0.088 Score=60.98 Aligned_cols=24 Identities=29% Similarity=0.534 Sum_probs=19.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+|++||||||||+++..++..+.
T Consensus 38 ~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 38 AYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 368999999999998877766653
No 334
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.17 E-value=0.11 Score=60.20 Aligned_cols=36 Identities=28% Similarity=0.466 Sum_probs=28.2
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHH-cCCCcEEEEc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVCA 441 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~-~~~~rILV~A 441 (772)
.++++.||.|+|||||++.+...+.. .+..+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 47889999999999999999987754 3444675544
No 335
>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=93.16 E-value=0.14 Score=52.90 Aligned_cols=40 Identities=25% Similarity=0.331 Sum_probs=30.2
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcC-----CCcEEEEcCcH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~-----~~rILV~ApSN 444 (772)
..++.|.||||+|||+.+..++...+..+ ..+++..+..+
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 46899999999999999999888766554 14666555443
No 336
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=93.12 E-value=2.9 Score=51.92 Aligned_cols=58 Identities=26% Similarity=0.485 Sum_probs=46.0
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHH---HHHHHHHhcC---ceEEEec
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATG---LKVVRLC 465 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD---~L~erL~~~~---~~vvRl~ 465 (772)
+-+|-|-.|||||+.+.+-+...++.+ .+|..++|+-..-. ++++++...| +.|+|+.
T Consensus 3 m~~lyg~~gtgkT~~l~~e~~~~~~~g-kpviyIvP~q~sFe~E~~~L~~~~~~g~~~i~V~~F~ 66 (1108)
T COG3857 3 MQLLYGRAGTGKTEILTEEIQEELEKG-KPVIYIVPSQMSFEKEKEILERLRQGGSFRIQVTRFK 66 (1108)
T ss_pred eeeehhhccccHHHHHHHHHHHHHHcC-CcEEEEcccchhHHHHHHHHhCcccCCeeeEEEEEHH
Confidence 357899999999999999998888887 59999999887654 6777777666 4555553
No 337
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.11 E-value=0.29 Score=56.13 Aligned_cols=69 Identities=22% Similarity=0.257 Sum_probs=52.9
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHH-HHHHHHHHHcCC-------CcEEEEcCcHHHHHHHHHHHHhc
Q 004121 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQ-------GQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~~~~-------~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..++.-|+++|=..|...=++|.++-|||||-.= .-+|..|.++.. .=-||++||..-+-++.+-+.+.
T Consensus 158 ~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKL 234 (708)
T KOG0348|consen 158 SAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKL 234 (708)
T ss_pred CccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHH
Confidence 3567889999999998888999999999999763 345555555421 12599999999998888776654
No 338
>PRK08118 topology modulation protein; Reviewed
Probab=93.09 E-value=0.075 Score=52.82 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=16.8
Q ss_pred EEEEccCCCchhhHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+|.||||+||||.+..+...
T Consensus 4 I~I~G~~GsGKSTlak~L~~~ 24 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEK 24 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999876665544
No 339
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.07 E-value=0.028 Score=62.12 Aligned_cols=47 Identities=38% Similarity=0.533 Sum_probs=31.6
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEE
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvR 463 (772)
+|..||||||||..+.+++.. .+ +++-|+..-.|..+.....-++||
T Consensus 248 vLm~GPPGTGKTlLAKAvATE---c~------tTFFNVSsstltSKwRGeSEKlvR 294 (491)
T KOG0738|consen 248 VLMVGPPGTGKTLLAKAVATE---CG------TTFFNVSSSTLTSKWRGESEKLVR 294 (491)
T ss_pred eeeeCCCCCcHHHHHHHHHHh---hc------CeEEEechhhhhhhhccchHHHHH
Confidence 688999999999866554432 22 677788777777766543333333
No 340
>PRK05541 adenylylsulfate kinase; Provisional
Probab=93.05 E-value=0.13 Score=51.22 Aligned_cols=29 Identities=24% Similarity=0.307 Sum_probs=23.3
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~ 434 (772)
.+.++.|+||+||||++..+...+...+.
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l~~~~~ 36 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLKLKYS 36 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 47789999999999999888877755443
No 341
>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=93.04 E-value=0.13 Score=50.50 Aligned_cols=35 Identities=26% Similarity=0.324 Sum_probs=28.8
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCc
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApS 443 (772)
..|.|++|+|||+++..++..|..++ .+|.++-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G-~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARG-YRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEecc
Confidence 56889999999999999999887654 488877654
No 342
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=92.98 E-value=0.11 Score=59.41 Aligned_cols=25 Identities=40% Similarity=0.695 Sum_probs=21.5
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHc
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
+.|.|||||||||.+..+|..+.+.
T Consensus 72 vavvGPpGtGKsTLirSlVrr~tk~ 96 (1077)
T COG5192 72 VAVVGPPGTGKSTLIRSLVRRFTKQ 96 (1077)
T ss_pred EEeecCCCCChhHHHHHHHHHHHHh
Confidence 4589999999999999999887654
No 343
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.97 E-value=0.1 Score=58.39 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=20.0
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
..++.||||||||+++-.++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 468999999999998877776654
No 344
>PRK00131 aroK shikimate kinase; Reviewed
Probab=92.95 E-value=0.091 Score=51.48 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.7
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
....+|.||||||||+++..+...+
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 3467899999999999888777665
No 345
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=92.92 E-value=0.12 Score=51.67 Aligned_cols=46 Identities=24% Similarity=0.294 Sum_probs=33.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..+|.||||||||+.+..++..+ +.+++.++.....-+++.+|+..
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~----~~~~~~iat~~~~~~e~~~ri~~ 48 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS----GLQVLYIATAQPFDDEMAARIAH 48 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc----CCCcEeCcCCCCChHHHHHHHHH
Confidence 57999999999999877665442 23666666656666778888754
No 346
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=92.90 E-value=0.13 Score=57.72 Aligned_cols=37 Identities=24% Similarity=0.407 Sum_probs=29.8
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHH-HcCCCcEEEEc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCA 441 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~-~~~~~rILV~A 441 (772)
.++..+.||-|.|||||+|.++++.. ..+..+|-+++
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT 240 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT 240 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE
Confidence 57899999999999999999998877 44555775544
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=92.90 E-value=0.14 Score=49.83 Aligned_cols=33 Identities=33% Similarity=0.483 Sum_probs=27.0
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
..+.|++|+|||+++..+...+...+ .+++++.
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g-~~v~ii~ 34 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARG-KRVAVLA 34 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCC-CEEEEEE
Confidence 46789999999999999988887765 4777665
No 348
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=92.89 E-value=0.5 Score=56.39 Aligned_cols=147 Identities=22% Similarity=0.301 Sum_probs=91.7
Q ss_pred CCCHHHHHHHHHhhc---CCeE-EEEccCCCchhhHHHHHHHHHHH-c-CCCcEEEEcCcHHHHHHHHHHHHhc--CceE
Q 004121 390 ELNASQVFAVKSVLQ---RPIS-LIQGPPGTGKTVTSAAIVYHMAK-Q-GQGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~l~-LIqGPPGTGKT~tla~iI~~L~~-~-~~~rILV~ApSN~AVD~L~erL~~~--~~~v 461 (772)
.|-+.|.+-+.-..+ +++- ++---=|=|||.-...++.+|.. . -.++-||++|-- ..+|....+.+. ++++
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~S-tL~NW~~Ef~rf~P~l~~ 245 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKS-TLDNWMNEFKRFTPSLNV 245 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHh-hHHHHHHHHHHhCCCcce
Confidence 466778777766543 5543 44556799999766666666644 2 357999999953 456666666554 3455
Q ss_pred EEeccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhh--cccceeecc
Q 004121 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQ--SADVICCTC 539 (772)
Q Consensus 462 vRl~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~--~a~VI~~T~ 539 (772)
+.+.+...+ .. ...+.++. ..+|+++|.
T Consensus 246 ~~~~Gdk~e-------------------------R~-------------------------~~~r~~~~~~~fdV~iTsY 275 (971)
T KOG0385|consen 246 VVYHGDKEE-------------------------RA-------------------------ALRRDIMLPGRFDVCITSY 275 (971)
T ss_pred EEEeCCHHH-------------------------HH-------------------------HHHHHhhccCCCceEeehH
Confidence 555432110 00 01111121 456777665
Q ss_pred cccCC--cccccCCCcEEEEEcCCCCChhhhhhhhh----cCCCeEEEecCCCC
Q 004121 540 VGAGD--PRLANFRFRQVLIDESTQATEPECLIPLV----LGAKQVVLVGDHCQ 587 (772)
Q Consensus 540 ~~a~~--~~L~~~~Fd~VIIDEAsQatEpe~LipL~----~~~k~lILVGD~~Q 587 (772)
-.+-. ..|..+.+.++|||||..+--..+++.-. ....++.|.|=|-|
T Consensus 276 Ei~i~dk~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQ 329 (971)
T KOG0385|consen 276 EIAIKDKSFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQ 329 (971)
T ss_pred HHHHhhHHHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCccc
Confidence 54433 34788899999999999988777554322 24579999999999
No 349
>PRK14530 adenylate kinase; Provisional
Probab=92.83 E-value=0.093 Score=54.10 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=19.9
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+..+|.||||+||||.+..++..+
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHh
Confidence 3567899999999999887776543
No 350
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=92.82 E-value=0.14 Score=56.71 Aligned_cols=35 Identities=37% Similarity=0.446 Sum_probs=28.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
..-|.||||+||||++..++..+...+ .+|.|++-
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g-~~v~vi~~ 92 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQG-HKVAVLAV 92 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEEEe
Confidence 567999999999999999988887664 47766654
No 351
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=92.78 E-value=0.13 Score=60.17 Aligned_cols=24 Identities=38% Similarity=0.639 Sum_probs=20.3
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+.|+.||||+|||+|+..++..|
T Consensus 46 ~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 46 RILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 578999999999999987766654
No 352
>PRK03839 putative kinase; Provisional
Probab=92.76 E-value=0.092 Score=52.37 Aligned_cols=22 Identities=36% Similarity=0.582 Sum_probs=17.7
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.|+||+||||++..++..+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999876666543
No 353
>PTZ00301 uridine kinase; Provisional
Probab=92.73 E-value=0.15 Score=52.69 Aligned_cols=27 Identities=30% Similarity=0.457 Sum_probs=22.4
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
-+..|.||||+||||.+..++.+|...
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~~ 30 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMAH 30 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence 367799999999999998888777554
No 354
>PRK14531 adenylate kinase; Provisional
Probab=92.70 E-value=0.093 Score=52.73 Aligned_cols=22 Identities=36% Similarity=0.596 Sum_probs=18.1
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
-.+|.|||||||||.+..++..
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~ 25 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAA 25 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4689999999999987766554
No 355
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=92.70 E-value=0.31 Score=56.13 Aligned_cols=36 Identities=31% Similarity=0.466 Sum_probs=28.9
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
...+|.||||+|||+.+..+...+...+ .+|+.+..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~-~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESG-GKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcC-CCEEEeeH
Confidence 3578999999999999998888877654 57877653
No 356
>PRK06762 hypothetical protein; Provisional
Probab=92.65 E-value=0.1 Score=51.27 Aligned_cols=24 Identities=25% Similarity=0.526 Sum_probs=19.9
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+.+|.|+||+||||.+..+...+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l 26 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL 26 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 467899999999999887776655
No 357
>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=92.61 E-value=0.16 Score=51.04 Aligned_cols=33 Identities=27% Similarity=0.439 Sum_probs=24.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
+..|.|+||+||||++..++..+-..+. ++.++
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 3579999999999998888777655443 44433
No 358
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=92.60 E-value=0.086 Score=52.51 Aligned_cols=20 Identities=35% Similarity=0.605 Sum_probs=16.0
Q ss_pred eEEEEccCCCchhhHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIV 426 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI 426 (772)
..+|.|.|||||||+...+.
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 56899999999999764433
No 359
>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=92.60 E-value=0.058 Score=51.32 Aligned_cols=36 Identities=25% Similarity=0.300 Sum_probs=21.3
Q ss_pred cEEEEEcCCCCChhh---hhhhhhcCCCeEEEecCCCCCCc
Q 004121 553 RQVLIDESTQATEPE---CLIPLVLGAKQVVLVGDHCQLGP 590 (772)
Q Consensus 553 d~VIIDEAsQatEpe---~LipL~~~~k~lILVGD~~QLpP 590 (772)
.++++||-..++.-. +|-.+ .-+++-+-|....||.
T Consensus 64 ~ill~DEiNrappktQsAlLeam--~Er~Vt~~g~~~~lp~ 102 (131)
T PF07726_consen 64 NILLADEINRAPPKTQSALLEAM--EERQVTIDGQTYPLPD 102 (131)
T ss_dssp SEEEEETGGGS-HHHHHHHHHHH--HHSEEEETTEEEE--S
T ss_pred ceeeecccccCCHHHHHHHHHHH--HcCeEEeCCEEEECCC
Confidence 589999988887543 22222 2467777777777775
No 360
>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=92.49 E-value=0.19 Score=57.62 Aligned_cols=52 Identities=19% Similarity=0.245 Sum_probs=40.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..+++|-|+||+|||+.+..++.+++...+.+|++.+.-. ..+++..|+...
T Consensus 195 G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm-~~~~i~~R~~~~ 246 (434)
T TIGR00665 195 SDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEM-SAEQLAMRMLSS 246 (434)
T ss_pred CeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcC-CHHHHHHHHHHH
Confidence 3589999999999999999999988765445898887755 455677777543
No 361
>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=92.47 E-value=0.096 Score=52.52 Aligned_cols=21 Identities=33% Similarity=0.697 Sum_probs=17.2
Q ss_pred EEEEccCCCchhhHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+|.||||||||+++..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999987666544
No 362
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=92.44 E-value=0.38 Score=52.11 Aligned_cols=72 Identities=19% Similarity=0.239 Sum_probs=45.1
Q ss_pred CHHHHHHHHHhhc-C--CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhcCceEEEecc
Q 004121 392 NASQVFAVKSVLQ-R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (772)
Q Consensus 392 N~sQ~~AV~~aL~-~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~~~vvRl~~ 466 (772)
|+...+..+..+. + .+.-|.|+||+||||++..++..|... .++.|+.--.... +=++||...+.+++.+..
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 355689999999999998888877443 3566654322222 236678777877776643
No 363
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=92.44 E-value=0.09 Score=51.58 Aligned_cols=21 Identities=38% Similarity=0.515 Sum_probs=15.6
Q ss_pred EEEEccCCCchhhHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+|.|+|||||||++..+..+
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 479999999999988776655
No 364
>PRK12608 transcription termination factor Rho; Provisional
Probab=92.43 E-value=0.18 Score=56.31 Aligned_cols=51 Identities=25% Similarity=0.318 Sum_probs=37.8
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCC---cEEEEcCcHHHHHHHHHHHHh
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQG---QVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~---rILV~ApSN~AVD~L~erL~~ 456 (772)
.-.+|.||||||||+++..++..+..+... -++.+.....-++++.+.+..
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 346999999999999999988888765321 345566666677777777653
No 365
>PRK07667 uridine kinase; Provisional
Probab=92.43 E-value=0.18 Score=51.26 Aligned_cols=36 Identities=25% Similarity=0.218 Sum_probs=26.2
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
-+..|.|+||+||||++..+...|-+.+. ++.++..
T Consensus 18 ~iIgI~G~~gsGKStla~~L~~~l~~~~~-~~~~i~~ 53 (193)
T PRK07667 18 FILGIDGLSRSGKTTFVANLKENMKQEGI-PFHIFHI 53 (193)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEEc
Confidence 36789999999999998887777655443 5554443
No 366
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=92.43 E-value=0.33 Score=60.46 Aligned_cols=66 Identities=24% Similarity=0.300 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+|++.|++|+.......-.+|.+|-|+|||.+.-..++.-++.+. |+..++|..+-.++....|..
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 699999999998877889999999999999999888887777765 799999988888777766654
No 367
>PRK14532 adenylate kinase; Provisional
Probab=92.41 E-value=0.094 Score=52.65 Aligned_cols=20 Identities=30% Similarity=0.602 Sum_probs=16.8
Q ss_pred EEEEccCCCchhhHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVY 427 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~ 427 (772)
.+|.|||||||||.+..++.
T Consensus 3 i~~~G~pGsGKsT~a~~la~ 22 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVE 22 (188)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57899999999998776654
No 368
>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=92.39 E-value=0.16 Score=51.53 Aligned_cols=33 Identities=30% Similarity=0.528 Sum_probs=23.3
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
+..|.||+|+||||++..+...+ +..++.++..
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l---~~~~~~v~~~ 33 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL---GNPKVVIISQ 33 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh---CCCCeEEEEe
Confidence 35799999999999987776655 2335555443
No 369
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=92.36 E-value=0.31 Score=58.16 Aligned_cols=149 Identities=21% Similarity=0.305 Sum_probs=88.9
Q ss_pred CCCHHHHHHHHHhh---cCCeE-EEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhcCc--eEE
Q 004121 390 ELNASQVFAVKSVL---QRPIS-LIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL--KVV 462 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL---~~~l~-LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~~--~vv 462 (772)
.|-+.|.--|...+ ..++. ++---=|=|||--+++..+.|... .+++-||++||-. .+|-..-+.+... +|.
T Consensus 399 ~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsST-leNWlrEf~kwCPsl~Ve 477 (941)
T KOG0389|consen 399 QLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSST-LENWLREFAKWCPSLKVE 477 (941)
T ss_pred cccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchh-HHHHHHHHHHhCCceEEE
Confidence 47788887777643 34544 444567999998777766666555 3568999999754 4555555554321 222
Q ss_pred EeccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeeccccc
Q 004121 463 RLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGA 542 (772)
Q Consensus 463 Rl~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a 542 (772)
-.++.. .+-+. ++..+.+. -...+|+++|-..+
T Consensus 478 ~YyGSq-------------------------~ER~~---------------------lR~~i~~~-~~~ydVllTTY~la 510 (941)
T KOG0389|consen 478 PYYGSQ-------------------------DERRE---------------------LRERIKKN-KDDYDVLLTTYNLA 510 (941)
T ss_pred eccCcH-------------------------HHHHH---------------------HHHHHhcc-CCCccEEEEEeecc
Confidence 111100 00000 11111111 12689999997765
Q ss_pred CCc-----ccccCCCcEEEEEcCCCCChhh-----hhhhhhcCCCeEEEecCCCC
Q 004121 543 GDP-----RLANFRFRQVLIDESTQATEPE-----CLIPLVLGAKQVVLVGDHCQ 587 (772)
Q Consensus 543 ~~~-----~L~~~~Fd~VIIDEAsQatEpe-----~LipL~~~~k~lILVGD~~Q 587 (772)
+.. .+++.+|++||.||+...--.. -|+.+. +..|+.|.|=|-|
T Consensus 511 ~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~-An~RlLLTGTPLQ 564 (941)
T KOG0389|consen 511 ASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSIN-ANFRLLLTGTPLQ 564 (941)
T ss_pred cCChHHHHHHHhccccEEEecchhhhhccchHHHHHhcccc-ccceEEeeCCccc
Confidence 532 4788899999999987643221 233332 4569999999999
No 370
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=92.36 E-value=0.13 Score=55.33 Aligned_cols=34 Identities=32% Similarity=0.490 Sum_probs=28.4
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
..=|.|+||.||+|.+-.++.+|...+. ||-|+|
T Consensus 53 viGITG~PGaGKSTli~~L~~~l~~~G~-rVaVlA 86 (323)
T COG1703 53 VIGITGVPGAGKSTLIEALGRELRERGH-RVAVLA 86 (323)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHHCCc-EEEEEE
Confidence 4559999999999999999999988765 766654
No 371
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=92.36 E-value=0.12 Score=53.74 Aligned_cols=32 Identities=28% Similarity=0.600 Sum_probs=22.7
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
-+|.||||+||||-....-..+...++ ++.++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr-~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGR-PVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCC-ceEEE
Confidence 378999999999988776655554443 55443
No 372
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=92.34 E-value=0.12 Score=50.39 Aligned_cols=22 Identities=41% Similarity=0.782 Sum_probs=19.0
Q ss_pred CCeEEEEccCCCchhhHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIV 426 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI 426 (772)
.|..||.|-|||||||+...++
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 5788999999999999876665
No 373
>PHA02244 ATPase-like protein
Probab=92.33 E-value=0.18 Score=56.25 Aligned_cols=32 Identities=16% Similarity=0.302 Sum_probs=23.1
Q ss_pred HHHHHhhc-CCeEEEEccCCCchhhHHHHHHHH
Q 004121 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
..+..++. +...+|.||||||||+.+..+...
T Consensus 110 ~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 110 ADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 33444444 456789999999999988777665
No 374
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=92.33 E-value=0.21 Score=55.32 Aligned_cols=41 Identities=17% Similarity=0.238 Sum_probs=28.7
Q ss_pred HHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEE
Q 004121 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (772)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV 439 (772)
..+..++. +...+|.||+||||||++.+++..+- ...||++
T Consensus 151 ~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~ip--~~~ri~t 192 (332)
T PRK13900 151 EFLEHAVISKKNIIISGGTSTGKTTFTNAALREIP--AIERLIT 192 (332)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhCC--CCCeEEE
Confidence 44444443 67899999999999999988776542 2346655
No 375
>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=92.32 E-value=0.086 Score=51.59 Aligned_cols=21 Identities=24% Similarity=0.575 Sum_probs=17.0
Q ss_pred EEEccCCCchhhHHHHHHHHH
Q 004121 409 LIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L 429 (772)
+|.||||+||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 688999999998877766554
No 376
>PRK00889 adenylylsulfate kinase; Provisional
Probab=92.31 E-value=0.19 Score=49.82 Aligned_cols=34 Identities=26% Similarity=0.318 Sum_probs=25.8
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
.+.+|.|+||+||||++..++..+...+ ..+.++
T Consensus 5 ~~i~~~G~~GsGKST~a~~la~~l~~~g-~~v~~i 38 (175)
T PRK00889 5 VTVWFTGLSGAGKTTIARALAEKLREAG-YPVEVL 38 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEE
Confidence 4678999999999999888887775443 355544
No 377
>PRK06620 hypothetical protein; Validated
Probab=92.28 E-value=0.1 Score=54.08 Aligned_cols=19 Identities=37% Similarity=0.522 Sum_probs=16.1
Q ss_pred CeEEEEccCCCchhhHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAA 424 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~ 424 (772)
+..+|+||||+|||+.+..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3479999999999998764
No 378
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=92.26 E-value=0.14 Score=50.56 Aligned_cols=26 Identities=35% Similarity=0.590 Sum_probs=21.8
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHcC
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQG 433 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (772)
..|.|+||.||||.+..++-.|...+
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g 33 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKG 33 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcC
Confidence 57999999999999888887776654
No 379
>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=92.24 E-value=0.22 Score=46.59 Aligned_cols=45 Identities=33% Similarity=0.505 Sum_probs=32.2
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
.+++|.+|+|||++...+...+.+.+. +|+++---. +.+.+++..
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~-~V~~id~D~---~~~~~~~~~ 46 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGK-PVLAIDADP---DDLPERLSV 46 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEECCc---hhhHHHHhh
Confidence 578999999999999998888877654 666443222 566665543
No 380
>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=92.20 E-value=0.17 Score=53.39 Aligned_cols=33 Identities=21% Similarity=0.492 Sum_probs=24.8
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
+.++.|+||+||||.+..+...+-..+ .++.++
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l~~~~-~~v~~i 33 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKLSEKN-IDVIIL 33 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcC-CceEEE
Confidence 468999999999999988887765443 344444
No 381
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.19 E-value=0.16 Score=56.03 Aligned_cols=37 Identities=27% Similarity=0.419 Sum_probs=25.9
Q ss_pred HHHHHHHHHh-hcCCeEEEEccCCCchhhHHHHHHHHH
Q 004121 393 ASQVFAVKSV-LQRPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 393 ~sQ~~AV~~a-L~~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
++...++..+ +..+..++.||||||||+.+..++..+
T Consensus 30 ~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l 67 (329)
T COG0714 30 EEVIELALLALLAGGHVLLEGPPGVGKTLLARALARAL 67 (329)
T ss_pred HHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHh
Confidence 3444443333 357899999999999999776666554
No 382
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=92.17 E-value=0.076 Score=56.32 Aligned_cols=67 Identities=28% Similarity=0.303 Sum_probs=55.0
Q ss_pred CHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHhcC
Q 004121 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISATG 458 (772)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~--~~rILV~ApSN~AVD~L~erL~~~~ 458 (772)
+.-|+.||..++...-.+.|+-.|||||.+.+--+.+.++.+ .-++||++||...+-++.+-+...|
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 467999999999888899999999999988766565655442 2479999999999999988887654
No 383
>PLN02200 adenylate kinase family protein
Probab=92.17 E-value=0.12 Score=54.43 Aligned_cols=23 Identities=35% Similarity=0.561 Sum_probs=18.9
Q ss_pred CeEEEEccCCCchhhHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+.+|.|||||||||.+..++..
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~ 66 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVET 66 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 36789999999999988777654
No 384
>KOG4284 consensus DEAD box protein [Transcription]
Probab=92.14 E-value=0.22 Score=58.23 Aligned_cols=68 Identities=18% Similarity=0.258 Sum_probs=50.2
Q ss_pred CHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHH--cCCCcEEEEcCcHHHHHHHHHHHHhcCc
Q 004121 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAK--QGQGQVLVCAPSNVAVDQLAEKISATGL 459 (772)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~--~~~~rILV~ApSN~AVD~L~erL~~~~~ 459 (772)
++-|..||-.++..==.+||+-.|||||-+-..++..-+. ...-.+++++||..-+-++.+-+.+.+.
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 5679999988876555789999999999875544433222 2344799999999988888887766543
No 385
>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=92.14 E-value=0.12 Score=49.02 Aligned_cols=22 Identities=27% Similarity=0.599 Sum_probs=18.6
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.|+||||||+++..+...+
T Consensus 2 I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5799999999999887777654
No 386
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=92.14 E-value=0.098 Score=59.32 Aligned_cols=23 Identities=48% Similarity=0.758 Sum_probs=18.2
Q ss_pred CeEEEEccCCCchhhHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
.-.|+.||||||||+++..++..
T Consensus 180 kgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHHh
Confidence 34789999999999987666543
No 387
>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=92.13 E-value=0.29 Score=49.20 Aligned_cols=34 Identities=26% Similarity=0.404 Sum_probs=25.9
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
.+.+|.|+||+||||.+..+..++-..+. +|+++
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~-~v~~~ 37 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGY-DVLFT 37 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 36789999999999998888877655443 55544
No 388
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=92.08 E-value=0.18 Score=52.39 Aligned_cols=37 Identities=27% Similarity=0.334 Sum_probs=27.3
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHc----CCCcEEEEcCcH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQ----GQGQVLVCAPSN 444 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~----~~~rILV~ApSN 444 (772)
+||.||||+||||.+-.+++.+... .+.||.++--+|
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 7999999999999998888766543 344666554444
No 389
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=92.07 E-value=0.22 Score=58.77 Aligned_cols=22 Identities=36% Similarity=0.430 Sum_probs=18.0
Q ss_pred CCeEEEEccCCCchhhHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIV 426 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI 426 (772)
..-.+|.||+|+|||+.+.++.
T Consensus 419 G~~llI~G~SG~GKTsLlRaia 440 (604)
T COG4178 419 GERLLITGESGAGKTSLLRALA 440 (604)
T ss_pred CCEEEEECCCCCCHHHHHHHHh
Confidence 3568999999999999776655
No 390
>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=92.05 E-value=0.14 Score=50.95 Aligned_cols=24 Identities=21% Similarity=0.321 Sum_probs=19.7
Q ss_pred CCeEEEEccCCCchhhHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
..+.++.||||+||||++..+...
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHh
Confidence 357899999999999987776654
No 391
>PRK04040 adenylate kinase; Provisional
Probab=92.03 E-value=0.13 Score=52.27 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=19.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L 429 (772)
+.+|.|+||+||||++..+...+
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHh
Confidence 57899999999999887777655
No 392
>PRK06696 uridine kinase; Validated
Probab=92.03 E-value=0.2 Score=51.95 Aligned_cols=33 Identities=24% Similarity=0.353 Sum_probs=24.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
+..|.|++|+||||++..++..|-..+ .+++++
T Consensus 24 iI~I~G~sgsGKSTlA~~L~~~l~~~g-~~v~~~ 56 (223)
T PRK06696 24 RVAIDGITASGKTTFADELAEEIKKRG-RPVIRA 56 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEe
Confidence 678999999999999888887764433 245443
No 393
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.02 E-value=0.16 Score=59.35 Aligned_cols=24 Identities=38% Similarity=0.569 Sum_probs=20.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+|+.||||||||+++..++..+.
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~ 61 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVN 61 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHh
Confidence 459999999999999888777765
No 394
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=92.01 E-value=0.56 Score=57.69 Aligned_cols=69 Identities=19% Similarity=0.242 Sum_probs=47.4
Q ss_pred CCCHHHH-HHHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHcCCcccc-----------------cCCCeEEcc
Q 004121 686 YLNRTEA-ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQ-----------------LYKEIEVAS 747 (772)
Q Consensus 686 ~~N~~EA-~~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~~~~~~~-----------------~~~~I~V~T 747 (772)
|.+..|- ..|++-|..+.+.|-+ |-|.|..-.+...|.++|.+.+..+.. ....|.|+|
T Consensus 428 y~t~~eK~~Ai~~ei~~~~~~GrP---VLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~~~EA~IIa~AG~~GaVTIAT 504 (913)
T PRK13103 428 YLTAEEKYAAIITDIKECMALGRP---VLVGTATIETSEHMSNLLKKEGIEHKVLNAKYHEKEAEIIAQAGRPGALTIAT 504 (913)
T ss_pred EcCHHHHHHHHHHHHHHHHhCCCC---EEEEeCCHHHHHHHHHHHHHcCCcHHHhccccchhHHHHHHcCCCCCcEEEec
Confidence 4444443 4566667777777754 999999999999999999887653321 123577777
Q ss_pred CCCCCCCcCCEE
Q 004121 748 VDSFQGREKDYI 759 (772)
Q Consensus 748 VD~FQGrEkDvI 759 (772)
+.-||=-||.
T Consensus 505 --NMAGRGTDIk 514 (913)
T PRK13103 505 --NMAGRGTDIL 514 (913)
T ss_pred --cCCCCCCCEe
Confidence 6777777764
No 395
>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=92.00 E-value=0.2 Score=51.97 Aligned_cols=40 Identities=20% Similarity=0.239 Sum_probs=28.7
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcC-----CCcEEEEcCcH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~-----~~rILV~ApSN 444 (772)
..++.|.||||||||+.+..++....... ..+++..+.-+
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 45889999999999999998887644332 24666555433
No 396
>PRK14527 adenylate kinase; Provisional
Probab=92.00 E-value=0.13 Score=51.94 Aligned_cols=24 Identities=25% Similarity=0.609 Sum_probs=19.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
..+.+|.||||+||||.+..++..
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~ 29 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQE 29 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 357899999999999987776544
No 397
>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=92.00 E-value=0.11 Score=50.21 Aligned_cols=19 Identities=37% Similarity=0.746 Sum_probs=16.0
Q ss_pred EEccCCCchhhHHHHHHHH
Q 004121 410 IQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 410 IqGPPGTGKT~tla~iI~~ 428 (772)
|.||||+||||.+..++..
T Consensus 1 i~G~PgsGK~t~~~~la~~ 19 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKR 19 (151)
T ss_dssp EEESTTSSHHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHHh
Confidence 6899999999988776654
No 398
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=91.99 E-value=0.4 Score=55.51 Aligned_cols=78 Identities=29% Similarity=0.398 Sum_probs=57.3
Q ss_pred CCCCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHH-HHHHHHHHcCCCcEEEEcC----cHHHHHHHHHHHHhcCceE
Q 004121 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAP----SNVAVDQLAEKISATGLKV 461 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla-~iI~~L~~~~~~rILV~Ap----SN~AVD~L~erL~~~~~~v 461 (772)
...|-+-|.-||.+.|- ..-.+|..+.+||||-+.- +=|-.++..+ ++.|.+.| -|.--+++.+|..+.|+++
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 46788999999999875 4466777889999998642 2234455544 58777766 5556677888998888887
Q ss_pred -EEecc
Q 004121 462 -VRLCA 466 (772)
Q Consensus 462 -vRl~~ 466 (772)
+|+|.
T Consensus 293 airVG~ 298 (830)
T COG1202 293 AIRVGM 298 (830)
T ss_pred EEEech
Confidence 88875
No 399
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=91.97 E-value=0.31 Score=56.24 Aligned_cols=37 Identities=22% Similarity=0.133 Sum_probs=27.5
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcC
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (772)
...+|.||+|||||+.+.++...+.+. ++.+|+.++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 357899999999999998887776653 4456765544
No 400
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=91.96 E-value=0.2 Score=52.15 Aligned_cols=35 Identities=17% Similarity=0.204 Sum_probs=23.9
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcC
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (772)
.-|.||+|+||||++..++..+... ...+|.++.-
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~ 37 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITT 37 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEec
Confidence 5688999999999987777655431 2335655443
No 401
>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=91.94 E-value=0.13 Score=51.10 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=19.6
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+.+|.||||+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 367899999999999988765553
No 402
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=91.94 E-value=0.49 Score=57.95 Aligned_cols=47 Identities=23% Similarity=0.251 Sum_probs=34.4
Q ss_pred EEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+.+..-|+|||.+++-.++.....+ ..|-|+|||..-+.+-++.+..
T Consensus 98 Iaem~TGeGKTLva~lpa~l~aL~G-~~V~IvTpn~yLA~rd~e~~~~ 144 (830)
T PRK12904 98 IAEMKTGEGKTLVATLPAYLNALTG-KGVHVVTVNDYLAKRDAEWMGP 144 (830)
T ss_pred hhhhhcCCCcHHHHHHHHHHHHHcC-CCEEEEecCHHHHHHHHHHHHH
Confidence 5677899999998765554222234 4799999999888887777654
No 403
>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=91.89 E-value=0.18 Score=53.26 Aligned_cols=40 Identities=25% Similarity=0.531 Sum_probs=30.8
Q ss_pred hhcCC-eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 402 VLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 402 aL~~~-l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
++..+ -.+|.|++|||||+.+..+++.+.+.- ..|.++++
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 34455 367999999999999999998766554 47777766
No 404
>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=91.88 E-value=0.28 Score=56.00 Aligned_cols=51 Identities=25% Similarity=0.344 Sum_probs=40.5
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..+++|-|+||+|||+.+..++..+....+.+|++.+.= -..+++..|+..
T Consensus 194 g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlE-m~~~~l~~Rl~~ 244 (421)
T TIGR03600 194 GDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLE-MSAEQLGERLLA 244 (421)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC-CCHHHHHHHHHH
Confidence 468999999999999999999988864434589888744 467778888764
No 405
>PRK05480 uridine/cytidine kinase; Provisional
Probab=91.86 E-value=0.2 Score=51.26 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=19.8
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+..|.||+|+||||++..+...+
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 467899999999999887776655
No 406
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=91.85 E-value=0.53 Score=57.42 Aligned_cols=46 Identities=26% Similarity=0.286 Sum_probs=33.5
Q ss_pred EEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Q 004121 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (772)
+.+=.-|.|||.|++..++..+..| ..|-|+|+|..-+..=++.+.
T Consensus 97 iaEm~TGEGKTLvA~l~a~l~al~G-~~v~vvT~neyLA~Rd~e~~~ 142 (796)
T PRK12906 97 IAEMKTGEGKTLTATLPVYLNALTG-KGVHVVTVNEYLSSRDATEMG 142 (796)
T ss_pred cccccCCCCCcHHHHHHHHHHHHcC-CCeEEEeccHHHHHhhHHHHH
Confidence 4455789999999776665555555 599999999887766555543
No 407
>PRK02496 adk adenylate kinase; Provisional
Probab=91.84 E-value=0.14 Score=51.37 Aligned_cols=22 Identities=32% Similarity=0.729 Sum_probs=17.8
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999877766543
No 408
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=91.83 E-value=0.17 Score=51.41 Aligned_cols=55 Identities=18% Similarity=0.341 Sum_probs=36.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh-cCceEEEe
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA-TGLKVVRL 464 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~-~~~~vvRl 464 (772)
..-|-||||+|||+.+..++..|.+. .++.|++.- ....+=++++.+ .+.+++-+
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~--~~~aVI~~D-i~t~~Da~~l~~~~g~~i~~v 70 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE--YKIAVITGD-IYTKEDADRLRKLPGEPIIGV 70 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh--CCeEEEece-eechhhHHHHHhCCCCeeEEe
Confidence 34579999999999999999888665 477777541 111123345555 66666555
No 409
>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=91.83 E-value=0.13 Score=54.30 Aligned_cols=24 Identities=29% Similarity=0.592 Sum_probs=17.8
Q ss_pred EEccCCCchhhHHHHHHHHHHHcC
Q 004121 410 IQGPPGTGKTVTSAAIVYHMAKQG 433 (772)
Q Consensus 410 IqGPPGTGKT~tla~iI~~L~~~~ 433 (772)
|.||||+||||-...+...+...+
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~ 24 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNG 24 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-
T ss_pred CCCCCCCCHHHHHHHHHHHHHhcc
Confidence 679999999998887776664443
No 410
>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=91.77 E-value=0.22 Score=55.11 Aligned_cols=39 Identities=26% Similarity=0.390 Sum_probs=28.0
Q ss_pred CHHHHHHHHHhhcC----CeEEEEccCCCchhhHHHHHHHHHH
Q 004121 392 NASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 392 N~sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
++...+.+...+.+ ..+|+.||||+|||+++..++..+.
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~ 61 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN 61 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 45555555555542 3578999999999998877777665
No 411
>PRK14528 adenylate kinase; Provisional
Probab=91.74 E-value=0.14 Score=51.70 Aligned_cols=22 Identities=27% Similarity=0.554 Sum_probs=17.7
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
..+|.||||+|||+++..+...
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~ 24 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCER 24 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3689999999999987666543
No 412
>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=91.74 E-value=0.15 Score=51.74 Aligned_cols=27 Identities=37% Similarity=0.596 Sum_probs=21.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (772)
+.-|.||+|+||||++..++..|-+.+
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 357999999999999888887765443
No 413
>PRK13764 ATPase; Provisional
Probab=91.73 E-value=0.33 Score=57.65 Aligned_cols=27 Identities=33% Similarity=0.461 Sum_probs=23.5
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
....+|.|||||||||++.+++..+..
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~ 283 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYAD 283 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 567899999999999999998877754
No 414
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=91.67 E-value=0.16 Score=54.13 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=27.2
Q ss_pred HHHHHHHHhhc-----CCeEEEEccCCCchhhHHHHHHHHHH
Q 004121 394 SQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 394 sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
++.+.|...|. ..+..|+|++|+|||+++..++....
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~ 44 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLR 44 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHH
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccc
Confidence 44555655553 35789999999999999988776643
No 415
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=91.67 E-value=0.12 Score=62.24 Aligned_cols=19 Identities=58% Similarity=0.968 Sum_probs=16.0
Q ss_pred EEEEccCCCchhhHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIV 426 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI 426 (772)
+|+.||||||||..+.+++
T Consensus 347 vLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 347 VLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred eEEECCCCCcHHHHHHHHh
Confidence 6899999999998766655
No 416
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=91.66 E-value=0.25 Score=52.96 Aligned_cols=22 Identities=41% Similarity=0.679 Sum_probs=17.1
Q ss_pred CeEEEEccCCCchhhHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
+..|+.||||.||||.+ .+|+.
T Consensus 53 DHvLl~GPPGlGKTTLA-~IIA~ 74 (332)
T COG2255 53 DHVLLFGPPGLGKTTLA-HIIAN 74 (332)
T ss_pred CeEEeeCCCCCcHHHHH-HHHHH
Confidence 57899999999999854 44443
No 417
>PRK07261 topology modulation protein; Provisional
Probab=91.62 E-value=0.14 Score=50.95 Aligned_cols=20 Identities=25% Similarity=0.356 Sum_probs=16.9
Q ss_pred EEEEccCCCchhhHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVY 427 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~ 427 (772)
.+|.|+||+||||.+..+..
T Consensus 3 i~i~G~~GsGKSTla~~l~~ 22 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQ 22 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 58999999999998877643
No 418
>PRK00279 adk adenylate kinase; Reviewed
Probab=91.61 E-value=0.14 Score=52.70 Aligned_cols=21 Identities=33% Similarity=0.635 Sum_probs=17.1
Q ss_pred EEEEccCCCchhhHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+|.||||+||||++..++..
T Consensus 3 I~v~G~pGsGKsT~a~~la~~ 23 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEK 23 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999987666543
No 419
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=91.61 E-value=0.61 Score=57.31 Aligned_cols=47 Identities=26% Similarity=0.242 Sum_probs=34.3
Q ss_pred EEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+.+-+-|+|||.+++-.++.-+..+ ..|.|+++|..-+...++.+..
T Consensus 99 IaEm~TGEGKTL~a~lp~~l~al~g-~~VhIvT~ndyLA~RD~e~m~~ 145 (908)
T PRK13107 99 IAEMRTGEGKTLTATLPAYLNALTG-KGVHVITVNDYLARRDAENNRP 145 (908)
T ss_pred cccccCCCCchHHHHHHHHHHHhcC-CCEEEEeCCHHHHHHHHHHHHH
Confidence 5567899999998765554433344 4799999999887777776643
No 420
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=91.60 E-value=0.53 Score=53.59 Aligned_cols=71 Identities=20% Similarity=0.235 Sum_probs=52.5
Q ss_pred CCCCCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHH-HHHHHHHHc-----CCCcEEEEcCcHHHHHHHHHHHH
Q 004121 385 APGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 385 ~~~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~-----~~~rILV~ApSN~AVD~L~erL~ 455 (772)
...+..+++-|...+.-.|...=++..+--|||||..-. -.+..+++. +.-.++|++||..-+-++..-+.
T Consensus 99 ~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak 175 (543)
T KOG0342|consen 99 EMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAK 175 (543)
T ss_pred hcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHH
Confidence 345678899999999888887788999999999997633 333344443 22359999999998877776554
No 421
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=91.56 E-value=0.13 Score=57.15 Aligned_cols=23 Identities=30% Similarity=0.380 Sum_probs=18.7
Q ss_pred eEEEEccCCCchhhHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L 429 (772)
..+|+||||||||..+..++..+
T Consensus 150 gllL~GPPGcGKTllAraiA~el 172 (413)
T PLN00020 150 ILGIWGGKGQGKSFQCELVFKKM 172 (413)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHc
Confidence 57899999999999876666554
No 422
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=91.55 E-value=0.23 Score=54.36 Aligned_cols=42 Identities=21% Similarity=0.334 Sum_probs=32.9
Q ss_pred CCCCCHHHHHHHHHhhc-----------CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 388 LPELNASQVFAVKSVLQ-----------RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-----------~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
+..|+++|++++...+. ....+|.|+||+|||++...+...|
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 35789999988887663 3578899999999999877765544
No 423
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.54 E-value=0.4 Score=55.69 Aligned_cols=49 Identities=27% Similarity=0.384 Sum_probs=32.3
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc-C-------------------CCc-EEEEcCcHHHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-G-------------------QGQ-VLVCAPSNVAVDQLAEKIS 455 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~-------------------~~r-ILV~ApSN~AVD~L~erL~ 455 (772)
.+|++||||||||+++..++..|.-. + ... +-+-+.||.-+|++.+-+.
T Consensus 37 a~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddIR~Iie 106 (491)
T PRK14964 37 SILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVILE 106 (491)
T ss_pred eEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHHHHHHH
Confidence 58999999999999877666554211 1 112 4455567777887766553
No 424
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=91.52 E-value=0.31 Score=51.09 Aligned_cols=59 Identities=19% Similarity=0.224 Sum_probs=41.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHH---HHHHHHHhcCceEEEecc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATGLKVVRLCA 466 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD---~L~erL~~~~~~vvRl~~ 466 (772)
..-|.|++|+|||+++..++..|..++ .+|.++-+++.-.| .=..|+.+.|..++-+..
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G-~~V~viK~~~~~~d~~~~Dt~r~~~aGA~~v~~~~ 64 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERG-YRVATAKHTHHEFDKPDTDTYRFKKAGAEVVVVST 64 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCC-CeEEEEEecccCCCCCCchHHHHHHcCCcEEEEec
Confidence 467899999999999999999887665 49999866555333 223455555555554433
No 425
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=91.51 E-value=0.53 Score=58.81 Aligned_cols=79 Identities=20% Similarity=0.322 Sum_probs=61.5
Q ss_pred CCCCHHHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHc----------CCCcEEEEcCcHHHHHHHHH----H
Q 004121 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ----------GQGQVLVCAPSNVAVDQLAE----K 453 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~----------~~~rILV~ApSN~AVD~L~e----r 453 (772)
..||..|-....+++. ....++.||.|.|||-++..-+.+-++. ...+|...||...-|++++. |
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 4699999998888886 5789999999999999987555554443 23489999999999888876 5
Q ss_pred HHhcCceEEEeccc
Q 004121 454 ISATGLKVVRLCAK 467 (772)
Q Consensus 454 L~~~~~~vvRl~~~ 467 (772)
+...|++|..+...
T Consensus 388 la~~GI~V~ElTgD 401 (1674)
T KOG0951|consen 388 LAPLGITVLELTGD 401 (1674)
T ss_pred ccccCcEEEEeccc
Confidence 56668887766554
No 426
>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=91.51 E-value=0.26 Score=50.59 Aligned_cols=32 Identities=34% Similarity=0.469 Sum_probs=27.6
Q ss_pred EEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
..|.|-.|+||||+.+.++..|.+.+. |||++
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~-rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGK-KVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCC-cEEEE
Confidence 445699999999999999999998765 88877
No 427
>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=91.49 E-value=0.3 Score=46.90 Aligned_cols=25 Identities=24% Similarity=0.466 Sum_probs=21.2
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
..+.++.|+.|+|||+.+..++..+
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 4588999999999999888877665
No 428
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=91.48 E-value=0.45 Score=56.14 Aligned_cols=154 Identities=21% Similarity=0.316 Sum_probs=87.8
Q ss_pred CCHHHHHHHHHhhc---CCe-EEEEccCCCchhhHHHHHHHHHHHcC--CCcEEEEcCcHHHHHHHHHHHHhc--CceEE
Q 004121 391 LNASQVFAVKSVLQ---RPI-SLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISAT--GLKVV 462 (772)
Q Consensus 391 LN~sQ~~AV~~aL~---~~l-~LIqGPPGTGKT~tla~iI~~L~~~~--~~rILV~ApSN~AVD~L~erL~~~--~~~vv 462 (772)
|-+.|.+-+.-..+ .++ .++.--=|-|||+-...++++|.... -++.||+||.- ..+|-+.-+... .++++
T Consensus 568 LKEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaS-tL~NWaqEisrFlP~~k~l 646 (1185)
T KOG0388|consen 568 LKEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPAS-TLHNWAQEISRFLPSFKVL 646 (1185)
T ss_pred hHHHhhccHHHHHHHHHccccceehhhhccchhHHHHHHHHHHHHhccCCCceEEeehHH-HHhHHHHHHHHhCccceee
Confidence 45666665554332 343 34555679999999999999998763 35899999964 345555555443 23444
Q ss_pred EeccccccccCCchhhhhHHHHHhhccchhHHHHHHHHHhHhhhccCCchHHHHHHHHHHHHHHHHhhcccceeeccccc
Q 004121 463 RLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGA 542 (772)
Q Consensus 463 Rl~~~sre~i~~~~~~~~l~~~v~~~~~~~~~~l~kl~~l~~~~~~ls~~d~k~~~~l~~~~~~~il~~a~VI~~T~~~a 542 (772)
+..+... +...|+|...-+. . ..--...+|++++...+
T Consensus 647 pywGs~~----------------------eRkiLrKfw~rKn------------------m--Y~rna~fhVviTSYQlv 684 (1185)
T KOG0388|consen 647 PYWGSPS----------------------ERKILRKFWNRKN------------------M--YRRNAPFHVVITSYQLV 684 (1185)
T ss_pred cCcCChh----------------------hhHHHHHhcchhh------------------h--hccCCCceEEEEeeeee
Confidence 4322111 0112222211000 0 01123456777665433
Q ss_pred C--CcccccCCCcEEEEEcCCCCChhh--hhhh-hhcCC-CeEEEecCCCC
Q 004121 543 G--DPRLANFRFRQVLIDESTQATEPE--CLIP-LVLGA-KQVVLVGDHCQ 587 (772)
Q Consensus 543 ~--~~~L~~~~Fd~VIIDEAsQatEpe--~Lip-L~~~~-k~lILVGD~~Q 587 (772)
- ...+.+.++.+.|+|||+-+-..+ -|-. |.+.| .++.|.|-|-|
T Consensus 685 VtDeky~qkvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQ 735 (1185)
T KOG0388|consen 685 VTDEKYLQKVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQ 735 (1185)
T ss_pred echHHHHHhhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccc
Confidence 2 235778899999999996543332 2322 23344 58999999998
No 429
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=91.42 E-value=0.18 Score=58.88 Aligned_cols=25 Identities=28% Similarity=0.328 Sum_probs=21.2
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
..+|++||||||||+++..++..+.
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4689999999999999888777663
No 430
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=91.36 E-value=0.15 Score=58.72 Aligned_cols=31 Identities=29% Similarity=0.491 Sum_probs=23.8
Q ss_pred HHHhhcCCeEEEEccCCCchhhHHHHHHHHH
Q 004121 399 VKSVLQRPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 399 V~~aL~~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
+..-+...+.||.||+|+|||||+..+...+
T Consensus 104 ~~~~l~~~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 104 FTPKLGSRILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred hccCCCceEEEEeCCCCCCchhHHHHHHHhh
Confidence 3333446799999999999999987766544
No 431
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=91.36 E-value=1.6 Score=53.13 Aligned_cols=64 Identities=23% Similarity=0.388 Sum_probs=45.8
Q ss_pred CCCHHHHHHHHHhhcC----------CeEEEEccCCCchhhHHHHHHHHHHHc-CC-----CcEEEEcCcHHHHHHHHHH
Q 004121 390 ELNASQVFAVKSVLQR----------PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQ-----GQVLVCAPSNVAVDQLAEK 453 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~----------~l~LIqGPPGTGKT~tla~iI~~L~~~-~~-----~rILV~ApSN~AVD~L~er 453 (772)
.|-+.|++.++....+ +=.++.=-||+|||......++.++++ +. .+-||+||+-. +.+-...
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sL-v~nWkkE 316 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSL-VNNWKKE 316 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHH-HHHHHHH
Confidence 4678899999885421 113556679999999999999999887 45 58899999753 3333333
Q ss_pred H
Q 004121 454 I 454 (772)
Q Consensus 454 L 454 (772)
+
T Consensus 317 F 317 (776)
T KOG0390|consen 317 F 317 (776)
T ss_pred H
Confidence 3
No 432
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=91.35 E-value=0.14 Score=55.39 Aligned_cols=22 Identities=45% Similarity=0.694 Sum_probs=17.2
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
..+|+||||||||..+-.+..+
T Consensus 168 g~ll~GppGtGKTlla~~Vaa~ 189 (388)
T KOG0651|consen 168 GLLLYGPPGTGKTLLARAVAAT 189 (388)
T ss_pred eeEEeCCCCCchhHHHHHHHHh
Confidence 5789999999999866555444
No 433
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=91.34 E-value=0.72 Score=58.08 Aligned_cols=51 Identities=20% Similarity=0.184 Sum_probs=43.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
-.+||=--|||||.|+.-++..|++. ...+|++++--+.--+++.+-+...
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 58999999999999999888888776 3457999999998888888877654
No 434
>CHL00195 ycf46 Ycf46; Provisional
Probab=91.33 E-value=0.15 Score=59.36 Aligned_cols=22 Identities=41% Similarity=0.507 Sum_probs=18.1
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
-.|+.||||||||.++.+++..
T Consensus 261 GILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 261 GLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred eEEEECCCCCcHHHHHHHHHHH
Confidence 4789999999999987666554
No 435
>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=91.32 E-value=0.15 Score=52.36 Aligned_cols=20 Identities=35% Similarity=0.684 Sum_probs=16.6
Q ss_pred EEEEccCCCchhhHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVY 427 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~ 427 (772)
.+|.||||+||||.+..++.
T Consensus 2 I~i~G~pGsGKsT~a~~La~ 21 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAE 21 (210)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57899999999998766654
No 436
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=91.29 E-value=0.26 Score=59.96 Aligned_cols=23 Identities=39% Similarity=0.670 Sum_probs=18.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
+..+++||||||||+++..+...
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~ 75 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANH 75 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 46799999999999987766544
No 437
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=91.28 E-value=0.33 Score=52.68 Aligned_cols=26 Identities=35% Similarity=0.586 Sum_probs=22.9
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (772)
..|+.||||||||+++-.++..|.-.
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 48999999999999999988888754
No 438
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=91.28 E-value=0.21 Score=55.60 Aligned_cols=45 Identities=22% Similarity=0.363 Sum_probs=30.1
Q ss_pred HHHHHHHHhhc-CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
.....+..+.. +...+|.||+||||||++.+++..+- ...+|+.+
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 33344444443 67899999999999999988775542 23465543
No 439
>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=91.27 E-value=0.28 Score=47.69 Aligned_cols=27 Identities=22% Similarity=0.479 Sum_probs=21.4
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (772)
+.+|.|+||+|||+.+..+...+...+
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g 27 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRG 27 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 357899999999998888877765443
No 440
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=91.25 E-value=1.5 Score=43.77 Aligned_cols=24 Identities=29% Similarity=0.520 Sum_probs=19.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
...+|.|-||+||||++......+
T Consensus 5 kvvvitGVpGvGKTTVl~~~~~~l 28 (189)
T COG2019 5 KVVVITGVPGVGKTTVLKIALKEL 28 (189)
T ss_pred eEEEEEcCCCCChHHHHHHHHHHH
Confidence 357899999999999987666555
No 441
>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=91.24 E-value=0.44 Score=47.12 Aligned_cols=59 Identities=19% Similarity=0.231 Sum_probs=38.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHH-----HHHHHHHhcCceEEEecc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCA 466 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD-----~L~erL~~~~~~vvRl~~ 466 (772)
...|.|++|+|||+++..++..|...+ .+|-++-+...-.+ .-..++.+.|...+-+.+
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~~g-~~V~~iK~~~~~~~~d~~g~Ds~~~~~aGa~~v~~~~ 66 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSARG-LRVAVIKHDHHDFDIDTPGKDSYRHREAGAEEVLVSS 66 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcC-CcEEEEEecCCcccccCccchHHHHHHcCCCEEEEec
Confidence 567999999999999999998876654 36766655443222 223455555655554443
No 442
>PRK05748 replicative DNA helicase; Provisional
Probab=91.21 E-value=0.36 Score=55.61 Aligned_cols=51 Identities=16% Similarity=0.281 Sum_probs=39.9
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..+++|-|+||+|||+.+..++...+...+.+|++.+.-. ..+++..|+..
T Consensus 203 G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-s~~~l~~R~l~ 253 (448)
T PRK05748 203 NDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEM-GAESLVMRMLC 253 (448)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCC-CHHHHHHHHHH
Confidence 4589999999999999999999988755445898886644 44577777753
No 443
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=91.20 E-value=0.3 Score=53.57 Aligned_cols=51 Identities=14% Similarity=0.258 Sum_probs=32.9
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcC-----CCcEEEEcCcH-HHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN-VAVDQLAEKIS 455 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~-----~~rILV~ApSN-~AVD~L~erL~ 455 (772)
..+++|.||||||||+.+..+++.....+ +.+++.+..-+ --.+.|.+...
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 45889999999999999998887654321 23555554433 23444544443
No 444
>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=91.20 E-value=0.26 Score=52.94 Aligned_cols=35 Identities=20% Similarity=0.441 Sum_probs=22.4
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
++.+|.|.||+|||+.+..+...+-.. ..+|.++.
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~~~~~-~~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKYLEEK-GKEVVIIS 36 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHHHHHT-T--EEEE-
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHHHhc-CCEEEEEc
Confidence 688999999999998887777766553 34555554
No 445
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.18 E-value=0.21 Score=58.77 Aligned_cols=24 Identities=25% Similarity=0.367 Sum_probs=20.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+|++||||+|||+++..++..|.
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lAk~L~ 63 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLAKCLN 63 (546)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhC
Confidence 478999999999999888877664
No 446
>PRK13947 shikimate kinase; Provisional
Probab=91.17 E-value=0.18 Score=49.70 Aligned_cols=22 Identities=27% Similarity=0.394 Sum_probs=18.1
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.|+||||||+++..++..|
T Consensus 4 I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 6889999999999887766554
No 447
>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=91.13 E-value=0.26 Score=52.40 Aligned_cols=35 Identities=37% Similarity=0.537 Sum_probs=29.7
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (772)
++.++.|.+|+|||++++.+...+.+.+. |||++.
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 36788999999999999999999888765 777765
No 448
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=91.12 E-value=0.15 Score=59.61 Aligned_cols=22 Identities=45% Similarity=0.700 Sum_probs=18.3
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
-.|+.||||||||+++..++..
T Consensus 90 giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHH
Confidence 3789999999999988777543
No 449
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=91.07 E-value=0.13 Score=59.88 Aligned_cols=23 Identities=43% Similarity=0.680 Sum_probs=19.2
Q ss_pred eEEEEccCCCchhhHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L 429 (772)
=+|++||||+|||..+-+++.+|
T Consensus 225 GvLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 225 GVLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred ceeeeCCCCccHHHHHHHHhhhc
Confidence 36899999999999887777664
No 450
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=91.05 E-value=0.28 Score=52.79 Aligned_cols=34 Identities=26% Similarity=0.302 Sum_probs=28.3
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
+..|.|++||||||++..++..|.+++ +|.++=.
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G--~V~~IKh 36 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG--RVGTVKH 36 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC--CEEEEEE
Confidence 567999999999999999999988775 6766644
No 451
>PRK05439 pantothenate kinase; Provisional
Probab=91.01 E-value=0.28 Score=53.69 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=24.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHc-CCCcEEEEc
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~A 441 (772)
+..|.||||+||||++..+...+-+. ...+|.+++
T Consensus 88 iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 88 IIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 46799999999999987776655433 223555544
No 452
>PHA02624 large T antigen; Provisional
Probab=90.89 E-value=0.24 Score=58.36 Aligned_cols=35 Identities=29% Similarity=0.360 Sum_probs=26.0
Q ss_pred HHHHHHHhhc----CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 395 QVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 395 Q~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
=..+++..+. +...++.||||||||+.+..++..|
T Consensus 417 ~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 417 IYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 3344555443 4689999999999999888887654
No 453
>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=90.88 E-value=0.45 Score=47.48 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=25.4
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
+.+|.||+|+||||.+..+..++-..+. ++.++
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 5689999999999999888877755443 55444
No 454
>PRK06547 hypothetical protein; Provisional
Probab=90.82 E-value=0.2 Score=50.10 Aligned_cols=23 Identities=35% Similarity=0.511 Sum_probs=18.6
Q ss_pred CeEEEEccCCCchhhHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+.+|.||+|||||+++..+...
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 36778899999999988776654
No 455
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=90.81 E-value=0.16 Score=53.67 Aligned_cols=21 Identities=48% Similarity=0.779 Sum_probs=17.3
Q ss_pred CeEEEEccCCCchhhHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIV 426 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI 426 (772)
...|..||||||||.++.+++
T Consensus 152 knVLFyGppGTGKTm~Akala 172 (368)
T COG1223 152 KNVLFYGPPGTGKTMMAKALA 172 (368)
T ss_pred ceeEEECCCCccHHHHHHHHh
Confidence 467899999999999876554
No 456
>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=90.80 E-value=0.26 Score=54.85 Aligned_cols=25 Identities=48% Similarity=0.711 Sum_probs=19.5
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
....||.||||||||..+..+...|
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 4678999999999999887777665
No 457
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.74 E-value=0.3 Score=55.33 Aligned_cols=24 Identities=21% Similarity=0.288 Sum_probs=19.9
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+|++||||+|||+++-.++..+.
T Consensus 40 a~lf~Gp~G~GKtt~A~~~a~~l~ 63 (397)
T PRK14955 40 GYIFSGLRGVGKTTAARVFAKAVN 63 (397)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 478999999999998877776664
No 458
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=90.70 E-value=0.62 Score=52.27 Aligned_cols=61 Identities=21% Similarity=0.312 Sum_probs=46.5
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHH-----HHHHHHHhcCceEEEeccc
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCAK 467 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD-----~L~erL~~~~~~vvRl~~~ 467 (772)
++.-|.|+||||||+.+..++..|-+.+ .+|.++-++....| .=..|+.+.|...+-+.+.
T Consensus 206 ~~~~~~g~~~~GKtt~~~~l~~~l~~~g-~~v~~iKh~~h~~~~d~~g~Ds~r~~~aGa~~v~~~~~ 271 (366)
T PRK14489 206 PLLGVVGYSGTGKTTLLEKLIPELIARG-YRIGLIKHSHHRVDIDKPGKDSHRLRAAGANPTMIVCP 271 (366)
T ss_pred cEEEEecCCCCCHHHHHHHHHHHHHHcC-CEEEEEEECCcccCCCCCCChhHHHHhCCCceEEEEcC
Confidence 4778999999999999999998887765 49999988777553 1356777777766665443
No 459
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.69 E-value=0.69 Score=53.73 Aligned_cols=70 Identities=20% Similarity=0.184 Sum_probs=50.7
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEccCCCchhhHH-HHHHHHHHH------cC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAK------QG-QGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~------~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
+..+++-|.+..-.++...=.+..+--|||||.-= .=+|.+|.+ .+ ..+|||++||...+.++..-..+.
T Consensus 111 ~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 111 FEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 34567888888888887666677788999999652 233344443 12 336999999999999998877664
No 460
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=90.67 E-value=0.21 Score=50.38 Aligned_cols=21 Identities=38% Similarity=0.719 Sum_probs=18.1
Q ss_pred EEEEccCCCchhhHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+|.||||+||||.+..++..
T Consensus 3 iiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988777765
No 461
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=90.66 E-value=0.2 Score=49.92 Aligned_cols=28 Identities=32% Similarity=0.585 Sum_probs=22.8
Q ss_pred cCCeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 404 QRPISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
..++.+|.||-|||||+++-++.+.|..
T Consensus 18 ~~g~~vi~G~Ng~GKStil~ai~~~L~~ 45 (202)
T PF13476_consen 18 SPGLNVIYGPNGSGKSTILEAIRYALGG 45 (202)
T ss_dssp -SEEEEEEESTTSSHHHHHHHHHHHHHS
T ss_pred CCCcEEEECCCCCCHHHHHHHHHHHHcC
Confidence 3689999999999999999777666643
No 462
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=90.58 E-value=0.35 Score=48.56 Aligned_cols=39 Identities=21% Similarity=0.235 Sum_probs=29.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN 444 (772)
.++..|.|++||||||.+..++..|...+ .+|-++-++.
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g-~~vg~Ik~~~ 44 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARG-IRPGLIKHTH 44 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcC-CeEEEEEEcC
Confidence 35778999999999999999988876544 3666665543
No 463
>COG3911 Predicted ATPase [General function prediction only]
Probab=90.58 E-value=0.21 Score=48.59 Aligned_cols=22 Identities=36% Similarity=0.522 Sum_probs=18.4
Q ss_pred CeEEEEccCCCchhhHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVY 427 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~ 427 (772)
..+++.|+||.||||.++++..
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa~ 31 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALAR 31 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHHH
Confidence 4889999999999998776553
No 464
>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=90.52 E-value=0.37 Score=52.63 Aligned_cols=26 Identities=23% Similarity=0.374 Sum_probs=22.1
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
..+++|.||||||||+.+..++....
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~ 120 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQ 120 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 45789999999999999988876654
No 465
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=90.51 E-value=0.31 Score=53.96 Aligned_cols=23 Identities=30% Similarity=0.335 Sum_probs=18.5
Q ss_pred CeEEEEccCCCchhhHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
+-+|+.||||||||+++..+...
T Consensus 30 ~~vLl~G~pG~gKT~lar~la~l 52 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALAAL 52 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHH
Confidence 56999999999999976655543
No 466
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.48 E-value=2.7 Score=48.28 Aligned_cols=69 Identities=20% Similarity=0.236 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHCCCCCCeEEEEccchHHHHHHHHHHHHc----CCcccccCCCeEEccCCCCCCCcCCEEEEEeeecC
Q 004121 694 NVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN----GALRQQLYKEIEVASVDSFQGREKDYIILSCVRSN 767 (772)
Q Consensus 694 ~V~~iV~~Ll~~gv~~~~IgIITPY~aQv~~I~~~L~~~----~~~~~~~~~~I~V~TVD~FQGrEkDvIIlS~VRSn 767 (772)
++..++.++. ...+.|.+..+.|...++=+|--. +.++..+.+.-++.++..|.-.|-||.|-.-|-|.
T Consensus 416 ~l~~l~~rtf-----~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsR 488 (691)
T KOG0338|consen 416 MLASLITRTF-----QDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASR 488 (691)
T ss_pred HHHHHHHHhc-----ccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhc
Confidence 5566777665 356888999999988887766432 33444445556678899999999999988777654
No 467
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=90.40 E-value=0.99 Score=54.59 Aligned_cols=65 Identities=23% Similarity=0.234 Sum_probs=51.8
Q ss_pred CCCCHHHHHHHHHhhc---CC--eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 389 PELNASQVFAVKSVLQ---RP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 389 ~~LN~sQ~~AV~~aL~---~~--l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..++..|..++...+. .+ -.+|.|.+|+|||.+++.++.. .+.++||++++...++++.+.|...
T Consensus 11 ~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~----~~r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 11 YKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIAR----LQRPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred CCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHH----hCCCEEEEECCHHHHHHHHHHHHHh
Confidence 3578899988887653 22 4679999999999998765543 2458999999999999999999765
No 468
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=90.40 E-value=0.24 Score=47.62 Aligned_cols=22 Identities=23% Similarity=0.359 Sum_probs=18.2
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.||||+|||+++..+...+
T Consensus 2 i~l~G~~GsGKstla~~la~~l 23 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKAL 23 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 5789999999999887776554
No 469
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=90.39 E-value=0.7 Score=55.79 Aligned_cols=62 Identities=23% Similarity=0.287 Sum_probs=49.6
Q ss_pred CHHHHHHHHHhhc---CC--eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 392 NASQVFAVKSVLQ---RP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 392 N~sQ~~AV~~aL~---~~--l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
.-.|..|+..... .+ ..++.|..|||||.|++.++..+ +.++||++++...+.+|..-|...
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 4578778777543 22 55799999999999999877553 358999999999999999998765
No 470
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=90.31 E-value=0.19 Score=54.23 Aligned_cols=24 Identities=29% Similarity=0.412 Sum_probs=19.3
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+.++.|||||||||.+..+..++
T Consensus 3 ~liil~G~pGSGKSTla~~L~~~~ 26 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAAKN 26 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHC
Confidence 367889999999999887766553
No 471
>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=90.28 E-value=0.4 Score=50.81 Aligned_cols=51 Identities=27% Similarity=0.361 Sum_probs=40.2
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
..+++|-|+||.|||+.+..++.+++..++.+||+.+.=.. .+++..|+..
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~-~~~l~~R~la 69 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMS-EEELAARLLA 69 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC-HHHHHHHHHH
Confidence 45999999999999999999999998875569999887443 3456777654
No 472
>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=90.27 E-value=0.45 Score=46.93 Aligned_cols=28 Identities=25% Similarity=0.431 Sum_probs=21.4
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~ 434 (772)
+..|.|.||+||||++.++...|...+.
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~g~ 31 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFARGI 31 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence 4578999999999877777766666543
No 473
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.23 E-value=0.39 Score=53.65 Aligned_cols=38 Identities=18% Similarity=0.324 Sum_probs=26.6
Q ss_pred HHHHHHHHHhhcC----CeEEEEccCCCchhhHHHHHHHHHH
Q 004121 393 ASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 393 ~sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
+...+.+...+.+ +.+++.||||+|||+++..++..+.
T Consensus 23 ~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~ 64 (367)
T PRK14970 23 SHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKIN 64 (367)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 4445555555542 3688999999999988877765554
No 474
>PTZ00088 adenylate kinase 1; Provisional
Probab=90.21 E-value=0.23 Score=52.02 Aligned_cols=21 Identities=24% Similarity=0.452 Sum_probs=17.2
Q ss_pred EEEEccCCCchhhHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (772)
.+|.||||+||||.+..++..
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~ 29 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKK 29 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 789999999999987665543
No 475
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=90.19 E-value=0.23 Score=54.62 Aligned_cols=25 Identities=44% Similarity=0.623 Sum_probs=21.0
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
..-.||.||||||||-.+..+...|
T Consensus 65 GrgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 65 GRGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred ccEEEEECCCCCcHHHHHHHHHHHh
Confidence 3568999999999999888877665
No 476
>PHA00547 hypothetical protein
Probab=90.19 E-value=0.44 Score=50.35 Aligned_cols=36 Identities=31% Similarity=0.408 Sum_probs=28.1
Q ss_pred HHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHH
Q 004121 394 SQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 394 sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
+|.+-|+..-++|+++|+||=|||||..+..++.+.
T Consensus 64 ~~~k~VK~ik~spis~i~G~LGsGKTlLMT~LA~~~ 99 (337)
T PHA00547 64 NAFRLVNFIWDNPLSVIIGKLGTGKTLLLTYLSQTM 99 (337)
T ss_pred HHHHHHHHHhcCCceEEeccCCCchhHHHHHHHHHH
Confidence 455555556679999999999999999877666554
No 477
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=90.18 E-value=0.35 Score=49.26 Aligned_cols=39 Identities=26% Similarity=0.458 Sum_probs=27.1
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHc---CCCcEEEEcCc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPS 443 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApS 443 (772)
.+..+|.|++|+|||+++..++..++.. ...+|.++-+.
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k 79 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPK 79 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCC
Confidence 4578999999999999999999998874 23345555444
No 478
>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=90.17 E-value=0.39 Score=52.56 Aligned_cols=44 Identities=32% Similarity=0.562 Sum_probs=33.1
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEc--CcHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA--PSNVAVDQL 450 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A--pSN~AVD~L 450 (772)
++.++.|.-|+||||++++.+.++.+.+. |+|+++ |.+...|-+
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~-rtLlvS~Dpa~~L~d~l 47 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGK-RTLLVSTDPAHSLSDVL 47 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS--EEEEESSTTTHHHHHH
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCC-CeeEeecCCCccHHHHh
Confidence 46789999999999999999999988764 888874 344444433
No 479
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=90.17 E-value=0.34 Score=58.05 Aligned_cols=51 Identities=24% Similarity=0.375 Sum_probs=30.9
Q ss_pred cCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 004121 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (772)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (772)
.++..+|.||||||||+++..+...+-...-..+++..-+......+...+
T Consensus 49 ~~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~np~~~~~~~~~~v 99 (637)
T PRK13765 49 QRRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPNPEDPNNPKIRTV 99 (637)
T ss_pred hCCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeCCCcchHHHHHHH
Confidence 367899999999999998877665542221134555444333333433333
No 480
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=90.10 E-value=0.4 Score=56.90 Aligned_cols=24 Identities=25% Similarity=0.440 Sum_probs=20.8
Q ss_pred eEEEEccCCCchhhHHHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
.+|++||||+|||+++..++..|.
T Consensus 40 A~Lf~GP~GvGKTTlA~~lAk~L~ 63 (605)
T PRK05896 40 AYIFSGPRGIGKTSIAKIFAKAIN 63 (605)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 578999999999999888887765
No 481
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=90.10 E-value=0.52 Score=46.32 Aligned_cols=54 Identities=20% Similarity=0.387 Sum_probs=32.5
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC--cHHHHHHHHHHHHhcCceEEEe
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP--SNVAVDQLAEKISATGLKVVRL 464 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap--SN~AVD~L~erL~~~~~~vvRl 464 (772)
|+++|.|+.|+|||+.+..++... ...++.++.. ....+|. ..+.+.+..++.+
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~~~---~~~~~~~i~~~~G~~~~d~--~~~~~~~~~v~~l 56 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILTEQ---HGRKIAVIENEFGEVGIDN--QLVVDTDEEIIEM 56 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHhcc---cCCcEEEEecCCCccchhH--HHHhCCCceEEEe
Confidence 578999999999999988766542 2346555443 3344553 3333333444444
No 482
>PTZ00202 tuzin; Provisional
Probab=90.06 E-value=0.92 Score=51.79 Aligned_cols=58 Identities=17% Similarity=0.215 Sum_probs=37.4
Q ss_pred HHHHHHHHHhhc------CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHh
Q 004121 393 ASQVFAVKSVLQ------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (772)
Q Consensus 393 ~sQ~~AV~~aL~------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (772)
+.+..++..+|. ..+.+|.||+|+|||+++..++..+ + ...++.-+. ..+++...+..
T Consensus 268 eaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l---~-~~qL~vNpr--g~eElLr~LL~ 331 (550)
T PTZ00202 268 EAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE---G-MPAVFVDVR--GTEDTLRSVVK 331 (550)
T ss_pred HHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC---C-ceEEEECCC--CHHHHHHHHHH
Confidence 456667777664 2488999999999999887766432 2 234444444 34566665543
No 483
>PRK08760 replicative DNA helicase; Provisional
Probab=89.99 E-value=0.52 Score=54.77 Aligned_cols=52 Identities=21% Similarity=0.238 Sum_probs=40.9
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..+++|-|.||.|||+.+..++..++...+.+|++.+.=.. .++++.|+...
T Consensus 229 G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs-~~ql~~Rl~a~ 280 (476)
T PRK08760 229 TDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMS-ASQLAMRLISS 280 (476)
T ss_pred CceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCC-HHHHHHHHHHh
Confidence 46899999999999999999998887554458988866444 46788888654
No 484
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=89.98 E-value=0.26 Score=50.04 Aligned_cols=26 Identities=35% Similarity=0.588 Sum_probs=18.7
Q ss_pred eEEEEccCCCchhhHHHHH-HHHHHHc
Q 004121 407 ISLIQGPPGTGKTVTSAAI-VYHMAKQ 432 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~i-I~~L~~~ 432 (772)
+.+|.|.||+|||..++.. +...++.
T Consensus 2 I~~~~G~pGsGKS~~av~~~i~~~l~~ 28 (193)
T PF05707_consen 2 IYLITGKPGSGKSYYAVSYVIIPALKK 28 (193)
T ss_dssp EEEEE--TTSSHHHHHHHHHHH-GGGS
T ss_pred EEEEEcCCCCcHhHHHHHHHHHHHHhC
Confidence 5789999999999988877 6666664
No 485
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=89.97 E-value=0.22 Score=50.66 Aligned_cols=25 Identities=24% Similarity=0.594 Sum_probs=18.5
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (772)
-+++|-|+||+|||+++..+...+.
T Consensus 16 ~~~i~aG~~GsGKSt~~~~~~~~~~ 40 (199)
T PF06414_consen 16 TLIIIAGQPGSGKSTLARQLLEEFG 40 (199)
T ss_dssp EEEEEES-TTSTTHHHHHHHHHHT-
T ss_pred EEEEEeCCCCCCHHHHHHHhhhhcc
Confidence 3677889999999998887766543
No 486
>PRK01184 hypothetical protein; Provisional
Probab=89.87 E-value=0.24 Score=49.45 Aligned_cols=16 Identities=44% Similarity=0.544 Sum_probs=13.9
Q ss_pred eEEEEccCCCchhhHH
Q 004121 407 ISLIQGPPGTGKTVTS 422 (772)
Q Consensus 407 l~LIqGPPGTGKT~tl 422 (772)
+.+|.||||+||||++
T Consensus 3 ~i~l~G~~GsGKsT~a 18 (184)
T PRK01184 3 IIGVVGMPGSGKGEFS 18 (184)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5688999999999964
No 487
>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=89.87 E-value=0.45 Score=56.99 Aligned_cols=47 Identities=19% Similarity=0.275 Sum_probs=30.3
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLA 451 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~ 451 (772)
+...++.||||||||+.+..++..+-...-..++++..++.....+.
T Consensus 37 ~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~ 83 (608)
T TIGR00764 37 KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRI 83 (608)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHH
Confidence 56888999999999998877775553321135555555544444443
No 488
>PF13479 AAA_24: AAA domain
Probab=89.84 E-value=0.25 Score=51.08 Aligned_cols=27 Identities=41% Similarity=0.637 Sum_probs=20.5
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcC
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (772)
-++|.|+||+|||+++..+ .++|++..
T Consensus 5 ~~lIyG~~G~GKTt~a~~~---------~k~l~id~ 31 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL---------PKPLFIDT 31 (213)
T ss_pred EEEEECCCCCCHHHHHHhC---------CCeEEEEe
Confidence 3689999999999987665 36666554
No 489
>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=89.82 E-value=0.94 Score=48.74 Aligned_cols=24 Identities=29% Similarity=0.367 Sum_probs=19.8
Q ss_pred CeEEEEccCCCchhhHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
...+|.||||+||||++..++..+
T Consensus 112 ~~~~i~g~~g~GKttl~~~l~~~~ 135 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLRDLARIL 135 (270)
T ss_pred eEEEEEcCCCCCHHHHHHHHhCcc
Confidence 367999999999999887777544
No 490
>PRK06217 hypothetical protein; Validated
Probab=89.80 E-value=0.25 Score=49.64 Aligned_cols=22 Identities=32% Similarity=0.492 Sum_probs=18.4
Q ss_pred EEEEccCCCchhhHHHHHHHHH
Q 004121 408 SLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (772)
.+|.|+||+||||++..+...+
T Consensus 4 I~i~G~~GsGKSTla~~L~~~l 25 (183)
T PRK06217 4 IHITGASGSGTTTLGAALAERL 25 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 6899999999999887776543
No 491
>PRK05595 replicative DNA helicase; Provisional
Probab=89.73 E-value=0.56 Score=54.01 Aligned_cols=52 Identities=25% Similarity=0.262 Sum_probs=40.6
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (772)
..+++|-|.||.|||+.+..++.++....+.+|++.+.= -..++++.|+...
T Consensus 201 g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlE-ms~~~l~~R~~a~ 252 (444)
T PRK05595 201 GDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLE-MSKEQLAYKLLCS 252 (444)
T ss_pred CcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecC-CCHHHHHHHHHHH
Confidence 458999999999999999999988764434589888663 3677888887643
No 492
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=89.72 E-value=0.65 Score=56.71 Aligned_cols=48 Identities=23% Similarity=0.279 Sum_probs=33.4
Q ss_pred CCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHH
Q 004121 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (772)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (772)
..+++|.||||||||+.+..++....+.+ ++++.+..-+..-...+++
T Consensus 60 GsiteI~G~~GsGKTtLal~~~~~a~~~G-~~v~yId~E~t~~~~~A~~ 107 (790)
T PRK09519 60 GRVIEIYGPESSGKTTVALHAVANAQAAG-GVAAFIDAEHALDPDYAKK 107 (790)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcC-CcEEEECCccchhHHHHHH
Confidence 45889999999999999988887766665 3666655544433333333
No 493
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=89.71 E-value=0.36 Score=54.68 Aligned_cols=45 Identities=22% Similarity=0.292 Sum_probs=29.2
Q ss_pred CCcEEEEEcCCCCChhh--hhhhhhcC---CCeEE-EecCCCCCCccccch
Q 004121 551 RFRQVLIDESTQATEPE--CLIPLVLG---AKQVV-LVGDHCQLGPVIMCK 595 (772)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~~---~k~lI-LVGD~~QLpPvv~s~ 595 (772)
++.++|||||..+++.. .|+...-. ...+| ...++..|.|++.|.
T Consensus 117 ~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSR 167 (394)
T PRK07940 117 RWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSR 167 (394)
T ss_pred CcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhh
Confidence 67899999999988765 23333221 22333 456777888988753
No 494
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.70 E-value=0.41 Score=57.34 Aligned_cols=38 Identities=29% Similarity=0.498 Sum_probs=26.0
Q ss_pred CHHHHHHHHHhhc--------CCeEEEEccCCCchhhHHHHHHHHH
Q 004121 392 NASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHM 429 (772)
Q Consensus 392 N~sQ~~AV~~aL~--------~~l~LIqGPPGTGKT~tla~iI~~L 429 (772)
++.+.+.|+..+. ..+.+|.||||+|||+++..+...+
T Consensus 89 ~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 89 HKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred cHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4455555555442 2468999999999999987666443
No 495
>PRK06761 hypothetical protein; Provisional
Probab=89.64 E-value=0.27 Score=53.18 Aligned_cols=26 Identities=27% Similarity=0.514 Sum_probs=22.2
Q ss_pred CeEEEEccCCCchhhHHHHHHHHHHH
Q 004121 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (772)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (772)
.+.+|.||||+||||++..+...+..
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~~ 29 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILSQ 29 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 57899999999999999888877643
No 496
>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=89.57 E-value=0.45 Score=46.91 Aligned_cols=33 Identities=27% Similarity=0.480 Sum_probs=27.6
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEE
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (772)
+.+..+-+|+|||++++.++..+.+.+. +||++
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 4577889999999999999998888764 77765
No 497
>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=89.54 E-value=0.43 Score=52.97 Aligned_cols=38 Identities=16% Similarity=0.301 Sum_probs=29.1
Q ss_pred eEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN 444 (772)
+.++.|+||+||||++..+...|....+.+|.+++.=.
T Consensus 1 ~~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd 38 (340)
T TIGR03575 1 LCVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDD 38 (340)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccc
Confidence 45789999999999988888777643345888876533
No 498
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=89.48 E-value=0.22 Score=55.54 Aligned_cols=22 Identities=45% Similarity=0.741 Sum_probs=18.9
Q ss_pred eEEEEccCCCchhhHHHHHHHH
Q 004121 407 ISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (772)
..+..||||||||..+.+++.+
T Consensus 386 NilfyGPPGTGKTm~ArelAr~ 407 (630)
T KOG0742|consen 386 NILFYGPPGTGKTMFARELARH 407 (630)
T ss_pred heeeeCCCCCCchHHHHHHHhh
Confidence 5789999999999988887754
No 499
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=89.45 E-value=1.5 Score=46.95 Aligned_cols=62 Identities=23% Similarity=0.203 Sum_probs=40.4
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEccCCCchhhHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHH
Q 004121 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (772)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (772)
.+.+.|.-++....... +++=-.|=|||.+++-.++...-.| ..|=|++.+..-+..=++.+
T Consensus 77 ~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~G-~~V~vvT~NdyLA~RD~~~~ 138 (266)
T PF07517_consen 77 RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQG-KGVHVVTSNDYLAKRDAEEM 138 (266)
T ss_dssp ---HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTTS-S-EEEEESSHHHHHHHHHHH
T ss_pred cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHhc-CCcEEEeccHHHhhccHHHH
Confidence 45788998887554433 6677799999999876555444444 58999998877655444443
No 500
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=89.45 E-value=0.3 Score=55.70 Aligned_cols=25 Identities=32% Similarity=0.557 Sum_probs=20.0
Q ss_pred cCCeEEEEccCCCchhhHHHHHHHH
Q 004121 404 QRPISLIQGPPGTGKTVTSAAIVYH 428 (772)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~ 428 (772)
..+..|+.||||||||+++..+...
T Consensus 107 ~~~~iLl~Gp~GtGKT~lAr~lA~~ 131 (412)
T PRK05342 107 QKSNILLIGPTGSGKTLLAQTLARI 131 (412)
T ss_pred CCceEEEEcCCCCCHHHHHHHHHHH
Confidence 3567899999999999987666543
Done!