Query 002849
Match_columns 874
No_of_seqs 521 out of 2662
Neff 7.4
Searched_HMMs 46136
Date Thu Mar 28 12:02:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002849.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002849hhsearch_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 1.8E-86 3.9E-91 733.8 39.4 640 126-813 117-838 (935)
2 KOG1803 DNA helicase [Replicat 100.0 9.4E-78 2E-82 667.6 32.1 496 289-816 74-633 (649)
3 TIGR00376 DNA helicase, putati 100.0 8.7E-73 1.9E-77 670.4 48.5 486 288-814 56-633 (637)
4 KOG1804 RNA helicase [RNA proc 100.0 4.3E-66 9.3E-71 602.9 14.9 554 230-819 159-727 (775)
5 KOG1805 DNA replication helica 100.0 5.5E-64 1.2E-68 577.9 26.8 386 388-810 667-1074(1100)
6 KOG1807 Helicases [Replication 100.0 9.9E-47 2.2E-51 423.9 21.9 282 507-814 696-979 (1025)
7 COG1112 Superfamily I DNA and 100.0 1.7E-42 3.7E-47 427.4 28.0 404 384-816 268-754 (767)
8 KOG1801 tRNA-splicing endonucl 100.0 8.5E-34 1.8E-38 344.8 23.1 289 509-815 514-813 (827)
9 PF13087 AAA_12: AAA domain; P 100.0 5.2E-35 1.1E-39 301.7 9.9 193 586-791 1-200 (200)
10 KOG1806 DEAD box containing he 100.0 5.2E-29 1.1E-33 288.0 9.9 404 391-821 739-1278(1320)
11 PRK11054 helD DNA helicase IV; 100.0 1.3E-27 2.9E-32 285.5 20.3 221 531-791 429-664 (684)
12 PF13086 AAA_11: AAA domain; P 100.0 5E-28 1.1E-32 254.3 13.6 180 390-578 1-235 (236)
13 TIGR01447 recD exodeoxyribonuc 99.9 1.5E-24 3.1E-29 255.4 22.4 201 393-628 148-366 (586)
14 PRK10875 recD exonuclease V su 99.9 7.4E-24 1.6E-28 249.7 21.6 203 391-628 153-377 (615)
15 TIGR01448 recD_rel helicase, p 99.9 2.1E-23 4.5E-28 252.2 22.0 299 388-793 321-701 (720)
16 TIGR01075 uvrD DNA helicase II 99.9 2E-23 4.3E-28 254.6 18.9 310 389-737 3-379 (715)
17 PRK11773 uvrD DNA-dependent he 99.9 2.6E-23 5.5E-28 253.5 19.3 310 389-737 8-384 (721)
18 PRK10919 ATP-dependent DNA hel 99.9 8.2E-23 1.8E-27 246.4 22.3 313 390-741 2-383 (672)
19 TIGR01073 pcrA ATP-dependent D 99.9 4.3E-23 9.4E-28 252.2 18.8 311 389-737 3-381 (726)
20 TIGR02768 TraA_Ti Ti-type conj 99.9 3.8E-21 8.3E-26 233.3 22.8 159 389-620 351-509 (744)
21 TIGR02785 addA_Gpos recombinat 99.9 2E-21 4.3E-26 247.8 19.6 93 531-631 387-482 (1232)
22 TIGR01074 rep ATP-dependent DN 99.9 6.3E-21 1.4E-25 231.6 18.9 310 390-737 1-378 (664)
23 TIGR00609 recB exodeoxyribonuc 99.8 5.2E-21 1.1E-25 241.5 14.8 167 531-716 295-485 (1087)
24 COG1074 RecB ATP-dependent exo 99.8 5.6E-21 1.2E-25 241.5 11.6 177 531-720 377-574 (1139)
25 PRK13909 putative recombinatio 99.8 1.5E-20 3.3E-25 234.0 14.9 156 531-720 327-491 (910)
26 PRK13889 conjugal transfer rel 99.8 7.6E-20 1.6E-24 223.9 18.8 172 389-633 345-516 (988)
27 PRK13826 Dtr system oriT relax 99.8 3.9E-19 8.5E-24 218.4 24.1 159 389-620 380-538 (1102)
28 PF13604 AAA_30: AAA domain; P 99.8 4.3E-19 9.2E-24 182.7 12.7 176 390-633 1-177 (196)
29 COG0210 UvrD Superfamily I DNA 99.8 5.3E-19 1.2E-23 214.6 15.4 314 390-740 2-390 (655)
30 COG3973 Superfamily I DNA and 99.7 4.3E-18 9.3E-23 190.8 11.7 208 530-789 526-745 (747)
31 KOG1804 RNA helicase [RNA proc 99.7 2.4E-18 5.2E-23 202.9 4.3 458 337-813 66-544 (775)
32 PRK14712 conjugal transfer nic 99.7 2.5E-16 5.3E-21 198.7 19.7 173 389-626 834-1008(1623)
33 PRK13709 conjugal transfer nic 99.7 4.3E-16 9.2E-21 199.2 18.9 178 389-632 966-1145(1747)
34 PF01443 Viral_helicase1: Vira 99.6 6.4E-16 1.4E-20 163.3 11.5 49 729-787 184-233 (234)
35 TIGR02784 addA_alphas double-s 99.6 1.8E-15 3.9E-20 193.5 17.6 174 531-712 390-596 (1141)
36 PF00580 UvrD-helicase: UvrD/R 99.6 3.3E-16 7.2E-21 172.3 7.8 66 391-461 1-68 (315)
37 COG3972 Superfamily I DNA and 99.6 3.8E-15 8.3E-20 163.6 13.7 378 389-804 161-584 (660)
38 TIGR02760 TraI_TIGR conjugativ 99.6 7.8E-15 1.7E-19 192.8 16.6 169 389-625 1018-1191(1960)
39 PRK10876 recB exonuclease V su 99.6 8.2E-15 1.8E-19 186.0 14.4 167 531-716 376-567 (1181)
40 PF09848 DUF2075: Uncharacteri 99.4 7.2E-13 1.6E-17 149.0 12.6 169 410-633 3-183 (352)
41 TIGR02760 TraI_TIGR conjugativ 99.3 7.3E-11 1.6E-15 155.9 19.1 145 389-575 428-572 (1960)
42 PF13245 AAA_19: Part of AAA d 99.3 1.2E-11 2.5E-16 107.2 7.5 60 397-458 1-62 (76)
43 PF05970 PIF1: PIF1-like helic 99.3 1.1E-11 2.4E-16 139.8 9.2 63 390-454 1-66 (364)
44 COG0507 RecD ATP-dependent exo 99.2 2.9E-11 6.2E-16 148.0 10.3 136 389-579 318-453 (696)
45 PF02562 PhoH: PhoH-like prote 99.2 1.1E-10 2.4E-15 119.9 9.9 153 390-571 4-157 (205)
46 PF13361 UvrD_C: UvrD-like hel 98.9 1E-09 2.3E-14 122.1 5.0 93 609-716 1-93 (351)
47 PRK10536 hypothetical protein; 98.9 6.3E-09 1.4E-13 109.8 10.4 150 389-571 58-214 (262)
48 smart00487 DEXDc DEAD-like hel 98.9 1.9E-08 4.2E-13 101.7 13.5 160 389-571 7-172 (201)
49 cd00046 DEXDc DEAD-like helica 98.8 5.5E-08 1.2E-12 92.5 11.7 115 411-547 3-118 (144)
50 PF00270 DEAD: DEAD/DEAH box h 98.6 2.4E-07 5.1E-12 92.4 11.9 131 392-547 1-133 (169)
51 TIGR02773 addB_Gpos ATP-depend 98.6 1.1E-07 2.4E-12 122.7 11.4 164 532-729 196-366 (1158)
52 PF04851 ResIII: Type III rest 98.6 4.4E-07 9.5E-12 91.5 13.2 65 390-459 3-71 (184)
53 PF07652 Flavi_DEAD: Flaviviru 98.5 1.6E-06 3.4E-11 83.4 11.4 110 410-554 6-116 (148)
54 COG1875 NYN ribonuclease and A 98.4 2E-06 4.3E-11 93.4 12.1 199 389-617 227-426 (436)
55 PHA02558 uvsW UvsW helicase; P 98.4 3.1E-06 6.6E-11 99.9 15.0 127 389-549 113-239 (501)
56 cd00268 DEADc DEAD-box helicas 98.4 2.1E-06 4.5E-11 88.7 10.6 132 390-546 21-157 (203)
57 KOG0989 Replication factor C, 98.3 1.1E-06 2.4E-11 93.5 6.9 49 529-578 126-178 (346)
58 PTZ00424 helicase 45; Provisio 98.2 7.9E-06 1.7E-10 93.7 12.9 131 389-544 49-182 (401)
59 PRK11192 ATP-dependent RNA hel 98.2 1.2E-05 2.7E-10 93.2 13.5 132 389-544 22-159 (434)
60 TIGR00603 rad25 DNA repair hel 98.2 2.7E-05 5.9E-10 93.9 15.9 151 389-571 254-413 (732)
61 COG1061 SSL2 DNA or RNA helica 98.2 1.9E-05 4.1E-10 91.7 13.8 130 387-550 33-164 (442)
62 PRK05580 primosome assembly pr 98.1 1.4E-05 3.1E-10 97.4 12.8 128 389-544 143-270 (679)
63 TIGR00643 recG ATP-dependent D 98.1 1.4E-05 3.1E-10 96.8 12.6 70 389-460 234-306 (630)
64 TIGR01970 DEAH_box_HrpB ATP-de 98.1 2.3E-05 5E-10 96.7 14.3 118 395-542 6-123 (819)
65 PRK10590 ATP-dependent RNA hel 98.1 2E-05 4.3E-10 92.1 13.2 133 389-545 22-162 (456)
66 PRK11776 ATP-dependent RNA hel 98.1 2.2E-05 4.8E-10 91.8 13.5 134 389-545 25-160 (460)
67 PRK11448 hsdR type I restricti 98.1 1.4E-05 3.1E-10 101.3 12.0 133 389-544 412-552 (1123)
68 COG4096 HsdR Type I site-speci 98.1 1.4E-05 3.1E-10 94.8 10.8 124 389-542 164-295 (875)
69 TIGR00580 mfd transcription-re 98.1 2E-05 4.4E-10 98.2 12.7 140 389-554 450-594 (926)
70 PRK11664 ATP-dependent RNA hel 98.1 2.1E-05 4.5E-10 97.3 12.6 119 395-543 9-127 (812)
71 PF13538 UvrD_C_2: UvrD-like h 98.1 9.2E-07 2E-11 81.2 0.5 50 727-787 55-104 (104)
72 PRK11634 ATP-dependent RNA hel 98.1 2.4E-05 5.3E-10 94.4 12.8 134 389-545 27-162 (629)
73 PRK02362 ski2-like helicase; P 98.0 5.1E-05 1.1E-09 93.9 15.4 129 389-546 22-151 (737)
74 TIGR01967 DEAH_box_HrpA ATP-de 98.0 0.00023 5E-09 90.6 21.2 128 395-551 71-199 (1283)
75 PRK04837 ATP-dependent RNA hel 98.0 2.6E-05 5.7E-10 90.2 11.8 133 389-545 29-170 (423)
76 PRK10917 ATP-dependent DNA hel 98.0 4.4E-05 9.6E-10 93.3 14.2 70 389-460 260-332 (681)
77 PRK01172 ski2-like helicase; P 98.0 5E-05 1.1E-09 93.1 14.6 126 389-545 21-148 (674)
78 PRK04537 ATP-dependent RNA hel 98.0 3.3E-05 7E-10 92.6 11.1 132 389-545 30-172 (572)
79 PRK09401 reverse gyrase; Revie 98.0 4.7E-05 1E-09 97.3 13.0 132 389-544 79-213 (1176)
80 PRK10689 transcription-repair 97.9 4.5E-05 9.7E-10 97.3 12.5 71 388-460 598-671 (1147)
81 COG1702 PhoH Phosphate starvat 97.9 1.4E-05 3E-10 86.9 6.7 55 389-446 127-181 (348)
82 PRK04296 thymidine kinase; Pro 97.9 1.9E-05 4.2E-10 81.0 6.7 35 410-446 4-38 (190)
83 PRK01297 ATP-dependent RNA hel 97.9 9.4E-05 2E-09 86.9 13.0 133 389-544 108-249 (475)
84 COG4098 comFA Superfamily II D 97.9 8.7E-05 1.9E-09 79.9 11.0 120 388-546 95-215 (441)
85 cd00009 AAA The AAA+ (ATPases 97.8 0.00017 3.6E-09 69.0 11.9 62 392-455 3-64 (151)
86 PLN03025 replication factor C 97.8 9E-05 2E-09 82.5 11.3 42 392-433 18-59 (319)
87 KOG2108 3'-5' DNA helicase [Re 97.8 2.6E-06 5.7E-11 101.0 -1.1 70 387-461 10-81 (853)
88 PF02399 Herpes_ori_bp: Origin 97.8 0.0005 1.1E-08 82.6 17.8 51 409-460 50-100 (824)
89 PRK00254 ski2-like helicase; P 97.8 0.00026 5.6E-09 87.5 15.6 129 389-545 22-151 (720)
90 PTZ00110 helicase; Provisional 97.8 0.00011 2.3E-09 87.8 11.8 133 389-545 151-290 (545)
91 KOG0991 Replication factor C, 97.8 7.3E-05 1.6E-09 76.7 8.1 43 391-433 31-73 (333)
92 PLN00206 DEAD-box ATP-dependen 97.8 0.0002 4.3E-09 85.1 13.0 132 389-544 142-282 (518)
93 TIGR01054 rgy reverse gyrase. 97.8 0.00011 2.3E-09 94.2 11.3 134 390-546 78-213 (1171)
94 TIGR03817 DECH_helic helicase/ 97.8 9.1E-05 2E-09 91.2 10.3 69 389-460 35-103 (742)
95 TIGR00348 hsdR type I site-spe 97.7 0.00029 6.2E-09 86.0 14.3 154 391-570 239-403 (667)
96 COG1198 PriA Primosomal protei 97.7 0.00012 2.5E-09 88.4 10.5 128 389-544 197-325 (730)
97 PF13401 AAA_22: AAA domain; P 97.7 2.6E-05 5.7E-10 74.3 3.6 52 409-460 5-60 (131)
98 PRK14712 conjugal transfer nic 97.7 0.00019 4.2E-09 92.7 12.2 126 390-572 281-407 (1623)
99 TIGR01587 cas3_core CRISPR-ass 97.7 0.00012 2.6E-09 82.7 9.3 50 411-460 2-51 (358)
100 PF00176 SNF2_N: SNF2 family N 97.7 0.00013 2.8E-09 79.8 9.1 155 394-571 1-174 (299)
101 PRK08084 DNA replication initi 97.6 0.00028 6E-09 75.0 10.7 62 383-446 20-81 (235)
102 PRK13766 Hef nuclease; Provisi 97.6 0.00044 9.5E-09 86.3 13.9 131 390-547 15-146 (773)
103 PRK09694 helicase Cas3; Provis 97.6 0.00029 6.2E-09 87.4 11.4 69 389-460 285-353 (878)
104 PRK13767 ATP-dependent helicas 97.6 7.8E-05 1.7E-09 93.6 6.6 68 390-460 32-106 (876)
105 PRK14701 reverse gyrase; Provi 97.6 0.00029 6.2E-09 92.5 11.7 131 390-544 79-212 (1638)
106 TIGR02784 addA_alphas double-s 97.5 9.8E-05 2.1E-09 95.6 5.7 51 410-460 12-63 (1141)
107 PRK14956 DNA polymerase III su 97.4 0.00036 7.7E-09 80.6 8.7 38 396-433 27-65 (484)
108 PRK12402 replication factor C 97.4 0.00097 2.1E-08 74.5 11.9 43 392-434 20-62 (337)
109 COG1204 Superfamily II helicas 97.4 0.0008 1.7E-08 82.6 11.8 130 390-547 31-161 (766)
110 PRK14958 DNA polymerase III su 97.4 0.00048 1E-08 81.1 9.5 48 531-579 118-169 (509)
111 PRK11131 ATP-dependent RNA hel 97.4 0.00067 1.5E-08 86.3 10.7 127 395-550 78-205 (1294)
112 PRK14088 dnaA chromosomal repl 97.4 0.00093 2E-08 77.6 11.2 55 392-446 113-168 (440)
113 TIGR00614 recQ_fam ATP-depende 97.4 0.00055 1.2E-08 80.4 9.2 64 389-460 10-73 (470)
114 PRK12323 DNA polymerase III su 97.4 0.00061 1.3E-08 80.8 9.4 50 531-580 123-175 (700)
115 PRK10876 recB exonuclease V su 97.4 0.00021 4.7E-09 92.0 6.2 52 409-460 18-79 (1181)
116 TIGR00595 priA primosomal prot 97.3 0.00056 1.2E-08 80.7 8.8 105 412-544 1-105 (505)
117 PRK13709 conjugal transfer nic 97.3 0.0012 2.7E-08 86.6 12.2 126 392-573 415-541 (1747)
118 TIGR01075 uvrD DNA helicase II 97.3 9.1E-05 2E-09 91.4 1.4 63 726-789 547-610 (715)
119 COG0513 SrmB Superfamily II DN 97.3 0.0018 3.8E-08 76.8 12.1 135 389-548 50-190 (513)
120 TIGR03420 DnaA_homol_Hda DnaA 97.3 0.0019 4.2E-08 67.8 11.1 58 387-446 17-74 (226)
121 PRK06893 DNA replication initi 97.2 0.0019 4E-08 68.4 10.9 36 409-446 40-75 (229)
122 COG2256 MGS1 ATPase related to 97.2 0.0011 2.3E-08 73.7 9.1 58 397-459 37-94 (436)
123 TIGR03158 cas3_cyano CRISPR-as 97.2 0.0017 3.6E-08 73.5 11.1 61 394-460 1-61 (357)
124 COG1643 HrpA HrpA-like helicas 97.2 0.0011 2.4E-08 81.4 10.0 65 394-461 53-117 (845)
125 PHA02653 RNA helicase NPH-II; 97.2 0.0011 2.3E-08 80.4 9.8 65 393-460 167-244 (675)
126 PF05127 Helicase_RecD: Helica 97.2 0.00018 4E-09 72.4 2.8 48 412-460 1-48 (177)
127 PRK10919 ATP-dependent DNA hel 97.2 0.00011 2.5E-09 89.6 1.6 62 726-789 550-612 (672)
128 PRK14974 cell division protein 97.2 0.0027 5.9E-08 70.8 12.2 45 410-456 142-189 (336)
129 KOG0354 DEAD-box like helicase 97.2 0.0017 3.8E-08 77.5 11.2 131 389-546 61-193 (746)
130 TIGR01073 pcrA ATP-dependent D 97.2 0.00013 2.7E-09 90.3 1.8 60 726-789 548-611 (726)
131 PF13173 AAA_14: AAA domain 97.2 0.0017 3.6E-08 62.2 9.2 40 409-451 3-42 (128)
132 TIGR03015 pepcterm_ATPase puta 97.2 0.00085 1.8E-08 72.4 7.8 40 392-431 25-66 (269)
133 PF00308 Bac_DnaA: Bacterial d 97.2 0.0039 8.4E-08 65.6 12.4 56 391-446 15-72 (219)
134 COG1111 MPH1 ERCC4-like helica 97.2 0.0016 3.5E-08 73.9 10.0 135 392-553 17-152 (542)
135 PRK04914 ATP-dependent helicas 97.1 0.004 8.7E-08 78.0 13.9 163 389-575 151-321 (956)
136 PRK07994 DNA polymerase III su 97.1 0.0015 3.3E-08 78.4 9.7 42 393-434 22-64 (647)
137 COG4889 Predicted helicase [Ge 97.1 0.0021 4.5E-08 76.5 10.4 151 389-545 160-317 (1518)
138 PRK07003 DNA polymerase III su 97.1 0.0018 3.9E-08 77.9 10.1 41 393-433 22-63 (830)
139 PRK11773 uvrD DNA-dependent he 97.1 0.00015 3.3E-09 89.4 1.3 60 726-789 552-615 (721)
140 PRK14087 dnaA chromosomal repl 97.1 0.0029 6.3E-08 73.6 11.7 38 409-446 142-179 (450)
141 PRK14962 DNA polymerase III su 97.1 0.0015 3.2E-08 76.3 8.7 40 393-432 20-60 (472)
142 PRK00440 rfc replication facto 97.1 0.0045 9.8E-08 68.5 12.2 42 392-433 22-63 (319)
143 COG0470 HolB ATPase involved i 97.1 0.0028 6.1E-08 70.2 10.6 130 408-579 23-159 (325)
144 PRK00149 dnaA chromosomal repl 97.0 0.003 6.5E-08 73.7 10.9 56 392-447 130-187 (450)
145 PRK14949 DNA polymerase III su 97.0 0.0014 3E-08 80.2 8.2 47 531-578 118-168 (944)
146 KOG0952 DNA/RNA helicase MER3/ 97.0 0.0017 3.6E-08 79.0 8.5 70 389-460 109-186 (1230)
147 PRK14952 DNA polymerase III su 97.0 0.0022 4.9E-08 76.4 9.7 42 392-433 18-60 (584)
148 PRK06526 transposase; Provisio 97.0 0.0015 3.3E-08 70.1 7.4 52 389-444 79-132 (254)
149 COG1200 RecG RecG-like helicas 97.0 0.0022 4.8E-08 75.6 9.1 139 389-550 261-402 (677)
150 PRK05563 DNA polymerase III su 97.0 0.0029 6.4E-08 75.5 10.5 49 531-579 118-169 (559)
151 COG1110 Reverse gyrase [DNA re 97.0 0.004 8.7E-08 75.8 11.3 129 390-541 82-212 (1187)
152 TIGR01389 recQ ATP-dependent D 97.0 0.0028 6E-08 76.7 10.0 64 389-460 12-75 (591)
153 PRK08727 hypothetical protein; 96.9 0.0054 1.2E-07 65.1 10.9 35 409-445 42-76 (233)
154 PRK11057 ATP-dependent DNA hel 96.9 0.0036 7.7E-08 75.9 10.7 64 389-460 24-87 (607)
155 PRK14960 DNA polymerase III su 96.9 0.0026 5.7E-08 75.7 8.9 39 395-433 23-62 (702)
156 PRK05642 DNA replication initi 96.9 0.0073 1.6E-07 64.2 11.5 62 383-446 17-81 (234)
157 TIGR00362 DnaA chromosomal rep 96.9 0.0031 6.8E-08 72.6 9.3 38 409-446 137-174 (405)
158 KOG4284 DEAD box protein [Tran 96.9 0.0009 2E-08 77.2 4.7 133 392-549 49-184 (980)
159 TIGR02881 spore_V_K stage V sp 96.9 0.0023 5E-08 69.1 7.7 25 409-433 43-67 (261)
160 PRK14963 DNA polymerase III su 96.9 0.0049 1.1E-07 72.6 10.8 38 397-434 24-62 (504)
161 KOG0328 Predicted ATP-dependen 96.9 0.0015 3.4E-08 68.6 5.7 151 391-566 50-206 (400)
162 PRK13342 recombination factor 96.9 0.0042 9E-08 71.7 9.8 30 399-428 27-56 (413)
163 TIGR02621 cas3_GSU0051 CRISPR- 96.8 0.0053 1.2E-07 75.4 10.8 69 391-461 16-85 (844)
164 PRK14969 DNA polymerase III su 96.8 0.0049 1.1E-07 73.2 10.2 49 531-579 118-169 (527)
165 PRK07133 DNA polymerase III su 96.8 0.0043 9.3E-08 75.1 9.7 42 392-433 23-65 (725)
166 KOG0920 ATP-dependent RNA heli 96.8 0.0079 1.7E-07 74.0 11.8 119 394-542 176-297 (924)
167 PF13177 DNA_pol3_delta2: DNA 96.8 0.0074 1.6E-07 60.4 9.8 42 396-437 6-48 (162)
168 TIGR00635 ruvB Holliday juncti 96.8 0.0046 9.9E-08 68.2 8.9 21 409-429 31-51 (305)
169 KOG2108 3'-5' DNA helicase [Re 96.8 0.0015 3.2E-08 78.3 5.2 59 728-787 675-740 (853)
170 PRK14961 DNA polymerase III su 96.7 0.0063 1.4E-07 69.0 9.9 37 397-433 26-63 (363)
171 PRK14951 DNA polymerase III su 96.7 0.0051 1.1E-07 73.7 9.5 48 531-579 123-174 (618)
172 PRK05896 DNA polymerase III su 96.7 0.005 1.1E-07 73.1 9.1 41 393-433 22-63 (605)
173 PRK12723 flagellar biosynthesi 96.7 0.0048 1E-07 70.1 8.7 37 410-446 176-214 (388)
174 PRK08691 DNA polymerase III su 96.7 0.0068 1.5E-07 72.8 10.3 41 393-433 22-63 (709)
175 PRK07246 bifunctional ATP-depe 96.7 0.0049 1.1E-07 76.9 9.4 61 390-455 245-308 (820)
176 PRK14964 DNA polymerase III su 96.7 0.0079 1.7E-07 70.3 10.5 41 392-432 18-59 (491)
177 PHA02544 44 clamp loader, smal 96.7 0.0077 1.7E-07 66.8 10.0 40 390-429 24-64 (316)
178 KOG0345 ATP-dependent RNA heli 96.7 0.014 3E-07 65.8 11.6 135 389-546 27-171 (567)
179 PRK14948 DNA polymerase III su 96.7 0.006 1.3E-07 73.6 9.7 38 396-433 25-63 (620)
180 PRK07940 DNA polymerase III su 96.7 0.0053 1.2E-07 70.1 8.8 49 531-579 116-167 (394)
181 PRK12422 chromosomal replicati 96.7 0.0089 1.9E-07 69.5 10.7 36 409-446 142-177 (445)
182 TIGR02397 dnaX_nterm DNA polym 96.7 0.0062 1.3E-07 68.6 9.2 43 391-433 18-61 (355)
183 PRK13341 recombination factor 96.6 0.0067 1.4E-07 74.3 9.9 32 398-429 42-73 (725)
184 PRK14086 dnaA chromosomal repl 96.6 0.01 2.2E-07 70.6 11.0 38 409-446 315-352 (617)
185 PRK05707 DNA polymerase III su 96.6 0.0058 1.3E-07 68.1 8.4 50 531-580 105-157 (328)
186 COG1435 Tdk Thymidine kinase [ 96.6 0.0092 2E-07 60.5 8.8 34 533-567 83-117 (201)
187 PRK14957 DNA polymerase III su 96.6 0.0069 1.5E-07 71.7 9.2 41 393-433 22-63 (546)
188 PRK12899 secA preprotein trans 96.6 0.0076 1.7E-07 74.0 9.4 65 391-460 93-157 (970)
189 KOG0330 ATP-dependent RNA heli 96.5 0.0052 1.1E-07 67.6 7.1 156 390-570 83-245 (476)
190 cd00561 CobA_CobO_BtuR ATP:cor 96.5 0.011 2.5E-07 58.6 9.0 127 409-570 3-138 (159)
191 cd03115 SRP The signal recogni 96.5 0.014 3E-07 58.7 10.0 33 411-445 3-35 (173)
192 TIGR01074 rep ATP-dependent DN 96.5 0.00075 1.6E-08 82.8 0.8 64 725-789 549-612 (664)
193 KOG0922 DEAH-box RNA helicase 96.5 0.024 5.2E-07 66.6 12.7 53 409-462 67-119 (674)
194 COG1201 Lhr Lhr-like helicases 96.5 0.01 2.3E-07 72.5 10.2 132 389-544 21-161 (814)
195 PHA03333 putative ATPase subun 96.5 0.031 6.6E-07 66.7 13.7 63 394-460 176-238 (752)
196 PRK14965 DNA polymerase III su 96.5 0.0082 1.8E-07 72.1 9.2 42 392-433 21-63 (576)
197 PRK06645 DNA polymerase III su 96.5 0.011 2.5E-07 69.4 10.0 25 409-433 44-68 (507)
198 PRK04195 replication factor C 96.5 0.012 2.6E-07 69.3 10.3 40 391-430 18-61 (482)
199 PRK07952 DNA replication prote 96.5 0.0076 1.6E-07 64.3 7.7 62 392-460 78-144 (244)
200 PRK13833 conjugal transfer pro 96.4 0.0058 1.3E-07 67.7 7.0 53 389-443 127-179 (323)
201 TIGR00678 holB DNA polymerase 96.4 0.0098 2.1E-07 60.8 8.2 36 399-434 4-40 (188)
202 PRK09112 DNA polymerase III su 96.4 0.018 3.9E-07 64.8 10.8 43 392-434 28-71 (351)
203 PRK00771 signal recognition pa 96.4 0.012 2.6E-07 67.9 9.5 35 410-446 97-131 (437)
204 PRK08451 DNA polymerase III su 96.4 0.016 3.4E-07 68.5 10.4 41 393-433 20-61 (535)
205 PF14874 PapD-like: Flagellar- 96.3 0.075 1.6E-06 48.5 12.6 78 47-152 11-89 (102)
206 PHA03311 helicase-primase subu 96.3 0.018 4E-07 68.5 10.4 106 336-460 9-116 (828)
207 PRK07471 DNA polymerase III su 96.3 0.023 5E-07 64.3 11.0 43 393-435 25-68 (365)
208 smart00382 AAA ATPases associa 96.3 0.0021 4.7E-08 60.5 2.3 46 409-456 3-48 (148)
209 PRK14959 DNA polymerase III su 96.3 0.012 2.7E-07 70.2 9.0 42 392-433 21-63 (624)
210 COG0593 DnaA ATPase involved i 96.2 0.028 6.1E-07 63.9 11.1 59 392-450 94-155 (408)
211 PRK08074 bifunctional ATP-depe 96.2 0.022 4.9E-07 72.3 11.3 64 391-457 258-324 (928)
212 PRK05986 cob(I)alamin adenolsy 96.2 0.033 7.2E-07 56.9 10.4 38 409-448 23-60 (191)
213 cd01124 KaiC KaiC is a circadi 96.2 0.0074 1.6E-07 61.2 5.7 47 411-460 2-48 (187)
214 PRK08769 DNA polymerase III su 96.2 0.025 5.3E-07 62.8 10.2 50 531-580 112-164 (319)
215 KOG0987 DNA helicase PIF1/RRM3 96.2 0.0067 1.5E-07 72.2 6.1 61 389-453 116-180 (540)
216 COG1205 Distinct helicase fami 96.2 0.026 5.6E-07 70.6 11.4 134 389-545 69-207 (851)
217 PRK13894 conjugal transfer ATP 96.2 0.0097 2.1E-07 66.1 6.9 55 390-446 132-186 (319)
218 PRK06647 DNA polymerase III su 96.2 0.017 3.8E-07 68.9 9.4 42 392-433 21-63 (563)
219 TIGR03714 secA2 accessory Sec 96.2 0.025 5.3E-07 69.0 10.7 66 390-460 68-133 (762)
220 PLN03142 Probable chromatin-re 96.1 0.03 6.4E-07 70.8 11.3 159 389-571 168-331 (1033)
221 KOG0923 mRNA splicing factor A 96.1 0.02 4.4E-07 66.8 8.7 57 409-465 281-337 (902)
222 PRK08058 DNA polymerase III su 96.0 0.024 5.3E-07 63.4 9.3 49 531-579 109-160 (329)
223 PRK07764 DNA polymerase III su 96.0 0.026 5.6E-07 70.1 10.3 41 393-433 21-62 (824)
224 PRK09111 DNA polymerase III su 96.0 0.024 5.3E-07 68.1 9.8 43 392-434 29-72 (598)
225 PF00448 SRP54: SRP54-type pro 96.0 0.012 2.7E-07 60.6 6.3 43 410-454 3-48 (196)
226 PRK08181 transposase; Validate 96.0 0.02 4.4E-07 62.0 8.1 62 389-459 86-150 (269)
227 PRK11889 flhF flagellar biosyn 96.0 0.028 6E-07 63.5 9.2 44 410-455 243-289 (436)
228 PRK12377 putative replication 96.0 0.014 2.9E-07 62.5 6.5 53 392-446 80-137 (248)
229 TIGR02782 TrbB_P P-type conjug 96.0 0.014 3.1E-07 64.3 6.8 54 390-445 116-169 (299)
230 TIGR00708 cobA cob(I)alamin ad 95.9 0.039 8.5E-07 55.5 9.3 37 409-447 6-42 (173)
231 PF13191 AAA_16: AAA ATPase do 95.9 0.017 3.6E-07 58.3 6.8 43 393-435 6-51 (185)
232 PRK06620 hypothetical protein; 95.9 0.033 7.1E-07 58.3 9.1 38 532-569 85-122 (214)
233 COG2804 PulE Type II secretory 95.9 0.016 3.4E-07 66.8 7.0 43 390-433 241-283 (500)
234 KOG0743 AAA+-type ATPase [Post 95.8 0.0088 1.9E-07 67.6 4.6 21 411-431 238-258 (457)
235 smart00488 DEXDc2 DEAD-like he 95.8 0.035 7.6E-07 60.9 9.1 67 392-460 10-83 (289)
236 smart00489 DEXDc3 DEAD-like he 95.8 0.035 7.6E-07 60.9 9.1 67 392-460 10-83 (289)
237 PRK14970 DNA polymerase III su 95.8 0.043 9.3E-07 62.3 10.2 40 392-431 22-62 (367)
238 PTZ00293 thymidine kinase; Pro 95.8 0.035 7.7E-07 57.6 8.5 36 410-447 6-41 (211)
239 PF00004 AAA: ATPase family as 95.8 0.0068 1.5E-07 57.4 3.0 21 411-431 1-21 (132)
240 KOG0331 ATP-dependent RNA heli 95.8 0.039 8.5E-07 64.1 9.6 132 389-545 112-252 (519)
241 PRK08903 DnaA regulatory inact 95.8 0.027 5.9E-07 59.3 7.8 60 384-445 17-77 (227)
242 PRK05703 flhF flagellar biosyn 95.8 0.051 1.1E-06 62.8 10.6 37 410-446 223-259 (424)
243 PRK10867 signal recognition pa 95.7 0.048 1E-06 62.9 10.2 40 410-450 102-142 (433)
244 PRK05564 DNA polymerase III su 95.7 0.044 9.5E-07 60.9 9.6 42 392-433 9-51 (313)
245 PF00265 TK: Thymidine kinase; 95.7 0.04 8.7E-07 55.8 8.4 35 410-446 3-37 (176)
246 cd01129 PulE-GspE PulE/GspE Th 95.7 0.018 3.9E-07 62.4 6.2 52 390-444 63-114 (264)
247 PRK09751 putative ATP-dependen 95.7 0.016 3.5E-07 75.4 6.8 48 413-460 1-59 (1490)
248 PRK06851 hypothetical protein; 95.7 0.0083 1.8E-07 67.5 3.6 47 409-455 31-77 (367)
249 PRK14953 DNA polymerase III su 95.6 0.055 1.2E-06 63.7 10.3 36 397-432 26-62 (486)
250 PLN03137 ATP-dependent DNA hel 95.6 0.05 1.1E-06 68.5 10.2 64 389-460 459-522 (1195)
251 PF01695 IstB_IS21: IstB-like 95.6 0.019 4.1E-07 58.4 5.5 44 410-460 49-92 (178)
252 TIGR02928 orc1/cdc6 family rep 95.6 0.028 6E-07 63.6 7.5 43 392-434 20-66 (365)
253 KOG0926 DEAH-box RNA helicase 95.5 0.046 1E-06 65.1 9.0 62 397-461 263-328 (1172)
254 PRK12727 flagellar biosynthesi 95.5 0.037 8E-07 64.7 8.2 37 409-445 351-387 (559)
255 PHA03368 DNA packaging termina 95.5 0.13 2.7E-06 61.4 12.3 50 411-460 257-306 (738)
256 PHA03372 DNA packaging termina 95.5 0.047 1E-06 64.1 8.7 166 411-625 205-372 (668)
257 COG0210 UvrD Superfamily I DNA 95.4 0.0035 7.5E-08 76.8 -0.5 62 727-789 554-617 (655)
258 PRK06871 DNA polymerase III su 95.4 0.079 1.7E-06 58.9 10.1 50 530-579 105-157 (325)
259 PRK09183 transposase/IS protei 95.4 0.03 6.5E-07 60.4 6.6 55 389-445 83-137 (259)
260 cd01120 RecA-like_NTPases RecA 95.4 0.028 6.2E-07 54.9 5.9 41 411-453 2-42 (165)
261 KOG0335 ATP-dependent RNA heli 95.4 0.041 8.8E-07 63.1 7.7 130 389-542 95-236 (482)
262 COG1203 CRISPR-associated heli 95.3 0.038 8.2E-07 68.5 7.8 73 389-461 194-269 (733)
263 TIGR01425 SRP54_euk signal rec 95.3 0.1 2.2E-06 60.0 10.7 38 410-449 102-140 (429)
264 COG1197 Mfd Transcription-repa 95.2 0.063 1.4E-06 67.3 9.4 128 389-542 593-726 (1139)
265 PRK08116 hypothetical protein; 95.2 0.064 1.4E-06 58.2 8.5 34 410-445 116-149 (268)
266 PRK14954 DNA polymerase III su 95.2 0.07 1.5E-06 64.3 9.5 36 398-433 27-63 (620)
267 TIGR02774 rexB_recomb ATP-depe 95.2 0.096 2.1E-06 67.4 11.3 162 532-726 185-351 (1076)
268 PF13207 AAA_17: AAA domain; P 95.2 0.016 3.5E-07 54.3 3.3 21 411-431 2-22 (121)
269 PRK07399 DNA polymerase III su 95.2 0.11 2.3E-06 57.7 10.3 49 531-579 123-173 (314)
270 KOG2028 ATPase related to the 95.2 0.028 6E-07 61.7 5.3 64 395-460 149-212 (554)
271 PRK00411 cdc6 cell division co 95.2 0.043 9.3E-07 62.8 7.3 43 393-435 36-82 (394)
272 TIGR01547 phage_term_2 phage t 95.1 0.1 2.2E-06 60.0 10.3 49 411-459 4-54 (396)
273 TIGR00604 rad3 DNA repair heli 95.1 0.048 1E-06 67.4 8.2 69 392-460 12-82 (705)
274 PRK10436 hypothetical protein; 95.1 0.034 7.4E-07 64.7 6.2 42 390-432 201-242 (462)
275 PRK14971 DNA polymerase III su 95.1 0.11 2.4E-06 62.9 10.7 41 392-433 22-63 (614)
276 PF03237 Terminase_6: Terminas 95.0 0.064 1.4E-06 60.1 8.2 45 412-456 1-46 (384)
277 PRK14873 primosome assembly pr 95.0 0.055 1.2E-06 65.8 8.0 106 412-544 164-269 (665)
278 PF07728 AAA_5: AAA domain (dy 95.0 0.027 5.8E-07 54.4 4.3 22 410-431 1-22 (139)
279 PRK12898 secA preprotein trans 95.0 0.08 1.7E-06 63.8 9.0 65 389-460 102-166 (656)
280 COG2805 PilT Tfp pilus assembl 95.0 0.036 7.8E-07 59.7 5.4 34 408-442 125-158 (353)
281 TIGR02688 conserved hypothetic 95.0 0.1 2.2E-06 59.4 9.3 22 410-431 211-232 (449)
282 PF05729 NACHT: NACHT domain 95.0 0.033 7.2E-07 54.7 5.0 27 410-436 2-28 (166)
283 TIGR00064 ftsY signal recognit 94.9 0.049 1.1E-06 59.2 6.6 34 410-445 74-107 (272)
284 PRK14722 flhF flagellar biosyn 94.9 0.031 6.6E-07 63.2 5.1 38 409-446 138-175 (374)
285 PF13481 AAA_25: AAA domain; P 94.9 0.04 8.6E-07 56.2 5.6 51 409-460 33-91 (193)
286 TIGR03117 cas_csf4 CRISPR-asso 94.9 0.061 1.3E-06 64.8 7.8 67 394-460 1-68 (636)
287 TIGR02533 type_II_gspE general 94.8 0.035 7.6E-07 65.3 5.5 43 389-432 224-266 (486)
288 KOG0951 RNA helicase BRR2, DEA 94.8 0.076 1.6E-06 66.2 8.3 70 389-460 308-386 (1674)
289 PF05673 DUF815: Protein of un 94.8 0.072 1.6E-06 56.3 7.2 40 393-432 33-76 (249)
290 KOG0387 Transcription-coupled 94.8 2.3 4.9E-05 51.5 20.0 169 389-571 204-377 (923)
291 KOG0338 ATP-dependent RNA heli 94.8 0.062 1.3E-06 61.2 6.9 149 392-565 205-363 (691)
292 COG1484 DnaC DNA replication p 94.8 0.073 1.6E-06 57.3 7.3 44 410-460 107-150 (254)
293 cd01983 Fer4_NifH The Fer4_Nif 94.7 0.18 4E-06 44.4 8.8 33 411-445 2-34 (99)
294 PRK11331 5-methylcytosine-spec 94.7 0.054 1.2E-06 62.3 6.4 40 391-433 179-218 (459)
295 KOG0333 U5 snRNP-like RNA heli 94.7 0.37 8E-06 55.4 12.7 285 389-751 266-565 (673)
296 PHA00350 putative assembly pro 94.7 0.14 2.9E-06 58.4 9.5 46 410-458 3-49 (399)
297 KOG0340 ATP-dependent RNA heli 94.7 0.11 2.4E-06 56.9 8.3 69 390-461 29-98 (442)
298 PRK14950 DNA polymerase III su 94.7 0.14 3.1E-06 61.7 10.4 42 392-433 21-63 (585)
299 KOG0350 DEAD-box ATP-dependent 94.7 0.1 2.2E-06 59.5 8.2 119 411-545 186-308 (620)
300 PRK08533 flagellar accessory p 94.7 0.052 1.1E-06 57.5 5.8 48 409-459 25-72 (230)
301 TIGR03878 thermo_KaiC_2 KaiC d 94.6 0.043 9.3E-07 59.3 5.2 46 410-458 38-83 (259)
302 PF06745 KaiC: KaiC; InterPro 94.6 0.047 1E-06 57.5 5.3 49 410-460 21-69 (226)
303 PRK00080 ruvB Holliday junctio 94.6 0.045 9.8E-07 61.2 5.4 39 392-430 30-73 (328)
304 TIGR02640 gas_vesic_GvpN gas v 94.6 0.062 1.3E-06 58.1 6.3 38 392-429 4-42 (262)
305 TIGR02538 type_IV_pilB type IV 94.5 0.062 1.4E-06 64.5 6.7 43 389-432 298-340 (564)
306 cd01131 PilT Pilus retraction 94.5 0.045 9.7E-07 56.6 4.7 36 409-445 2-37 (198)
307 KOG0925 mRNA splicing factor A 94.5 0.22 4.7E-06 56.7 10.1 65 394-461 50-114 (699)
308 TIGR02525 plasmid_TraJ plasmid 94.4 0.066 1.4E-06 60.7 6.2 35 409-443 150-184 (372)
309 COG4581 Superfamily II RNA hel 94.4 0.16 3.4E-06 63.7 9.8 67 389-460 118-184 (1041)
310 TIGR03499 FlhF flagellar biosy 94.4 0.052 1.1E-06 59.4 5.1 37 410-446 196-232 (282)
311 COG0467 RAD55 RecA-superfamily 94.4 0.056 1.2E-06 58.3 5.4 47 409-457 24-70 (260)
312 KOG0342 ATP-dependent RNA heli 94.3 0.1 2.3E-06 59.3 7.4 69 389-460 103-176 (543)
313 TIGR00963 secA preprotein tran 94.3 0.13 2.7E-06 62.7 8.6 132 392-554 58-198 (745)
314 PRK06305 DNA polymerase III su 94.3 0.14 3.1E-06 59.7 8.9 37 398-434 28-65 (451)
315 PRK06090 DNA polymerase III su 94.3 0.22 4.7E-06 55.3 9.9 51 530-580 106-159 (319)
316 PRK05973 replicative DNA helic 94.3 0.065 1.4E-06 56.9 5.5 49 409-460 65-113 (237)
317 KOG0348 ATP-dependent RNA heli 94.2 0.2 4.3E-06 57.6 9.3 131 389-546 158-301 (708)
318 PF05496 RuvB_N: Holliday junc 94.2 0.044 9.6E-07 57.2 3.9 24 409-433 51-74 (233)
319 KOG0744 AAA+-type ATPase [Post 94.2 0.034 7.5E-07 60.2 3.0 24 409-433 178-201 (423)
320 TIGR01650 PD_CobS cobaltochela 94.1 0.068 1.5E-06 59.2 5.4 41 389-431 47-87 (327)
321 cd01130 VirB11-like_ATPase Typ 94.1 0.065 1.4E-06 54.7 5.0 50 389-443 8-57 (186)
322 PF02492 cobW: CobW/HypB/UreG, 94.1 0.052 1.1E-06 55.1 4.1 35 409-446 1-35 (178)
323 TIGR02880 cbbX_cfxQ probable R 94.1 0.041 8.9E-07 60.2 3.6 24 410-433 60-83 (284)
324 CHL00181 cbbX CbbX; Provisiona 94.1 0.052 1.1E-06 59.5 4.4 24 410-433 61-84 (287)
325 PRK09200 preprotein translocas 94.1 0.15 3.3E-06 62.8 8.7 62 392-460 80-141 (790)
326 PF13238 AAA_18: AAA domain; P 94.1 0.044 9.5E-07 51.5 3.3 22 411-432 1-22 (129)
327 PRK07993 DNA polymerase III su 94.0 0.24 5.3E-06 55.5 9.6 51 530-580 106-159 (334)
328 PF01078 Mg_chelatase: Magnesi 94.0 0.07 1.5E-06 55.2 4.8 39 392-433 8-46 (206)
329 PRK06964 DNA polymerase III su 94.0 0.3 6.5E-06 54.8 10.2 50 530-579 130-182 (342)
330 PRK10416 signal recognition pa 93.9 0.069 1.5E-06 59.4 5.0 34 410-445 116-149 (318)
331 PRK06835 DNA replication prote 93.9 0.074 1.6E-06 59.3 5.3 36 409-446 184-219 (329)
332 TIGR01407 dinG_rel DnaQ family 93.9 0.14 3.1E-06 64.6 8.4 63 391-457 246-311 (850)
333 PF06309 Torsin: Torsin; Inte 93.9 0.11 2.5E-06 49.3 5.7 49 412-460 57-111 (127)
334 KOG0390 DNA repair protein, SN 93.9 0.5 1.1E-05 57.7 12.4 166 389-571 237-416 (776)
335 TIGR03880 KaiC_arch_3 KaiC dom 93.9 0.1 2.2E-06 54.8 6.0 48 410-460 18-65 (224)
336 PF13671 AAA_33: AAA domain; P 93.8 0.04 8.7E-07 53.1 2.6 18 411-428 2-19 (143)
337 PF03308 ArgK: ArgK protein; 93.8 0.13 2.9E-06 54.7 6.5 51 393-445 13-64 (266)
338 COG1202 Superfamily II helicas 93.8 0.32 7E-06 56.4 9.9 131 389-544 215-350 (830)
339 TIGR03877 thermo_KaiC_1 KaiC d 93.7 0.098 2.1E-06 55.6 5.5 48 410-460 23-70 (237)
340 cd01122 GP4d_helicase GP4d_hel 93.7 0.1 2.2E-06 56.5 5.7 50 409-460 31-80 (271)
341 PRK04328 hypothetical protein; 93.7 0.1 2.2E-06 56.0 5.6 49 409-460 24-72 (249)
342 TIGR02012 tigrfam_recA protein 93.6 0.12 2.6E-06 57.3 6.2 47 410-458 57-103 (321)
343 PRK06921 hypothetical protein; 93.6 0.09 2E-06 57.0 5.1 37 409-446 118-154 (266)
344 PHA02533 17 large terminase pr 93.6 1.1 2.3E-05 53.5 14.4 68 390-460 59-126 (534)
345 PRK08939 primosomal protein Dn 93.6 0.14 3.1E-06 56.6 6.6 36 409-446 157-192 (306)
346 cd01394 radB RadB. The archaea 93.6 0.094 2E-06 54.8 5.0 35 410-446 21-55 (218)
347 cd00984 DnaB_C DnaB helicase C 93.5 0.11 2.5E-06 55.0 5.7 48 410-459 15-62 (242)
348 COG1703 ArgK Putative periplas 93.5 0.16 3.4E-06 55.0 6.5 48 396-445 38-86 (323)
349 TIGR02237 recomb_radB DNA repa 93.5 0.12 2.7E-06 53.5 5.7 37 410-448 14-50 (209)
350 PRK05917 DNA polymerase III su 93.5 0.51 1.1E-05 51.6 10.6 49 531-579 94-145 (290)
351 PRK03992 proteasome-activating 93.4 0.096 2.1E-06 60.0 5.2 19 410-428 167-185 (389)
352 COG1474 CDC6 Cdc6-related prot 93.4 0.18 3.8E-06 57.2 7.2 69 392-460 22-95 (366)
353 PHA00729 NTP-binding motif con 93.4 0.065 1.4E-06 56.3 3.4 23 410-432 19-41 (226)
354 KOG0343 RNA Helicase [RNA proc 93.4 0.17 3.6E-06 58.4 6.8 133 389-547 90-230 (758)
355 PRK08699 DNA polymerase III su 93.3 0.32 7E-06 54.3 9.0 24 410-433 23-46 (325)
356 COG0556 UvrB Helicase subunit 93.2 0.18 3.8E-06 58.2 6.7 64 392-460 14-79 (663)
357 PRK12724 flagellar biosynthesi 93.2 0.18 3.9E-06 57.7 6.8 50 410-460 225-276 (432)
358 TIGR00959 ffh signal recogniti 93.2 0.11 2.3E-06 60.0 5.1 39 410-449 101-140 (428)
359 PF00437 T2SE: Type II/IV secr 93.1 0.088 1.9E-06 57.0 4.2 49 393-445 114-162 (270)
360 PRK12608 transcription termina 93.1 0.14 3E-06 57.7 5.6 63 397-460 122-187 (380)
361 PRK13104 secA preprotein trans 93.1 0.15 3.4E-06 62.9 6.5 47 412-460 99-145 (896)
362 cd02019 NK Nucleoside/nucleoti 93.1 0.15 3.3E-06 43.1 4.7 22 411-432 2-23 (69)
363 COG1102 Cmk Cytidylate kinase 93.1 0.073 1.6E-06 52.4 3.0 21 411-431 3-23 (179)
364 PRK09361 radB DNA repair and r 93.1 0.13 2.7E-06 54.1 5.1 36 410-447 25-60 (225)
365 COG1444 Predicted P-loop ATPas 93.1 1 2.2E-05 55.0 13.1 70 390-460 211-283 (758)
366 cd00544 CobU Adenosylcobinamid 93.0 0.12 2.6E-06 52.1 4.5 45 411-460 2-46 (169)
367 PRK06067 flagellar accessory p 93.0 0.16 3.6E-06 53.7 5.9 49 409-460 26-74 (234)
368 COG0552 FtsY Signal recognitio 93.0 0.12 2.6E-06 56.8 4.8 40 410-451 141-181 (340)
369 TIGR02524 dot_icm_DotB Dot/Icm 93.0 0.16 3.5E-06 57.4 6.0 26 409-434 135-160 (358)
370 PF00910 RNA_helicase: RNA hel 92.9 0.09 1.9E-06 48.6 3.3 23 412-434 2-24 (107)
371 TIGR01359 UMP_CMP_kin_fam UMP- 92.9 0.082 1.8E-06 53.5 3.3 18 411-428 2-19 (183)
372 PF03266 NTPase_1: NTPase; In 92.8 0.09 1.9E-06 52.9 3.4 24 411-434 2-25 (168)
373 PRK06995 flhF flagellar biosyn 92.8 0.13 2.7E-06 60.2 5.0 37 409-445 257-293 (484)
374 TIGR03689 pup_AAA proteasome A 92.8 0.14 3.1E-06 60.2 5.4 22 410-431 218-239 (512)
375 PTZ00112 origin recognition co 92.7 0.14 3E-06 62.8 5.2 42 392-433 760-806 (1164)
376 TIGR01420 pilT_fam pilus retra 92.7 0.15 3.2E-06 57.5 5.3 35 409-444 123-157 (343)
377 PRK14955 DNA polymerase III su 92.7 0.14 3E-06 58.8 5.2 42 392-433 21-63 (397)
378 TIGR01360 aden_kin_iso1 adenyl 92.7 0.093 2E-06 53.1 3.4 22 409-430 4-25 (188)
379 COG3854 SpoIIIAA ncharacterize 92.7 0.16 3.4E-06 52.9 4.9 39 411-450 140-182 (308)
380 cd00983 recA RecA is a bacter 92.7 0.18 4E-06 56.0 5.8 47 410-458 57-103 (325)
381 KOG0346 RNA helicase [RNA proc 92.7 0.27 5.9E-06 55.3 7.0 128 392-541 43-179 (569)
382 PF04665 Pox_A32: Poxvirus A32 92.7 0.12 2.5E-06 55.0 4.1 34 411-446 16-49 (241)
383 TIGR01242 26Sp45 26S proteasom 92.7 0.11 2.3E-06 59.1 4.1 19 411-429 159-177 (364)
384 PRK06851 hypothetical protein; 92.7 0.063 1.4E-06 60.5 2.2 39 410-448 216-254 (367)
385 KOG0389 SNF2 family DNA-depend 92.5 0.27 5.8E-06 59.0 7.1 161 389-571 398-564 (941)
386 PRK06731 flhF flagellar biosyn 92.4 1.1 2.5E-05 48.5 11.3 46 409-456 76-124 (270)
387 PRK08118 topology modulation p 92.3 0.11 2.4E-06 52.2 3.3 16 411-426 4-19 (167)
388 TIGR02655 circ_KaiC circadian 92.3 0.18 3.9E-06 59.5 5.6 61 397-460 250-312 (484)
389 PHA02244 ATPase-like protein 92.3 0.19 4.2E-06 56.4 5.5 31 397-429 110-140 (383)
390 TIGR03881 KaiC_arch_4 KaiC dom 92.3 0.23 5E-06 52.3 5.8 48 409-459 21-68 (229)
391 KOG0344 ATP-dependent RNA heli 92.3 0.28 6.2E-06 57.1 6.8 135 392-547 160-303 (593)
392 PRK13900 type IV secretion sys 92.2 0.21 4.5E-06 55.9 5.6 44 395-443 149-192 (332)
393 PF03215 Rad17: Rad17 cell cyc 92.2 0.16 3.4E-06 60.1 4.8 23 409-431 46-68 (519)
394 PF02689 Herpes_Helicase: Heli 92.2 0.25 5.5E-06 59.3 6.4 44 410-460 61-104 (818)
395 COG1419 FlhF Flagellar GTP-bin 92.1 0.17 3.7E-06 57.1 4.7 38 409-446 204-241 (407)
396 TIGR03345 VI_ClpV1 type VI sec 92.1 0.4 8.7E-06 60.3 8.5 119 395-566 571-713 (852)
397 PRK10865 protein disaggregatio 92.1 0.34 7.3E-06 61.1 7.8 99 406-556 596-694 (857)
398 TIGR01241 FtsH_fam ATP-depende 91.9 0.24 5.2E-06 58.6 6.0 20 410-429 90-109 (495)
399 COG4962 CpaF Flp pilus assembl 91.8 0.22 4.7E-06 55.1 5.0 53 389-446 156-208 (355)
400 PRK10463 hydrogenase nickel in 91.8 0.27 5.9E-06 53.6 5.7 51 392-445 88-138 (290)
401 COG0606 Predicted ATPase with 91.8 0.14 3.1E-06 58.6 3.7 34 392-427 184-217 (490)
402 PRK14531 adenylate kinase; Pro 91.8 0.14 3.1E-06 52.1 3.4 19 411-429 5-23 (183)
403 PRK03839 putative kinase; Prov 91.7 0.14 3.1E-06 51.8 3.3 18 411-428 3-20 (180)
404 TIGR00631 uvrb excinuclease AB 91.7 0.48 1E-05 57.9 8.3 65 391-460 10-76 (655)
405 KOG0924 mRNA splicing factor A 91.7 0.86 1.9E-05 54.0 9.7 51 409-462 372-424 (1042)
406 COG2255 RuvB Holliday junction 91.6 0.26 5.6E-06 52.9 5.1 24 409-433 53-76 (332)
407 PRK14532 adenylate kinase; Pro 91.6 0.13 2.9E-06 52.3 3.0 19 411-429 3-21 (188)
408 PRK12726 flagellar biosynthesi 91.6 0.23 5.1E-06 56.0 5.1 46 409-456 207-255 (407)
409 PRK09354 recA recombinase A; P 91.6 0.3 6.6E-06 54.7 6.0 47 410-458 62-108 (349)
410 KOG3125 Thymidine kinase [Nucl 91.6 0.74 1.6E-05 46.6 7.9 36 409-446 28-63 (234)
411 PRK13768 GTPase; Provisional 91.6 0.22 4.7E-06 53.6 4.7 33 411-445 5-37 (253)
412 cd01428 ADK Adenylate kinase ( 91.6 0.14 3E-06 52.2 3.1 18 411-428 2-19 (194)
413 PF13521 AAA_28: AAA domain; P 91.6 0.12 2.6E-06 51.4 2.5 20 411-430 2-21 (163)
414 PRK13851 type IV secretion sys 91.6 0.23 4.9E-06 55.8 4.9 47 392-443 148-194 (344)
415 TIGR02655 circ_KaiC circadian 91.5 0.24 5.1E-06 58.5 5.4 50 409-460 22-71 (484)
416 COG1222 RPT1 ATP-dependent 26S 91.5 0.12 2.6E-06 57.0 2.6 40 411-460 188-227 (406)
417 PF12846 AAA_10: AAA-like doma 91.5 0.31 6.8E-06 52.9 6.0 42 409-452 2-43 (304)
418 cd02021 GntK Gluconate kinase 91.5 0.15 3.2E-06 49.8 3.0 19 411-429 2-20 (150)
419 PTZ00361 26 proteosome regulat 91.4 0.25 5.5E-06 57.2 5.3 17 411-427 220-236 (438)
420 PRK05298 excinuclease ABC subu 91.4 0.46 9.9E-06 58.2 7.8 67 389-460 11-79 (652)
421 KOG3347 Predicted nucleotide k 91.4 0.16 3.4E-06 49.4 2.9 19 409-427 8-26 (176)
422 PF00931 NB-ARC: NB-ARC domain 91.3 0.42 9.1E-06 51.9 6.7 38 394-431 3-42 (287)
423 PTZ00301 uridine kinase; Provi 91.3 0.29 6.3E-06 51.1 5.1 25 410-434 5-29 (210)
424 TIGR01313 therm_gnt_kin carboh 91.3 0.13 2.9E-06 51.0 2.5 19 411-429 1-19 (163)
425 COG1199 DinG Rad3-related DNA 91.2 0.52 1.1E-05 57.8 8.1 70 390-460 15-85 (654)
426 PRK02496 adk adenylate kinase; 91.2 0.17 3.7E-06 51.4 3.3 19 411-429 4-22 (184)
427 PRK00131 aroK shikimate kinase 91.2 0.17 3.7E-06 50.4 3.3 22 410-431 6-27 (175)
428 cd01125 repA Hexameric Replica 91.2 0.3 6.5E-06 52.0 5.3 50 410-460 3-62 (239)
429 KOG0781 Signal recognition par 91.2 0.72 1.6E-05 52.7 8.3 43 411-455 381-426 (587)
430 PRK13531 regulatory ATPase Rav 91.2 0.22 4.8E-06 57.9 4.5 19 409-427 40-58 (498)
431 smart00763 AAA_PrkA PrkA AAA d 91.2 0.28 6.1E-06 55.0 5.1 25 409-434 79-103 (361)
432 PRK14528 adenylate kinase; Pro 91.1 0.18 3.9E-06 51.6 3.3 17 411-427 4-20 (186)
433 PRK12678 transcription termina 91.0 0.26 5.5E-06 58.1 4.7 30 411-440 419-448 (672)
434 PRK14530 adenylate kinase; Pro 90.9 0.18 4E-06 52.6 3.3 20 410-429 5-24 (215)
435 PRK14527 adenylate kinase; Pro 90.9 0.2 4.3E-06 51.3 3.5 21 409-429 7-27 (191)
436 COG3267 ExeA Type II secretory 90.9 0.35 7.7E-06 51.2 5.2 38 533-571 132-175 (269)
437 COG0541 Ffh Signal recognition 90.9 0.69 1.5E-05 52.6 7.8 48 411-460 103-152 (451)
438 PF00406 ADK: Adenylate kinase 90.9 0.17 3.7E-06 49.6 2.8 17 413-429 1-17 (151)
439 PRK00279 adk adenylate kinase; 90.9 0.19 4.1E-06 52.5 3.3 18 411-428 3-20 (215)
440 TIGR00750 lao LAO/AO transport 90.8 0.31 6.8E-06 53.8 5.1 35 409-445 35-69 (300)
441 COG4088 Predicted nucleotide k 90.8 0.22 4.8E-06 51.0 3.5 26 409-434 2-27 (261)
442 cd03114 ArgK-like The function 90.8 0.36 7.9E-06 47.4 5.0 34 411-446 2-35 (148)
443 PRK08233 hypothetical protein; 90.8 0.17 3.6E-06 51.0 2.8 20 410-429 5-24 (182)
444 PRK06547 hypothetical protein; 90.8 0.28 6E-06 49.6 4.3 22 409-430 16-37 (172)
445 COG0378 HypB Ni2+-binding GTPa 90.6 0.41 8.9E-06 48.8 5.2 43 411-456 16-61 (202)
446 PRK09435 membrane ATPase/prote 90.6 0.51 1.1E-05 52.7 6.5 35 410-446 58-92 (332)
447 PTZ00454 26S protease regulato 90.6 0.18 3.8E-06 57.9 3.0 18 410-427 181-198 (398)
448 PF07726 AAA_3: ATPase family 90.5 0.12 2.6E-06 49.3 1.3 39 534-574 64-102 (131)
449 cd02025 PanK Pantothenate kina 90.5 0.35 7.5E-06 50.9 4.9 35 411-446 2-37 (220)
450 TIGR01351 adk adenylate kinase 90.5 0.2 4.3E-06 52.2 3.1 18 411-428 2-19 (210)
451 TIGR02639 ClpA ATP-dependent C 90.5 0.61 1.3E-05 58.0 7.8 110 395-560 459-580 (731)
452 PRK05439 pantothenate kinase; 90.5 0.51 1.1E-05 52.1 6.3 35 411-446 89-124 (311)
453 PLN02200 adenylate kinase fami 90.4 0.22 4.7E-06 53.0 3.3 20 410-429 45-64 (234)
454 PF12775 AAA_7: P-loop contain 90.4 0.21 4.5E-06 54.4 3.2 22 409-430 34-55 (272)
455 KOG1533 Predicted GTPase [Gene 90.4 0.23 4.9E-06 51.8 3.2 23 411-434 5-27 (290)
456 PRK07261 topology modulation p 90.3 0.23 4.9E-06 50.1 3.2 18 411-428 3-20 (171)
457 PRK04040 adenylate kinase; Pro 90.3 0.23 4.9E-06 51.0 3.2 22 410-431 4-25 (188)
458 PF01637 Arch_ATPase: Archaeal 90.3 0.22 4.8E-06 51.8 3.2 38 395-432 7-44 (234)
459 KOG0337 ATP-dependent RNA heli 90.3 5.9 0.00013 44.9 14.1 84 698-781 259-353 (529)
460 COG1936 Predicted nucleotide k 90.3 0.2 4.4E-06 50.0 2.7 15 411-425 3-17 (180)
461 cd02020 CMPK Cytidine monophos 90.2 0.26 5.6E-06 47.6 3.4 21 411-431 2-22 (147)
462 PRK06762 hypothetical protein; 90.2 0.25 5.3E-06 49.2 3.3 20 410-429 4-23 (166)
463 PRK05800 cobU adenosylcobinami 90.2 0.3 6.4E-06 49.3 3.9 46 410-460 3-48 (170)
464 KOG1123 RNA polymerase II tran 90.2 0.41 8.9E-06 54.6 5.3 130 389-550 301-439 (776)
465 COG0714 MoxR-like ATPases [Gen 90.2 0.43 9.4E-06 53.3 5.6 45 409-456 44-88 (329)
466 PRK09302 circadian clock prote 90.2 0.41 8.9E-06 56.9 5.7 49 409-460 274-322 (509)
467 TIGR00176 mobB molybdopterin-g 90.2 0.49 1.1E-05 46.9 5.3 35 411-447 2-36 (155)
468 cd01393 recA_like RecA is a b 90.1 0.33 7.2E-06 50.9 4.4 40 409-448 20-63 (226)
469 PRK11823 DNA repair protein Ra 90.1 0.47 1E-05 55.4 6.0 47 410-459 82-128 (446)
470 COG3911 Predicted ATPase [Gene 90.1 0.25 5.3E-06 48.0 2.9 20 410-429 11-30 (183)
471 PLN02165 adenylate isopentenyl 90.0 0.21 4.6E-06 55.5 2.9 22 409-430 44-65 (334)
472 KOG0385 Chromatin remodeling c 90.0 0.88 1.9E-05 54.7 7.9 161 389-571 166-329 (971)
473 TIGR00602 rad24 checkpoint pro 90.0 0.4 8.6E-06 58.0 5.4 41 391-431 88-133 (637)
474 cd01121 Sms Sms (bacterial rad 90.0 0.48 1E-05 53.9 5.8 47 410-459 84-130 (372)
475 CHL00095 clpC Clp protease ATP 90.0 0.44 9.5E-06 60.0 6.0 22 411-432 542-563 (821)
476 TIGR03346 chaperone_ClpB ATP-d 89.9 0.54 1.2E-05 59.4 6.8 100 405-556 592-691 (852)
477 PRK09376 rho transcription ter 89.9 0.38 8.3E-06 54.5 4.8 48 411-458 172-221 (416)
478 PRK13407 bchI magnesium chelat 89.9 0.41 8.9E-06 53.6 5.0 24 409-433 30-53 (334)
479 TIGR00416 sms DNA repair prote 89.9 0.46 1E-05 55.5 5.7 48 409-459 95-142 (454)
480 PF01580 FtsK_SpoIIIE: FtsK/Sp 89.8 0.36 7.9E-06 49.9 4.4 39 409-447 39-79 (205)
481 PTZ00088 adenylate kinase 1; P 89.8 0.26 5.7E-06 52.1 3.3 17 411-427 9-25 (229)
482 COG0563 Adk Adenylate kinase a 89.8 0.27 5.9E-06 49.9 3.3 20 411-430 3-22 (178)
483 PRK14723 flhF flagellar biosyn 89.8 0.38 8.3E-06 59.0 5.0 37 410-446 187-223 (767)
484 COG1618 Predicted nucleotide k 89.6 0.31 6.8E-06 48.1 3.3 22 411-432 8-29 (179)
485 TIGR03574 selen_PSTK L-seryl-t 89.6 0.41 8.9E-06 51.2 4.6 32 411-444 2-33 (249)
486 PRK06696 uridine kinase; Valid 89.5 0.8 1.7E-05 48.2 6.7 34 410-445 24-57 (223)
487 COG1223 Predicted ATPase (AAA+ 89.5 0.24 5.2E-06 52.4 2.6 16 411-426 154-169 (368)
488 TIGR02322 phosphon_PhnN phosph 89.4 0.29 6.2E-06 49.4 3.1 19 410-428 3-21 (179)
489 PRK13947 shikimate kinase; Pro 89.4 0.31 6.7E-06 48.7 3.3 20 411-430 4-23 (171)
490 KOG0327 Translation initiation 89.4 0.22 4.8E-06 55.2 2.3 67 391-460 49-116 (397)
491 cd00464 SK Shikimate kinase (S 89.4 0.33 7.2E-06 47.3 3.5 19 411-429 2-20 (154)
492 CHL00195 ycf46 Ycf46; Provisio 89.4 0.27 6E-06 57.8 3.3 21 410-431 261-281 (489)
493 PRK05541 adenylylsulfate kinas 89.3 0.42 9.1E-06 48.1 4.3 24 410-433 9-32 (176)
494 COG4178 ABC-type uncharacteriz 89.3 0.39 8.5E-06 57.2 4.5 39 531-569 532-573 (604)
495 PF03205 MobB: Molybdopterin g 89.3 0.42 9.1E-06 46.6 4.0 35 410-446 2-36 (140)
496 COG5192 BMS1 GTP-binding prote 89.2 0.48 1E-05 54.6 4.9 26 409-434 68-95 (1077)
497 KOG0741 AAA+-type ATPase [Post 89.2 0.3 6.6E-06 56.3 3.3 24 411-435 259-282 (744)
498 TIGR02902 spore_lonB ATP-depen 89.2 0.38 8.3E-06 57.4 4.4 38 394-432 72-109 (531)
499 PRK01184 hypothetical protein; 89.1 0.29 6.2E-06 49.7 2.9 14 411-424 4-17 (184)
500 CHL00095 clpC Clp protease ATP 89.1 0.53 1.2E-05 59.3 5.8 55 392-446 184-243 (821)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=1.8e-86 Score=733.84 Aligned_cols=640 Identities=29% Similarity=0.407 Sum_probs=493.3
Q ss_pred CCeEEEEEEEecCccceEeEEEEEEcc---CeEEEEEEEEeechhhhh---------cccCCCCccCCCCCccccceEee
Q 002849 126 GQTLTIWLSCKPKGIGLHTTVLQFDVE---DRIERVVFLLAEDKISQS---------LASKRPYSRGGRKKQFSVDKYVV 193 (874)
Q Consensus 126 g~~~~~~~~~~~~~~g~~~~~~~f~~~---~~~~r~~~~~~~~~~~~~---------l~~~~p~~~~~~~~~~~~~~~~~ 193 (874)
|++....-.|-.+ .+|-+| .+-+.|+++.|+.+|+.. +..|.|.+..+ +...|+.
T Consensus 117 get~lecyncg~~--------nvf~lGFi~~ksd~VVvllcr~pcas~s~~kd~Nwd~~qw~~li~dr-----~~l~wiv 183 (935)
T KOG1802|consen 117 GETVLECYNCGSR--------NVFLLGFIPAKSDSVVVLLCRQPCASRSNLKDMNWDLSQWQPLIEDR-----CLLSWIV 183 (935)
T ss_pred CcceEEeeccCcc--------hhhhhcccccccCceEEEEecCcccccccCCCcCCChhhccchhhhh-----cccchhc
Confidence 5555555555444 346667 478889999999998654 34566666666 5666766
Q ss_pred CCC------CCCcccccccccCCCCC--CChHHHHHHHhc----CCCchhcCCCCHHHHHHHHHHHHHHHHHHHHHhhhh
Q 002849 194 GSR------PARYRGQIYQNRLPRYD--IPNHIRELIERK----QIPDAITDGLTLKNYTSFFKTLLIMEEIQLKEDMRA 261 (874)
Q Consensus 194 g~~------~~~~~~~~~~~~l~~y~--~p~~~~~~i~~~----~~~~~l~~~l~~~~Y~~~f~~Ll~lEe~~~~~~~~~ 261 (874)
.+| ..+..+....++|...| .|+...+.+.+. ..|++...+-+...|.+.|..|+.+|.-....-...
T Consensus 184 k~pseqe~~~aR~iT~qqi~~~eelwr~np~at~~dl~kP~~d~~~~hv~~ry~da~~y~~vf~pliklea~ydk~~Kes 263 (935)
T KOG1802|consen 184 KVPSEQEQLRARKITAQQIVKLEELWRKNPSATLEDLDKPGEDEEPPHVQLRYEDAYEYQNVFSPLIKLEADYDKRLKES 263 (935)
T ss_pred cCCcchhhhhhccccHHHHHHHHhhhccCCccchhhcCCcccccCCCcccccccchHHHhhhcchhhhhhhhhhhhhhhh
Confidence 655 24556666778888877 687777777643 256677788889999999999999996532211122
Q ss_pred ccccccEEEEe-C----cEEEEEecCCCCCCCCCCCCCEEEEEecCCCCCccEE--EEEEEEeC---cEEEEEE--CCCc
Q 002849 262 YDMENVTLMRK-G----LYLSLVVPGLAERRPSLVNGDFIFAKHAYEDTSSAYQ--GFIHRVEA---DEVHLKF--ASDF 329 (874)
Q Consensus 262 ~~~~~~~~~~~-~----~~~~l~vpgl~e~rps~~~GD~v~~~~~~~~~~~~~~--g~v~~v~~---~~v~l~~--~~~~ 329 (874)
-..++++.++. | .+..+..|.+ ++.-.+..||.+.+++.. .....|. |+|.++-. +++.|.+ ..+.
T Consensus 264 ~~q~~~tvRW~~gLnkk~~a~f~~~k~-~~e~kl~~GdE~~L~y~~-~~~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~ 341 (935)
T KOG1802|consen 264 QTQENGTVRWDIGLNKKRLAYFTLPKL-DSELKLAIGDEIRLTYSG-GLVLPWNGIGSVLKIPDNNGDEVKLELEFSQDP 341 (935)
T ss_pred cccccceEEeeeccccceEEEEecCCC-cchhccccCCeeEEEecC-CcCCcccccceEEecCCCCcceeEEEeecCCCC
Confidence 34466777765 2 4445667777 666678999999999985 3333354 67877764 5776654 3432
Q ss_pred cccCCCCCcEEEEEEechhhHHHHHHHhHHHhh--------cccccccCC-CCC-CccccccCCCCcCCCCCCHHHHHHH
Q 002849 330 QLNHRDENLYNVQFTYNRVNMRRLYQATDAAQE--------LDTEFLFPS-ESS-GIRLIESNTLVPISCNLNEEQMCSI 399 (874)
Q Consensus 330 ~~~~~~~~~~~v~f~~~r~~~~r~~~Al~~~~~--------~~~~~lfP~-~~~-~~~~~~~~~~~~~~~~LN~~Q~~AV 399 (874)
... ....|.|+|.++-+++.||..|+..... +...+|+-. ... .....+..-..+-.+.||.+|..||
T Consensus 342 p~e--~~~~Ftvd~vwk~ts~drm~~alk~la~D~~~vs~y~y~klLgh~~~~~~~k~~LP~~~s~~~lpkLN~SQ~~AV 419 (935)
T KOG1802|consen 342 PIE--VTHGFTVDFVWKSTSFDRMQLALKLLAVDEKKVSGYLYHKLLGHPVEDSSLKKLLPRRFSVPNLPKLNASQSNAV 419 (935)
T ss_pred Ccc--cccceEEEEEEcCccHHHHHHHHHHhhhccccchhhhhhHHhcCcchhhhhcccCchhhcCCCchhhchHHHHHH
Confidence 211 2346999999999999999999975321 111122211 110 0011111112233378999999999
Q ss_pred HHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCC
Q 002849 400 EKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSR 479 (874)
Q Consensus 400 ~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r 479 (874)
+++|++ +..||+||||||||.|.+++|.++.+. ...+||||||||.|+|+|++++.+. + .+++|+.+.+|
T Consensus 420 ~~VL~r---plsLIQGPPGTGKTvtsa~IVyhl~~~-~~~~VLvcApSNiAVDqLaeKIh~t-g-----LKVvRl~aksR 489 (935)
T KOG1802|consen 420 KHVLQR---PLSLIQGPPGTGKTVTSATIVYHLARQ-HAGPVLVCAPSNIAVDQLAEKIHKT-G-----LKVVRLCAKSR 489 (935)
T ss_pred HHHHcC---CceeeecCCCCCceehhHHHHHHHHHh-cCCceEEEcccchhHHHHHHHHHhc-C-----ceEeeeehhhh
Confidence 999997 789999999999999999999999986 5679999999999999999999873 2 46899998877
Q ss_pred CCcCCc---------------hhhhhhccc----------cchh----ccCCchhhcccceEEEEechhhhhhhhcccCC
Q 002849 480 PYEDVN---------------ADHIRFCFF----------DEQI----FKCPPLAALVCYRIIISTYMSASLIYAEGVDR 530 (874)
Q Consensus 480 ~~~~v~---------------~~~~~~~~~----------~~~~----~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~ 530 (874)
....-+ +++.+.... ++.. .+....+.|.+++||+|||.+++... +..
T Consensus 490 E~~~S~vs~L~lh~~~~~~~~pELq~l~klkde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~r---l~~ 566 (935)
T KOG1802|consen 490 EDIESDVSFLSLHEQLRNMDKPELQKLLKLKDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAGDRR---LSK 566 (935)
T ss_pred hhccCCccHHHHHHHHhccCcHHHHHHHhhhhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEecccccchh---hcc
Confidence 532221 122111111 1110 11123467889999999999998743 344
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceee
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTK 610 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~ 610 (874)
.+|..|+||||.|++||++|+||...++ ++||||||+||+|+|....++..|+..||||||...+. ..++
T Consensus 567 ~kfr~VLiDEaTQatEpe~LiPlvlG~k---q~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~-------~P~~ 636 (935)
T KOG1802|consen 567 FKFRTVLIDEATQATEPECLIPLVLGAK---QLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGI-------KPIR 636 (935)
T ss_pred ccccEEEEecccccCCcchhhhhhhcce---eEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhccC-------CceE
Confidence 5899999999999999999999996443 69999999999999999999999999999999987654 2578
Q ss_pred cccccCCchhhhccccccccccccccccccccc-ccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHH
Q 002849 611 LVRNYRSHPQILHLPSKLFYEEELIACKDESIS-CTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEII 689 (874)
Q Consensus 611 L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~-~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v 689 (874)
|..||||||.|.+|||+.||+|.|+.+.....+ ...-+..+|..+.|+.|+...|.++...+++||.|..||..+.++|
T Consensus 637 L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~~g~eeisasGtSf~Nr~Ea~~~ekii 716 (935)
T KOG1802|consen 637 LQVQYRMHPALSEFPSNMFYEGELQNGVTEIERSPLGVDFPWPQPDKPLFFYVCYGQEEISASGTSFLNRTEAANCEKII 716 (935)
T ss_pred EEEeeeeChhhhhcchhhhccchhhcCcchhhhccCCCCCCCCCCCCccceEEeccceeeeccccceecHHHHHHHHHHH
Confidence 999999999999999999999999999877544 3444556788889999999999999999999999999999999999
Q ss_pred HHHHHcCCCCCCeEEEEcccHHHHHHHHHHHHhcCC------CCeEECccccCCCceeeEEEEEeccCCCcCCccccccc
Q 002849 690 QKLTSTGNLSEEDIGVITPYRQQVLKLNKALESLYM------PDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHC 763 (874)
Q Consensus 690 ~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~~------~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~ 763 (874)
+.|++.| +.++.|||||||.+|...|-+.|...|. ..|+|.|||+|||+|+|+||+||||++.. .+
T Consensus 717 ~~l~~~g-v~~~qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~-------qg 788 (935)
T KOG1802|consen 717 TKLLKSG-VKPSQIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEH-------QG 788 (935)
T ss_pred HHHHHcC-CCHHHeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccceEEEEEeecccc-------cc
Confidence 9999997 9999999999999999999998876542 45799999999999999999999999853 68
Q ss_pred cccCCCCCceEeccccccccEEEEEccccccCChHHHHHHHHHHhCCCcc
Q 002849 764 LGFLSNPRRFNVAVTRAISLLIIIGNPHIVSKDPYWHQLLWYCSDNNSYQ 813 (874)
Q Consensus 764 lGFl~d~rrlNVAiTRAK~~LiIvGn~~~L~~~~~w~~ll~~~~~~~~~~ 813 (874)
+||+.|+||||||+||||.+|+||||+..|++++.|..+|.||++.+...
T Consensus 789 IGFl~d~RRlNVaLTRaK~glvivGN~~~L~k~~LW~~li~h~~eke~l~ 838 (935)
T KOG1802|consen 789 IGFLNDPRRLNVALTRAKYGLVIVGNPKVLRKHPLWGHLITHYKEKEVLV 838 (935)
T ss_pred cccccCchhhhhhhhhcccceEEecCHHHhhhchHHHHHHHHhhccccee
Confidence 99999999999999999999999999999999999999999999998654
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=9.4e-78 Score=667.64 Aligned_cols=496 Identities=29% Similarity=0.429 Sum_probs=378.6
Q ss_pred CCCCCCEEEEEecC-CCCC-ccEEEEEEEEeCcEEEEEECCCccccCCCCCcEEEEEEechhhHHHHHHHhHHHhhccc-
Q 002849 289 SLVNGDFIFAKHAY-EDTS-SAYQGFIHRVEADEVHLKFASDFQLNHRDENLYNVQFTYNRVNMRRLYQATDAAQELDT- 365 (874)
Q Consensus 289 s~~~GD~v~~~~~~-~~~~-~~~~g~v~~v~~~~v~l~~~~~~~~~~~~~~~~~v~f~~~r~~~~r~~~Al~~~~~~~~- 365 (874)
++.+||.|.++... +.+. ...+|.|+++..+.|.+.|.......... ..+.+.-.-|..+++|+-.++........
T Consensus 74 ~~~~gd~v~lr~~~~~~~~~~~~~GvV~~~~~~~i~~a~ee~~d~~~~~-~~l~l~kl~n~vty~R~~~~~i~l~~~~~~ 152 (649)
T KOG1803|consen 74 SFGPGDVVWLRTDKLNNKSKPCTEGVVYRVAEDSIDVAFEEEVDKPLTL-SSLRLLKLENKVTYRRMKDTMICLSKFSNP 152 (649)
T ss_pred CCCCCcEEEEEcccccccCcccccceeEeeccchhhHhHHhhhcccchh-hHHHHHHhhhhhhheecHHHHhhHhhhcCc
Confidence 58999999998543 2233 36899999999998888876543322111 11222223345566677666644332110
Q ss_pred -------ccccCCCCCCccc-cccCCCCcCCCCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcC
Q 002849 366 -------EFLFPSESSGIRL-IESNTLVPISCNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATRE 437 (874)
Q Consensus 366 -------~~lfP~~~~~~~~-~~~~~~~~~~~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~ 437 (874)
..||-........ .......+++..||.+|++||..+++.+ .+++|+||||||||+|++++|.|+++ .
T Consensus 153 ~~~~~vv~~l~~~~~~~~~~~~~~~~~~~~~~~ln~SQk~Av~~~~~~k--~l~~I~GPPGTGKT~TlvEiI~qlvk--~ 228 (649)
T KOG1803|consen 153 GPSSDVVETLFGDRKPIPSPNIEIKKITFFNKNLNSSQKAAVSFAINNK--DLLIIHGPPGTGKTRTLVEIISQLVK--Q 228 (649)
T ss_pred cchhhhHHHHhccccCCCCchhhhcccccCCccccHHHHHHHHHHhccC--CceEeeCCCCCCceeeHHHHHHHHHH--c
Confidence 1122211100000 1223456788999999999999999876 57999999999999999999999998 4
Q ss_pred CCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhhhhh--------------------ccccch
Q 002849 438 DARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADHIRF--------------------CFFDEQ 497 (874)
Q Consensus 438 ~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~--------------------~~~~~~ 497 (874)
+++||||||||.|+|+|.+||.. ....++|++...|..+.+.+..... +.....
T Consensus 229 ~k~VLVcaPSn~AVdNiverl~~------~~~~l~R~g~paRl~~~~~~~sld~~~~t~d~~~~~~~~sk~~d~~~~~~~ 302 (649)
T KOG1803|consen 229 KKRVLVCAPSNVAVDNIVERLTH------LKLNLVRVGHPARLLESVADHSLDLLSNTKDNSQNAKDISKDIDILFQKNT 302 (649)
T ss_pred CCeEEEEcCchHHHHHHHHHhcc------cccchhhcCchhhhhhhhhhhHHHHHHhcCchhhhhhhhHHHHHHHhhhhh
Confidence 69999999999999999999974 3445788877766543332211100 000000
Q ss_pred ---------------------hcc---CCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHh
Q 002849 498 ---------------------IFK---CPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPI 553 (874)
Q Consensus 498 ---------------------~~~---~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L 553 (874)
..+ ..-.+.+.+++|+++|..++.. .......||+||||||+|++||++|+|+
T Consensus 303 ~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~---~~~~~~~fD~vIIDEaaQamE~~cWipv 379 (649)
T KOG1803|consen 303 KTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALD---RLLRKRTFDLVIIDEAAQAMEPQCWIPV 379 (649)
T ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhh---hhhcccCCCEEEEehhhhhccchhhhHH
Confidence 000 0012557789999999998876 2333457999999999999999999999
Q ss_pred hccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhccccccccccc
Q 002849 554 SSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEE 633 (874)
Q Consensus 554 ~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~ 633 (874)
.. +.++||+|||+||||+|+|..+...|+..|+|+|+.+... ....+.|++|||||..|+.|+|..||+|+
T Consensus 380 lk----~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~-----~~~~~~Ln~QYRMn~~Im~wsn~~fY~~q 450 (649)
T KOG1803|consen 380 LK----GKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFG-----NLSKILLNEQYRMNEKIMNWSNEVFYNGQ 450 (649)
T ss_pred hc----CCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcc-----cchhhhhhhhhcchHHHhhCcHhhhcCCe
Confidence 83 3479999999999999999999999999999999977533 22467899999999999999999999999
Q ss_pred cccccccccccccccc---CCCCCCCCEEEEecCCCccccCCC-----CCccCHHHHHHHHHHHHHHHHcCCCCCCeEEE
Q 002849 634 LIACKDESISCTAYLN---FLPNKEFPVLFFGIQGCDEREGSN-----PSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGV 705 (874)
Q Consensus 634 L~~~~~~~~~~~~~~~---~~~~~~~pi~f~~v~g~~~~~~~s-----~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgI 705 (874)
|.+......+.+.+.. .......|++|+|+.|....+..+ .|++|.+||+.|..+++.|+..| ++++||||
T Consensus 451 lka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~g-V~p~dIaV 529 (649)
T KOG1803|consen 451 LKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAG-VQPSDIAV 529 (649)
T ss_pred eeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcC-CChhHeEE
Confidence 9988766555443332 222345799999999876543322 38899999999999999999997 99999999
Q ss_pred EcccHHHHHHHHHHHHhcCCCCeEECccccCCCceeeEEEEEeccCCCcCCccccccccccCCCCCceEeccccccccEE
Q 002849 706 ITPYRQQVLKLNKALESLYMPDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLI 785 (874)
Q Consensus 706 ItPY~~Qv~~Ir~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~Li 785 (874)
||||++|+.++|... .....+++|+|||+|||+|+|+||+|+||||. ++.+|||.+.|||||||||||+++.
T Consensus 530 IsPY~aQv~llR~~~-~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~-------k~evGFL~e~RRLNVAiTRaRRh~~ 601 (649)
T KOG1803|consen 530 ISPYNAQVSLLREED-EEDFRDVEVGTVDGFQGREKDVVIFSLVRSND-------KGEVGFLGETRRLNVAITRARRHFV 601 (649)
T ss_pred eccchHHHHHHhhcc-cccCccceeecccccccceeeEEEEEEEeecC-------cccccccCCcceeeEEEEeccceEE
Confidence 999999999999332 33556799999999999999999999999995 4789999999999999999999999
Q ss_pred EEEcccccc-CChHHHHHHHHHHhCCCcccCC
Q 002849 786 IIGNPHIVS-KDPYWHQLLWYCSDNNSYQGCA 816 (874)
Q Consensus 786 IvGn~~~L~-~~~~w~~ll~~~~~~~~~~g~~ 816 (874)
||||..+++ .+.+++++++|+.+++.|.+..
T Consensus 602 vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p~ 633 (649)
T KOG1803|consen 602 VIGDSRTLKEGNEFLKKLVEFLEENKLVFGPS 633 (649)
T ss_pred EEcCcHHHHhhHHHHHHHHHHhhhcceecccc
Confidence 999999999 8999999999999999987643
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=8.7e-73 Score=670.42 Aligned_cols=486 Identities=34% Similarity=0.476 Sum_probs=381.2
Q ss_pred CCCCCCCEEEEEecCCCCCccEEEEEEEEeCcEEEEEECCCccccCCCCCcEEEEEEechhhHHHHHHHhHHHhhc---c
Q 002849 288 PSLVNGDFIFAKHAYEDTSSAYQGFIHRVEADEVHLKFASDFQLNHRDENLYNVQFTYNRVNMRRLYQATDAAQEL---D 364 (874)
Q Consensus 288 ps~~~GD~v~~~~~~~~~~~~~~g~v~~v~~~~v~l~~~~~~~~~~~~~~~~~v~f~~~r~~~~r~~~Al~~~~~~---~ 364 (874)
..+.+||.|.++.. ++....++|+|++|.++.|.+.|+..... +. ...|.+++.+|.++++||+.||..+... .
T Consensus 56 ~~~~~GD~v~i~~~-~~~~~~~~g~V~~v~~~~i~v~~~~~~~~-~~-~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~~l 132 (637)
T TIGR00376 56 TEISVGDIVLVSRG-NPLQSDLTGVVTRVGKRFITVALEESVPQ-WS-LKRVRIDLYANDVTFKRMKEALRALTENHSRL 132 (637)
T ss_pred CcCCCCCEEEEecC-CCCCCCcEEEEEEEcCcEEEEEECCCCCc-cc-CceEEEEEecCccHHHHHHHHHHHHHhchhhH
Confidence 36889999999865 44456789999999999999999885432 21 2359999999999999999999875532 2
Q ss_pred cccccCCCCCCccccccCCCCcCCCCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEe
Q 002849 365 TEFLFPSESSGIRLIESNTLVPISCNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVC 444 (874)
Q Consensus 365 ~~~lfP~~~~~~~~~~~~~~~~~~~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ 444 (874)
.++||.... +........+.++++.||++|++||..++... +.++|+||||||||+|+++++.++++. +.+||+|
T Consensus 133 ~~~llg~~~-p~~~~~~~~~~~~~~~ln~~Q~~Av~~~l~~~--~~~lI~GpPGTGKT~t~~~ii~~~~~~--g~~VLv~ 207 (637)
T TIGR00376 133 LEFILGREA-PSKASEIHDFQFFDPNLNESQKEAVSFALSSK--DLFLIHGPPGTGKTRTLVELIRQLVKR--GLRVLVT 207 (637)
T ss_pred HHHHhCCCC-CCcccccccccccCCCCCHHHHHHHHHHhcCC--CeEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEE
Confidence 345665433 12112234456778899999999999998754 458999999999999999999998874 4699999
Q ss_pred cCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhhhhh----------------------------cc---
Q 002849 445 APSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADHIRF----------------------------CF--- 493 (874)
Q Consensus 445 ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~----------------------------~~--- 493 (874)
||||.|||++++||... ...++|+++..|....+......+ ..
T Consensus 208 a~sn~Avd~l~e~l~~~------~~~vvRlg~~~r~~~~~~~~sl~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 281 (637)
T TIGR00376 208 APSNIAVDNLLERLALC------DQKIVRLGHPARLLKSNKQHSLDYLIENHPKYQIVADIREKIDELIEERNKKLKPSP 281 (637)
T ss_pred cCcHHHHHHHHHHHHhC------CCcEEEeCCchhcchhHHhccHHHHHhcChhHHHHHHHHHHHHHHHHHHHhhccchH
Confidence 99999999999999862 346899998776332221100000 00
Q ss_pred -----c-cchhc----c--------------------C-----------------CchhhcccceEEEEechhhhhhhhc
Q 002849 494 -----F-DEQIF----K--------------------C-----------------PPLAALVCYRIIISTYMSASLIYAE 526 (874)
Q Consensus 494 -----~-~~~~~----~--------------------~-----------------~~~~~L~~~~VI~~T~~sa~~l~~~ 526 (874)
+ +.... + + ...+.|..++++++|+.+.
T Consensus 282 ~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~v~~st~~~~------ 355 (637)
T TIGR00376 282 QKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLLKLLPEIEERIENEILAESDVVQSTNSSA------ 355 (637)
T ss_pred hHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhCCEEEeccCcH------
Confidence 0 00000 0 0 0013466788877775432
Q ss_pred ccCCCCccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCcc
Q 002849 527 GVDRGHFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNEN 606 (874)
Q Consensus 527 ~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~ 606 (874)
.+....||+||||||+|++||++|+||.. ..++||||||+||||++.+.. ..+++.|+|+||....+ .
T Consensus 356 ~l~~~~Fd~vIIDEAsQ~~ep~~lipl~~----~~~~vLvGD~~QLpP~v~s~~--~~~l~~SlferL~~~~~------~ 423 (637)
T TIGR00376 356 GLKGWEFDVAVIDEASQAMEPSCLIPLLK----ARKLILAGDHKQLPPTILSHD--AEELELTLFERLIKEYP------E 423 (637)
T ss_pred hhccCCCCEEEEECccccchHHHHHHHhh----CCeEEEecChhhcCCcccccc--ccccchhHHHHHHHhCC------C
Confidence 23456899999999999999999999973 247999999999999999876 34789999999987532 2
Q ss_pred ceeecccccCCchhhhccccccccccccccccccccccccccc--------CCCCCCCCEEEEecCCCcc---ccCCCCC
Q 002849 607 YVTKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLN--------FLPNKEFPVLFFGIQGCDE---REGSNPS 675 (874)
Q Consensus 607 ~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~--------~~~~~~~pi~f~~v~g~~~---~~~~s~S 675 (874)
..++|++||||||+|++|+|..||+|+|.+........+..++ .......|++|+++.|.+. ....+.|
T Consensus 424 ~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~~e~~~~~~~S 503 (637)
T TIGR00376 424 RSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEIPLLFIDTSGCELFELKEADSTS 503 (637)
T ss_pred ceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCCCEEEEECCCccccccccCCCCC
Confidence 3678999999999999999999999999876544322221111 0113446999999998865 4456789
Q ss_pred ccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHHHhcCCCCeEECccccCCCceeeEEEEEeccCCCcC
Q 002849 676 WFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKALESLYMPDIKVGSVEQFQGQERQVIIVSTVRSTIKH 755 (874)
Q Consensus 676 ~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~ 755 (874)
++|..||..|+++++.|+..| +++.+|||||||++|+..|++.|...+ ..+.|+|||+|||+|+|+||+|+||++.
T Consensus 504 ~~N~~EA~~V~~~v~~l~~~g-~~~~~IgVItPY~aQv~~L~~~l~~~~-~~i~v~TVd~fQG~E~DvIi~S~vrsn~-- 579 (637)
T TIGR00376 504 KYNPGEAELVSEIIQALVKMG-VPANDIGVITPYDAQVDLLRQLLEHRH-IDIEVSSVDGFQGREKEVIIISFVRSNR-- 579 (637)
T ss_pred cCCHHHHHHHHHHHHHHHhcC-CCcceEEEEcccHHHHHHHHHHHHhhC-CCeEEccccccCCccccEEEEEEEecCC--
Confidence 999999999999999999885 889999999999999999999997643 5699999999999999999999999984
Q ss_pred CccccccccccCCCCCceEeccccccccEEEEEccccccCChHHHHHHHHHHhCCCccc
Q 002849 756 NDFDRKHCLGFLSNPRRFNVAVTRAISLLIIIGNPHIVSKDPYWHQLLWYCSDNNSYQG 814 (874)
Q Consensus 756 ~~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn~~~L~~~~~w~~ll~~~~~~~~~~g 814 (874)
...+||+.|+||||||+||||.+||||||..+|+.++.|++|++||.++|.+.-
T Consensus 580 -----~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~~~~~~li~~~~~~~~~~~ 633 (637)
T TIGR00376 580 -----KGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHGEVRE 633 (637)
T ss_pred -----CCCcccccCcceeeeehhhhhCceEEEECHHHhccChHHHHHHHHHHHCCCEEc
Confidence 357899999999999999999999999999999999999999999999998754
No 4
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=4.3e-66 Score=602.88 Aligned_cols=554 Identities=36% Similarity=0.450 Sum_probs=443.6
Q ss_pred hhcCCCCHHHHHHHHHHHHHHHHHHHHHhhhhccccccEEEEe-C---cEEEEEecCCCCCCCCCCCCCEEEEEecCCCC
Q 002849 230 AITDGLTLKNYTSFFKTLLIMEEIQLKEDMRAYDMENVTLMRK-G---LYLSLVVPGLAERRPSLVNGDFIFAKHAYEDT 305 (874)
Q Consensus 230 ~l~~~l~~~~Y~~~f~~Ll~lEe~~~~~~~~~~~~~~~~~~~~-~---~~~~l~vpgl~e~rps~~~GD~v~~~~~~~~~ 305 (874)
.....++.. ..++..+++.|+. +...++.|++..+.+..+ . +++..+.| +++.+|.+..+|+++.....-..
T Consensus 159 ~~~~~~~~~--~~k~~~~l~~~~~-~~~~ir~y~~~~v~~~~~~~~~~r~~~~~r~-l~~~~pvv~~~~~if~~~~~~~~ 234 (775)
T KOG1804|consen 159 AVKSLLQQE--EAKILILLHSESA-ADIYIREYLHPYVEEGLPEATPLRVYSRKRP-LAQVNPVVLQYCFIFDSHITFRR 234 (775)
T ss_pred hhhcccccc--cccceEeechhHH-HHHHHHHhhcccccccccccccccceeeccc-ccccCCceeeeeeeccchhhhcc
Confidence 334444444 7889999999999 999999999998887543 2 77888899 99999999999988875553223
Q ss_pred CccEEEEEEEEeCcEEEEEECCCccccCCCCCcEEEEEEechhhHHHHHHHhHHHhh-cccccccCCCCCCccccccC--
Q 002849 306 SSAYQGFIHRVEADEVHLKFASDFQLNHRDENLYNVQFTYNRVNMRRLYQATDAAQE-LDTEFLFPSESSGIRLIESN-- 382 (874)
Q Consensus 306 ~~~~~g~v~~v~~~~v~l~~~~~~~~~~~~~~~~~v~f~~~r~~~~r~~~Al~~~~~-~~~~~lfP~~~~~~~~~~~~-- 382 (874)
..++.+..|+|.-.++...+...+......+ |+++- +++|++.... +...++||... .+.+-..
T Consensus 235 pq~~~~~~Hrv~~~~~~~s~~~~~l~~~~~~------~t~~~-----~~eaae~~~~~~l~P~~~~~~~--~~~~L~~~~ 301 (775)
T KOG1804|consen 235 PQVEDLFKHRVVVVTLSQSQYLTPLGLPVGF------FTHIL-----LDEAAQAMECELLMPLALPSSG--TRIVLAGPH 301 (775)
T ss_pred chhhhhcccceeEeecceeecccccCCCCCc------eeeee-----HHHHHhcCCceeecccccCCCC--ceeeecccc
Confidence 6678888899988888777766554433222 22211 4445444322 22334455433 2222111
Q ss_pred -CCCcC-CCCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 383 -TLVPI-SCNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 383 -~~~~~-~~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.+.++ +.....+|+.+ .+..+..+||+++||||||||.+++++++++....+...|++|+++|+|+|..+.|+.-
T Consensus 302 ~ql~~~l~s~~~~~~~~~---~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~ 378 (775)
T KOG1804|consen 302 LQLTPFLNSVAREEQALH---LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHY 378 (775)
T ss_pred cccccchhhhhhhhhhhh---hcccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhcccccccccccccccccc
Confidence 22222 22334444444 66666678999999999999999999999999888889999999999999999999943
Q ss_pred ccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEc
Q 002849 461 EKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDE 540 (874)
Q Consensus 461 ~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDE 540 (874)
...+......+.++.++......+++.+++...+.++ .+..++++++||++++.+...++..++|+|+++||
T Consensus 379 --p~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~e~~~------~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~De 450 (775)
T KOG1804|consen 379 --PLTFSTARGEDVRAKSSTAWYNNAEVSEVVEKVEELR------KVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDE 450 (775)
T ss_pred --cccccccccccccccchhHHhhhHHHHHHHHHHHHHh------hccceEEEEeeccceeeeecccccccceeeeeecc
Confidence 2222323334444544444444445554444333333 45788999999999999999999999999999999
Q ss_pred CCCCChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCC-----Cccceeeccccc
Q 002849 541 AGQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHG-----NENYVTKLVRNY 615 (874)
Q Consensus 541 AsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~-----~~~~~~~L~~nY 615 (874)
|+|++||+.++|+..+.... ++||.|||+||+|+++|..|..+|++.++|+|+.....+... ++.+.+.|..||
T Consensus 451 Ag~stEpe~lv~i~~~~~~~-~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rny 529 (775)
T KOG1804|consen 451 AGVSTEPELLVPGKQFRQPF-QVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNY 529 (775)
T ss_pred cccccCccccccccccccee-EEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHH
Confidence 99999999999999887654 899999999999999999999999999999999876555443 677889999999
Q ss_pred CCchhhhccccccccccccccccccc-ccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHH
Q 002849 616 RSHPQILHLPSKLFYEEELIACKDES-ISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTS 694 (874)
Q Consensus 616 Rshp~I~~~~n~~fY~~~L~~~~~~~-~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~ 694 (874)
|+|+.|+.++|++||+++|..+.... ......|..+ ++|+++.|.++++++++||+|+.||..|..+++.+..
T Consensus 530 rshp~il~l~~~l~y~~eL~~~~~~~~v~~~~~w~~l------iif~g~~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~ 603 (775)
T KOG1804|consen 530 RSHPIILCLENRLYYLGELTAEASEVDVRGLELWSGL------ILFYGAPGFTERAGNSPSWLNLEEAAVVVRMTKALPL 603 (775)
T ss_pred hhhhHhhhcccccccccceeeeccHHHHHHHHhcccc------eeccccccccccccCChhhccHHHHHHHHHHHhccCC
Confidence 99999999999999999999887664 3344455443 9999999999999999999999999999999999988
Q ss_pred cCCCCCCeEEEEcccHHHHHHHHHHHHhcCCCCeEECccccCCCceeeEEEEEeccCCCcCCccccccccccCCCCCceE
Q 002849 695 TGNLSEEDIGVITPYRQQVLKLNKALESLYMPDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFN 774 (874)
Q Consensus 695 ~~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlN 774 (874)
.......||||||||++|+..|+.+|+..++++++|++|+.|||+|+.+||+|+|||......+|..... |++++++||
T Consensus 604 ~~~~~~~DIgvitpy~aq~~~i~~~l~~~~~~~~~vgsVe~fqGqE~~viiiStVrS~~~~~~~~~~~~~-fls~pk~l~ 682 (775)
T KOG1804|consen 604 GEVAQPQDIGVITPYTAQVSEIRKALRRLGVPGVKVGSVEEFQGQEPWVILGSTVRSFALPLLDDRYFGL-FLSRPKRLL 682 (775)
T ss_pred CCccccccceeeCcHHHHHHHHHHHhcccCCCCCcccceeeeccccceeeEeecccccCCCcccccccce-eecCcccce
Confidence 7667788999999999999999999999999999999999999999999999999999888877765555 999999999
Q ss_pred eccccccccEEEEEccccccCChHHHHHHHHHHhCCCcccCCCCc
Q 002849 775 VAVTRAISLLIIIGNPHIVSKDPYWHQLLWYCSDNNSYQGCALPE 819 (874)
Q Consensus 775 VAiTRAK~~LiIvGn~~~L~~~~~w~~ll~~~~~~~~~~g~~~p~ 819 (874)
||+|||+..++++|+++.+..++.|+.++.+|.+||.|.||.+|.
T Consensus 683 v~V~rp~~l~i~~~~~h~~~~~~~~~~~l~~~~~n~~y~~c~~~~ 727 (775)
T KOG1804|consen 683 VAVGRPRALLINLGNPHLLGGDPPWGLLLLLRVENGRYPGCDFPP 727 (775)
T ss_pred eeccCccccccccCCcccccCCCChhhheeeeecCCcccCCCCCc
Confidence 999999999999999999999999999999999999999999998
No 5
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=5.5e-64 Score=577.87 Aligned_cols=386 Identities=30% Similarity=0.407 Sum_probs=319.8
Q ss_pred CCCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 388 SCNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 388 ~~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
...||..|++|+..++.++++ .+|.|-|||||||||+.+|+-|+. .+++||++++||+|+|+|+-||...
T Consensus 667 ~~~LN~dQr~A~~k~L~aedy--~LI~GMPGTGKTTtI~~LIkiL~~--~gkkVLLtsyThsAVDNILiKL~~~------ 736 (1100)
T KOG1805|consen 667 LLRLNNDQRQALLKALAAEDY--ALILGMPGTGKTTTISLLIKILVA--LGKKVLLTSYTHSAVDNILIKLKGF------ 736 (1100)
T ss_pred HhhcCHHHHHHHHHHHhccch--heeecCCCCCchhhHHHHHHHHHH--cCCeEEEEehhhHHHHHHHHHHhcc------
Confidence 358999999999999998876 799999999999999999998887 5799999999999999999999863
Q ss_pred cccEEEecCCCCCCcCCchhhhhhccccchhccC--CchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCC
Q 002849 468 ENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKC--PPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 468 ~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~--~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~ 545 (874)
...++|++...+ +++++.+++..++..++. .-...+.+..||.+||.+.... -+...+||++|||||+|+.
T Consensus 737 ~i~~lRLG~~~k----ih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~p---lf~~R~FD~cIiDEASQI~ 809 (1100)
T KOG1805|consen 737 GIYILRLGSEEK----IHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGINHP---LFVNRQFDYCIIDEASQIL 809 (1100)
T ss_pred CcceeecCCccc----cchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCCch---hhhccccCEEEEccccccc
Confidence 234899998765 788888888643322211 1134567889999999988743 2345689999999999999
Q ss_pred hhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhccc
Q 002849 546 EPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLP 625 (874)
Q Consensus 546 epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~ 625 (874)
.|.+|.||. ++. ++||||||.||||.+.+..|+..|++.|+|+||.+.. |..+..|+.||||+..|+.++
T Consensus 810 lP~~LgPL~-~s~---kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~h------peaV~~Lt~QYRMn~~I~~LS 879 (1100)
T KOG1805|consen 810 LPLCLGPLS-FSN---KFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEKH------PEAVSSLTLQYRMNREIMRLS 879 (1100)
T ss_pred cchhhhhhh-hcc---eEEEecccccCCccccchhhhhcCcchHHHHHHhhhC------chHHHhHHHHHhhcchHHhhh
Confidence 999999998 444 5999999999999999999999999999999998743 445889999999999999999
Q ss_pred cccccccccccccccccc-c----------------cccc-cCCCCCCCCEEEEecCCCccc--cCCCCCccCHHHHHHH
Q 002849 626 SKLFYEEELIACKDESIS-C----------------TAYL-NFLPNKEFPVLFFGIQGCDER--EGSNPSWFNRIEVSKV 685 (874)
Q Consensus 626 n~~fY~~~L~~~~~~~~~-~----------------~~~~-~~~~~~~~pi~f~~v~g~~~~--~~~s~S~~N~~Ea~~V 685 (874)
|.+||+|+|..+.++... . ...| ..+-.+..+++|+.++.+..- .+......|..||..|
T Consensus 880 N~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~~ie~~~e~~~i~N~~EA~li 959 (1100)
T KOG1805|consen 880 NKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDTCSTIESQGEKGGITNHGEAKLI 959 (1100)
T ss_pred hhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCcccchhhhccccCcCchhHHHHH
Confidence 999999999876544221 0 0111 123345567888766544321 2233346699999999
Q ss_pred HHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHHHhcCCCCeEECccccCCCceeeEEEEEeccCCCcCCccccccccc
Q 002849 686 VEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKALESLYMPDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLG 765 (874)
Q Consensus 686 ~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lG 765 (874)
+..+..+++.| +++++||||||||+|+.+|++.+...- ++|.|||+|||+++|+||+|+||++.+. ..-.
T Consensus 960 ~~~~~~fv~sG-v~~~dIGIis~YraQv~Li~~~l~~~~---lEinTVD~yQGRDKd~IivSfvrsn~~~------~~~e 1029 (1100)
T KOG1805|consen 960 SELVEDFVKSG-VKPSDIGIISPYRAQVELIRKILSSAV---LEINTVDRYQGRDKDCIIVSFVRSNKKS------KVGE 1029 (1100)
T ss_pred HHHHHHHHHcC-CCHHHeeeeehHHHHHHHHHhhccccc---eeeeehhhhcCCCCCEEEEEEEecCCcc------cHHH
Confidence 99999999997 999999999999999999999998743 8999999999999999999999998652 2335
Q ss_pred cCCCCCceEeccccccccEEEEEccccccCChHHHHHHHHHHhCC
Q 002849 766 FLSNPRRFNVAVTRAISLLIIIGNPHIVSKDPYWHQLLWYCSDNN 810 (874)
Q Consensus 766 Fl~d~rrlNVAiTRAK~~LiIvGn~~~L~~~~~w~~ll~~~~~~~ 810 (874)
.|.|+||+|||+||||.+||+||+..+|...|.+++|+++..++.
T Consensus 1030 LLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~~~~~~l~~~l~~~~ 1074 (1100)
T KOG1805|consen 1030 LLKDWRRLNVALTRAKKKLILVGSKSTLESYPPFRQLLKLLENRI 1074 (1100)
T ss_pred HHHhhHHHHHHHHhhhceEEEEecccccccCchHHHHHhhhhhhh
Confidence 789999999999999999999999999999999999999986543
No 6
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=9.9e-47 Score=423.90 Aligned_cols=282 Identities=24% Similarity=0.315 Sum_probs=238.5
Q ss_pred cccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccceeec-chhhhcC
Q 002849 507 LVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYS-REAETYG 585 (874)
Q Consensus 507 L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s-~~a~~~g 585 (874)
++.+.||..|++++..... -+..-....|||.||+.+.|...+.++...+ .++||+|||+||.|..-. ..+..+|
T Consensus 696 lR~a~vigmTTTgaaryr~-ilekv~pkivivEEAAEVlEahiIaal~p~~---EhviLIGDHKQLrP~~~vy~L~q~fn 771 (1025)
T KOG1807|consen 696 LREADVIGMTTTGAARYRF-ILEKVQPKIVIVEEAAEVLEAHIIAALTPHT---EHVILIGDHKQLRPFSGVYKLPQIFN 771 (1025)
T ss_pred hhccceeeeechhHHHHHH-HHHHhCCcEEEEhhHhHHhhcchhhhhcccc---eeEEEecchhhcCCCcchhhHhHhcc
Confidence 5678899999988875432 2233367899999999999998877776444 469999999999997544 3456789
Q ss_pred CCccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCC
Q 002849 586 MGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQG 665 (874)
Q Consensus 586 l~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g 665 (874)
+..|+||||...+. +..+|+.||||+|.|.++....||++-+. .. ....|+.+++.+..+.|+.+..
T Consensus 772 L~iSlFERLVe~gl-------pfsrLn~QhRM~p~IsrllvpsiYddl~d-~e-----svk~yedI~gms~nlfFv~hns 838 (1025)
T KOG1807|consen 772 LSISLFERLVEAGL-------PFSRLNLQHRMRPCISRLLVPSIYDDLLD-SE-----SVKEYEDIRGMSKNLFFVQHNS 838 (1025)
T ss_pred hhHHHHHHHHHcCC-------ChhhhhHHhhhchHHHHHhhHHHhhhhhc-ch-----hhccccccccccceeeEEecCC
Confidence 99999999988654 36789999999999999999899987442 21 2335666777777788887766
Q ss_pred CccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHHHhcCCCCeEECccccCCCceeeEEE
Q 002849 666 CDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKALESLYMPDIKVGSVEQFQGQERQVII 745 (874)
Q Consensus 666 ~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~~~~v~V~TVd~fQG~E~dvVI 745 (874)
.++.... .|+.|..||.+++++++.|++++ +.++||.|+|+|.+|...|++.|.+.....|.|.|||+|||.|+|||+
T Consensus 839 pee~~de-~S~~NlhEa~mlv~l~kyli~q~-y~psdIviLttY~gQk~ci~rllp~~~~stv~VatVDsfQGeEndIVL 916 (1025)
T KOG1807|consen 839 PEECMDE-MSIGNLHEAGMLVKLTKYLIQQQ-YKPSDIVILTTYNGQKECIKRLLPQNYRSTVQVATVDSFQGEENDIVL 916 (1025)
T ss_pred cccCcch-hhhhhHHHHHHHHHHHHHHHhcC-CCccceEEEeechhHHHHHHHHhHHHhcCcceEEEeccccCccccEEE
Confidence 5554333 89999999999999999999985 999999999999999999999999877778999999999999999999
Q ss_pred EEeccCCCcCCccccccccccCCCCCceEeccccccccEEEEEccccccC-ChHHHHHHHHHHhCCCccc
Q 002849 746 VSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLIIIGNPHIVSK-DPYWHQLLWYCSDNNSYQG 814 (874)
Q Consensus 746 iS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn~~~L~~-~~~w~~ll~~~~~~~~~~g 814 (874)
+|+|||+. .+.+|||..++|++||+||||.+|+||||..++.. .|.|.++++-.++|+...+
T Consensus 917 lSLVRsn~-------~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~ 979 (1025)
T KOG1807|consen 917 LSLVRSNI-------SGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGE 979 (1025)
T ss_pred EEEEeccC-------CceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhcccccc
Confidence 99999985 47799999999999999999999999999999988 8999999999999987643
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.7e-42 Score=427.37 Aligned_cols=404 Identities=33% Similarity=0.495 Sum_probs=310.6
Q ss_pred CCcCCCCCCHHHHHHHHHHhccCCCCCEEEE-cCCCCChhH--HHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 384 LVPISCNLNEEQMCSIEKILGLKGAPPYLIY-GPPGTGKTM--TLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 384 ~~~~~~~LN~~Q~~AV~~il~~~~~~~~lI~-GPPGTGKT~--Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
+...+..++..|..++....... ..+++. ||+|||||. ++.+.+.+.... ...+++.++++|.+++.+..++..
T Consensus 268 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 344 (767)
T COG1112 268 LVEINKELDNEQKLAVKRLLSLN--DLFLIHQGPFGTGKTRSVTILELIIELLEN-NKLKILPTAESNAAVDNLLRRLKR 344 (767)
T ss_pred eeccchhccchhHHHHHHHhccc--ceeEeecCCCCCCcchHHHHHHHHHHHHHh-cccceEEecCcccchhhHHHHHHh
Confidence 34455778999999999888752 234554 999999999 888888777764 368999999999999999999987
Q ss_pred ccccccccccEEEecCCCCCCcCCchhhhh---------------------------------------hcc---c----
Q 002849 461 EKAVEVRENEIFRLNAPSRPYEDVNADHIR---------------------------------------FCF---F---- 494 (874)
Q Consensus 461 ~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~---------------------------------------~~~---~---- 494 (874)
. .......++....+....+...... .+. .
T Consensus 345 ~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 420 (767)
T COG1112 345 T----VIKVELLRIGHPSRVLKKLKLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKIS 420 (767)
T ss_pred h----ccccceEEcCCcchhhhhhhhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHH
Confidence 3 1112234443322211111000000 000 0
Q ss_pred --cc---hhc-----------cC-----------------CchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcC
Q 002849 495 --DE---QIF-----------KC-----------------PPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEA 541 (874)
Q Consensus 495 --~~---~~~-----------~~-----------------~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEA 541 (874)
.. .+. .. ........++++++|+..++..... ...||++|||||
T Consensus 421 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~---~~~fd~viiDEA 497 (767)
T COG1112 421 HLNVALRGILPALNKSEALWISLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILK---KYEFDYVIIDEA 497 (767)
T ss_pred HhhhhhcchhHHHHHHHHHHHhhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhc---ccccCEEEEcch
Confidence 00 000 00 0001233456899998887754322 227999999999
Q ss_pred CCCChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhh
Q 002849 542 GQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQI 621 (874)
Q Consensus 542 sQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I 621 (874)
+|+++|.+++|+.. ..++|++|||+||||++.+......++..++|+++..... .....|+.|||||+.|
T Consensus 498 sQ~~~~~~~~~l~~----~~~~il~GD~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~------~~~~~L~~qyRm~~~i 567 (767)
T COG1112 498 SQATEPSALIALSR----AKKVILVGDHKQLPPTVFFKESSPEGLSASLFERLIDNGP------EVVYLLRVQYRMHPDI 567 (767)
T ss_pred hcccchhHHHhHhh----cCeEEEecCCccCCCeecchhhcccchhHhHHHHHHHhCC------chheeeeeecccChhh
Confidence 99999999999985 3469999999999999987655667899999999987643 2467899999999999
Q ss_pred hccccccccccccccccccccccccccc-CCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCC
Q 002849 622 LHLPSKLFYEEELIACKDESISCTAYLN-FLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSE 700 (874)
Q Consensus 622 ~~~~n~~fY~~~L~~~~~~~~~~~~~~~-~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~ 700 (874)
+.|+|+.||++++.............+. .......|+.|+++.+... ...+.+..|..||..+..++..+++.+ +.+
T Consensus 568 ~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~n~~e~~~~~~~~~~~~~~~-~~~ 645 (767)
T COG1112 568 IAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEE-FFESKSKLNELEAEIVKVIVDELLKDG-LEE 645 (767)
T ss_pred hhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEecCccc-ccCccceecHHHHHHHHHHHHHHHHcC-CcH
Confidence 9999999999999887765432221111 1111356899999988777 556778999999999999999999986 888
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCCCeEECccccCCCceeeEEEEEeccCCCcCCccccccccccCCCCCceEeccccc
Q 002849 701 EDIGVITPYRQQVLKLNKALESLYMPDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRA 780 (874)
Q Consensus 701 ~dIgIItPY~~Qv~~Ir~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRA 780 (874)
.+|||||||++|+..|++.+...+ .++.|+|||.|||+|+|+||+|+||++... +.+||+.|+||||||+|||
T Consensus 646 ~~igvis~y~~q~~~i~~~~~~~~-~~v~v~tvd~fQG~EkdvIi~S~v~s~~~~------~~i~~l~d~rRLNVAlTRA 718 (767)
T COG1112 646 NDIGVISPYRAQVSLIRRLLNEAG-KGVEVGTVDGFQGREKDVIILSLVRSNDDK------GEIGFLGDPRRLNVALTRA 718 (767)
T ss_pred HHcceecccHHHHHHHHHHHHhcC-CceEEeeccccCCccCcEEEEEEEeecCCC------ccccccCchhhhhhhhhcc
Confidence 889999999999999999998766 789999999999999999999999998531 5899999999999999999
Q ss_pred cccEEEEEccccccCChHHHHHHHHHHhCCCcccCC
Q 002849 781 ISLLIIIGNPHIVSKDPYWHQLLWYCSDNNSYQGCA 816 (874)
Q Consensus 781 K~~LiIvGn~~~L~~~~~w~~ll~~~~~~~~~~g~~ 816 (874)
|++|||||+...+..++.|+.++.++.+.+.|....
T Consensus 719 k~~livvg~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 719 KRKLIVVGSSSTLESDPLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred cceEEEEcChhHhhhchhHHHHHHHHHhcCcEeecc
Confidence 999999999999999999999999999999887654
No 8
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=8.5e-34 Score=344.82 Aligned_cols=289 Identities=30% Similarity=0.405 Sum_probs=235.5
Q ss_pred cceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCc
Q 002849 509 CYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGK 588 (874)
Q Consensus 509 ~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~ 588 (874)
.+.+|++|+.+.+..... -....|+.++||||+|+.|+..++||... ...+.+++||+.|||++|.+..+..+++..
T Consensus 514 ~a~~i~~t~~~~~~~~~~-~~~~p~~~vviDeaaq~~e~~s~~PL~l~--g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~ 590 (827)
T KOG1801|consen 514 EAALIVPTTRGSRIVLTL-YGGPPLDTVVIDEAAQKYEPSSLEPLQLA--GYQHCILVGDLAQLPATVHSSPAGCFKYMT 590 (827)
T ss_pred cceeEeecccccceEeec-ccCCCceEEEEehhhhhcCccchhhhhhc--CCceEEEecccccCChhhccchhccccchh
Confidence 778899998877653221 12347999999999999999999999953 234699999999999999999999999999
Q ss_pred cHHHHHHhcCCCCCCCccceeecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecC-CCc
Q 002849 589 SYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQ-GCD 667 (874)
Q Consensus 589 SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~-g~~ 667 (874)
|+|+|+...... ...|..+|||||+|..|+|..||++.|......................|+.|+++. |.+
T Consensus 591 slf~rl~l~~~~-------~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~~~~~~~y~f~~v~~g~e 663 (827)
T KOG1801|consen 591 SLFERLELAGHK-------TLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHSGETFGPYPFFNVHYGKE 663 (827)
T ss_pred hHHHHHHHccCc-------cceecceeecCCccccCccccccccccccCcccchhhccccCcCCCccCceEEEEeccccc
Confidence 999999765432 337999999999999999999999988766655422222222233455688999987 554
Q ss_pred cccCCCCCccCHHHHHHHHHHHHHHHHc---CCCCCCeEEEEcccHHHHHHHHHHHHhcC------CCCeEECccccCCC
Q 002849 668 EREGSNPSWFNRIEVSKVVEIIQKLTST---GNLSEEDIGVITPYRQQVLKLNKALESLY------MPDIKVGSVEQFQG 738 (874)
Q Consensus 668 ~~~~~s~S~~N~~Ea~~V~~~v~~L~~~---~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~------~~~v~V~TVd~fQG 738 (874)
. ...+.|..|..|+..+..++..+.+. ....+..+|||+||+.|+..+++.+.... ..++.+.|||.|||
T Consensus 664 ~-~~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg 742 (827)
T KOG1801|consen 664 R-AGGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQG 742 (827)
T ss_pred c-cCCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccC
Confidence 4 44447899999999999999999763 22337899999999999999998876532 25799999999999
Q ss_pred ceeeEEEEEeccCCCcCCccccccccccCCCCCceEeccccccccEEEEEccccccCChH-HHHHHHHHHhCCCcccC
Q 002849 739 QERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLIIIGNPHIVSKDPY-WHQLLWYCSDNNSYQGC 815 (874)
Q Consensus 739 ~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn~~~L~~~~~-w~~ll~~~~~~~~~~g~ 815 (874)
+|.|+||+|+||++. .+.+||+.|.+|+|||+||||..++++||...|..+.. |..++.-.+..|++.--
T Consensus 743 ~e~diii~s~vrs~~-------~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~ 813 (827)
T KOG1801|consen 743 GERDIIIISTVRSID-------EGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDR 813 (827)
T ss_pred CCCceeEEEEEEecc-------cCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhccccccccc
Confidence 999999999999985 35689999999999999999999999999999998766 99999988887776543
No 9
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=100.00 E-value=5.2e-35 Score=301.67 Aligned_cols=193 Identities=40% Similarity=0.662 Sum_probs=139.7
Q ss_pred CCccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCC
Q 002849 586 MGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQG 665 (874)
Q Consensus 586 l~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g 665 (874)
++.|+|+|+.... ....+.|.+||||||+|++|+|+.||+++|....+............+....|++|+++.+
T Consensus 1 ~~~Slferl~~~~------~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~ 74 (200)
T PF13087_consen 1 LDRSLFERLIKNG------SVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAPLLKLLPSPQNPIVFIDVSG 74 (200)
T ss_dssp TTS-HHHHHHHCT----------EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T-----SSTTSSEEEEE---
T ss_pred CCccHHHHHHHcC------CCCceecccccCCCHHHHHHHHHHHhchhcccCcccccccccccccccCCCCceEEEeccc
Confidence 4689999999864 1357899999999999999999999999998877554333332344566778999999999
Q ss_pred CccccCCC-CCccCHHHHHHHHHHHHHHHHcCCCC--CCeEEEEcccHHHHHHHHHHHHhcCCCC----eEECccccCCC
Q 002849 666 CDEREGSN-PSWFNRIEVSKVVEIIQKLTSTGNLS--EEDIGVITPYRQQVLKLNKALESLYMPD----IKVGSVEQFQG 738 (874)
Q Consensus 666 ~~~~~~~s-~S~~N~~Ea~~V~~~v~~L~~~~~~~--~~dIgIItPY~~Qv~~Ir~~L~~~~~~~----v~V~TVd~fQG 738 (874)
.+.....+ .|++|..||+.|+++++.|...+... +.+|||||||++|+..|++.|.+....+ ++|+|||+|||
T Consensus 75 ~~~~~~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd~~QG 154 (200)
T PF13087_consen 75 SESSSESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVDSFQG 154 (200)
T ss_dssp -EEEETTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHHHHTT
T ss_pred ccccccccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHHHhcc
Confidence 88776655 89999999999999999999875322 4899999999999999999999866554 99999999999
Q ss_pred ceeeEEEEEeccCCCcCCccccccccccCCCCCceEeccccccccEEEEEccc
Q 002849 739 QERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLIIIGNPH 791 (874)
Q Consensus 739 ~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn~~ 791 (874)
+|+|+||+|+|+++. ...+||+.+++|+|||+||||.+||||||+.
T Consensus 155 ~E~diVi~s~v~~~~-------~~~~~f~~~~~r~nVA~SRAk~~liiig~~~ 200 (200)
T PF13087_consen 155 QEADIVIVSLVRTNS-------SSNIGFLNDPNRLNVALSRAKSGLIIIGNPE 200 (200)
T ss_dssp --EEEEEEEE---ST-------TS-SGGGC-HHHHHHHHTSEEEEEEEEE-H-
T ss_pred ccceEEEEEeccCCc-------cccccccCCcCeeeeeHHHHhcCEEEEecCC
Confidence 999999999999973 3568999999999999999999999999963
No 10
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.95 E-value=5.2e-29 Score=288.02 Aligned_cols=404 Identities=24% Similarity=0.293 Sum_probs=293.3
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccccc
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENE 470 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~ 470 (874)
.|+.|.+|+..-... +.+.+.||||||||.+.+.++--++.+.|..|-|++++||.|...+-+++.+. .+...+
T Consensus 739 ft~~qveai~sg~qp---gltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~---d~d~rh 812 (1320)
T KOG1806|consen 739 FTPTQVEAILSGMQP---GLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMAL---DVDERH 812 (1320)
T ss_pred cCHHHHHHHHhcCCC---CceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhc---ccchhh
Confidence 488999988775543 67999999999999999999999998889999999999999999999998763 222223
Q ss_pred EEEecCCC----------------------------------------------------------CCCcCCchhhhhhc
Q 002849 471 IFRLNAPS----------------------------------------------------------RPYEDVNADHIRFC 492 (874)
Q Consensus 471 i~Rl~~~~----------------------------------------------------------r~~~~v~~~~~~~~ 492 (874)
+.|++... +.++..-+.+.+-|
T Consensus 813 Llrlg~ge~eletd~dfsrygrvn~~l~~r~~ll~ev~rla~sl~~pgdv~ytcetagyf~~~~V~~~wee~l~~v~~~~ 892 (1320)
T KOG1806|consen 813 LLRLGHGEEELETDKDFSRYGRVNYVLSRRLELLREVERLAKSLQAPGDVDYTCETAGYFFLAYVKRRWEEYLAKVDKGC 892 (1320)
T ss_pred HHHhcccHHhhhcccchhheeeEeeeeccchHHHHHHHHhhhhhcCccccccccchhhhhhhhHHHhhhHHHHHHhccCC
Confidence 33332110 00000000000000
Q ss_pred cc-------------------cchhccC---------------------------Cc------------hhhcccceEEE
Q 002849 493 FF-------------------DEQIFKC---------------------------PP------------LAALVCYRIII 514 (874)
Q Consensus 493 ~~-------------------~~~~~~~---------------------------~~------------~~~L~~~~VI~ 514 (874)
.. .+..+.. .. +-..+.++||.
T Consensus 893 ~~~~~~~~~~~fpf~~~f~d~p~~vfeg~n~~~d~~~a~~cf~hl~~ifqqLee~rafellr~~~dr~~Yll~kqakiia 972 (1320)
T KOG1806|consen 893 DKDSVDIVSNRFPFHSYFGDKPKPPFEGYNKENDMDYATGCFRHLEYIFQQLEEFRAFELLRSGEDRELYLLVKQAKIIA 972 (1320)
T ss_pred CchhhhhHhhhCcchhhhhcCCCccccccchhhhhhhhhhhHHHHHHHHHHHHhcccccccccchhHhhccCcccceeee
Confidence 00 0000000 00 01125789999
Q ss_pred EechhhhhhhhcccC-CCCccEEEEEcCCCCChhhhHHHhhccccCC-----cEEEEecCCCcccceeecch-hhhcCCC
Q 002849 515 STYMSASLIYAEGVD-RGHFSHIFLDEAGQASEPESMVPISSYCKKD-----TVVVLAGDPMQLGPVIYSRE-AETYGMG 587 (874)
Q Consensus 515 ~T~~sa~~l~~~~~~-~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~-----~~vVLvGDp~QL~PvI~s~~-a~~~gl~ 587 (874)
+||..+.......+. .-.||-+++.|++|..|-+..+|+...+... +++|++||+.||||++.... +.....+
T Consensus 973 mtcthaalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~ 1052 (1320)
T KOG1806|consen 973 MTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNME 1052 (1320)
T ss_pred cccCChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcch
Confidence 999987643322222 2268999999999999999999998777654 38999999999999996544 3444678
Q ss_pred ccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecC---
Q 002849 588 KSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQ--- 664 (874)
Q Consensus 588 ~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~--- 664 (874)
.|+|.|+..... +.+.|..|+|.-+.|+.+.|..+-.-......+.... .-....+..+++.|+++.
T Consensus 1053 qslf~r~vRl~i-------p~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~---f~~aNagf~~~~qlinv~Df~ 1122 (1320)
T KOG1806|consen 1053 QSLFTRLVRLGV-------PIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPR---FQYANAGFAYEFQFINVPDFK 1122 (1320)
T ss_pred hhhhhcceeccc-------ceecchhhhhHHHHHHHHHHhhhcccccCcCCccchh---hhccccCceeeEEEecchhhc
Confidence 899999977543 4788999999999999999865422111111111100 001122344678888774
Q ss_pred CCccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHHHhcCC------CCeEECccccCCC
Q 002849 665 GCDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKALESLYM------PDIKVGSVEQFQG 738 (874)
Q Consensus 665 g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~~------~~v~V~TVd~fQG 738 (874)
|..+.+.+..-+.|..||+.++.....+..-| ++.+.|.|+|.|++|+..|++.+..+-. .--+|+|||.|||
T Consensus 1123 g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lg-ypa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qg 1201 (1320)
T KOG1806|consen 1123 GSGETEPSPGFYQNLGEAEYAVALFQYMRLLG-YPANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQG 1201 (1320)
T ss_pred cccccCCCcccccCCchhhhHHHHHHHHHHhC-CchhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccc
Confidence 55555566666789999999999888887775 8999999999999999999999876421 2357999999999
Q ss_pred ceeeEEEEEeccCCCcCCccccccccccCCCCCceEeccccccccEEEEEccccccC----ChHHHHHHHHHHhCCCccc
Q 002849 739 QERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLIIIGNPHIVSK----DPYWHQLLWYCSDNNSYQG 814 (874)
Q Consensus 739 ~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn~~~L~~----~~~w~~ll~~~~~~~~~~g 814 (874)
+..|.||+|+||+. ..|.+.|.|||.||++||+-+|+|.+......+ -|.|+.|.++-..+....+
T Consensus 1202 qqndfiIlslv~tr----------~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~p~~lll~~~ 1271 (1320)
T KOG1806|consen 1202 QQNDFIILSLVRTR----------EVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKRPDKLLLTPG 1271 (1320)
T ss_pred cccceEEeeehhhh----------hhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhCcchhccccC
Confidence 99999999999984 578999999999999999999999999887765 7999999998888887777
Q ss_pred CCCCccc
Q 002849 815 CALPERE 821 (874)
Q Consensus 815 ~~~p~~~ 821 (874)
-..|...
T Consensus 1272 ei~pt~r 1278 (1320)
T KOG1806|consen 1272 EIYPTSR 1278 (1320)
T ss_pred ccccccc
Confidence 6666655
No 11
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.95 E-value=1.3e-27 Score=285.50 Aligned_cols=221 Identities=18% Similarity=0.190 Sum_probs=144.3
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhcccc--CCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccce
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCK--KDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYV 608 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~ 608 (874)
..|+||+|||+ |++.|..+..|..++. ++.++++|||+.| .||++. |.+.+++..+..... ....
T Consensus 429 ~~~~~IlVDE~-QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~Q---sIY~fr----Ga~~~~~~~f~~~f~-----~~~~ 495 (684)
T PRK11054 429 SPWKHILVDEF-QDISPQRAALLAALRKQNSQTTLFAVGDDWQ---AIYRFS----GADLSLTTAFHERFG-----EGDR 495 (684)
T ss_pred hcccEEEEEcc-ccCCHHHHHHHHHHhccCCCCeEEEEECCCc---cccccC----CCChHHHHHHHhhcC-----CCeE
Confidence 35999999999 8888888888887764 3468999999999 999876 555566666543221 1236
Q ss_pred eecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHH
Q 002849 609 TKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEI 688 (874)
Q Consensus 609 ~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~ 688 (874)
+.|.+||||++.|++++|.++-.+.-. .. ...........|.+.... ..+.+.+++.
T Consensus 496 ~~L~~nYRs~~~I~~~An~~i~~n~~~-~~-------k~l~s~~~g~~p~v~~~~---------------~~~~~~il~~ 552 (684)
T PRK11054 496 CHLDTTYRFNSRIGEVANRFIQQNPHQ-LK-------KPLNSLTKGDKKAVTLLP---------------EDQLEALLDK 552 (684)
T ss_pred EEeCCCCCCCHHHHHHHHHHHHhCccc-cC-------CcccccCCCCCceEEEeC---------------CHHHHHHHHH
Confidence 789999999999999999866332100 00 000111122233333221 0245556666
Q ss_pred HHHHHHcCCCCCCeEEEEcccHHHHHHHHHHHHh-cCCCCeEECccccCCCceeeEEEEEeccCCCcCCcc---cc----
Q 002849 689 IQKLTSTGNLSEEDIGVITPYRQQVLKLNKALES-LYMPDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDF---DR---- 760 (874)
Q Consensus 689 v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~~-~~~~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~---d~---- 760 (874)
+..+.. +..+|+||++|+.+...+.+.+.. ....+|.+.|+|.++|+|+|.|||..+.+.....+. +.
T Consensus 553 l~~~~~----~~~~I~IL~R~~~~~~~~l~~~~~~~~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~ 628 (684)
T PRK11054 553 LSGYAK----PDERILLLARYHHLRPALLDKAATRWPKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEE 628 (684)
T ss_pred HHHhhc----CCCcEEEEEechhhHHHHHHHHHhhcccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhh
Confidence 655543 357999999999887655544432 222369999999999999999999776543200000 00
Q ss_pred -----ccccccCCCCCceEeccccccccEEEEEccc
Q 002849 761 -----KHCLGFLSNPRRFNVAVTRAISLLIIIGNPH 791 (874)
Q Consensus 761 -----~~~lGFl~d~rrlNVAiTRAK~~LiIvGn~~ 791 (874)
....-.-.++|.||||+||||+.|+|+.+..
T Consensus 629 ~~~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~ 664 (684)
T PRK11054 629 ALLPPPEDFPDAEERRLLYVALTRAKHRVWLLFNKG 664 (684)
T ss_pred cccccccccccHHHHHHHHHHhhhhhcEEEEEEcCC
Confidence 0001112346789999999999999998743
No 12
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.95 E-value=5e-28 Score=254.31 Aligned_cols=180 Identities=35% Similarity=0.514 Sum_probs=108.7
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH------HhcCCCeEEEecCCHHHHHHHHHHHhcc--
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY------ATREDARLLVCAPSNSAADHLLEKILGE-- 461 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll------~~~~~~rILv~ApSNsAaD~l~~rL~~~-- 461 (874)
+||++|++||.+++.... .++|+||||||||+|++.++..++ ....+.+||+||+||.|+|++.++|.+.
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~ 78 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLD 78 (236)
T ss_dssp ---HHHHHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC---
T ss_pred CCCHHHHHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhcc
Confidence 489999999999998743 489999999999999999999884 2457889999999999999999999871
Q ss_pred cccccccccEEEecCCCCCCcCCchhhhhhcccc---c---------------------------hh--ccC--------
Q 002849 462 KAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFD---E---------------------------QI--FKC-------- 501 (874)
Q Consensus 462 ~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~---~---------------------------~~--~~~-------- 501 (874)
.........++|++.... ...+++..++... . .. +..
T Consensus 79 ~~~~~~~~~~ir~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (236)
T PF13086_consen 79 EDGKVYKPKIIRLGSEEE---KIHEDLQKFSLESKLEQRFESKLKRLREQLEELQQKIRLSELKEEKKKLKKSIKRLRKE 155 (236)
T ss_dssp -----TT--EEE---GGT---TS--TTGGGBHHHHHHTTT-----------THHHCHHHHHHHHHHHCCSSCHHHHHHHH
T ss_pred ccccccccchhhhccccc---ccccccccccccccccccccccchhhhHHHHHHHHhhhhhhhhhhhhhcchhccccccc
Confidence 112344557888887661 1111112211000 0 00 000
Q ss_pred -------CchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccc
Q 002849 502 -------PPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGP 574 (874)
Q Consensus 502 -------~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~P 574 (874)
-....+..++||++|+.++........ ...||+||||||||++++++++||...+ .++||+|||+||||
T Consensus 156 ~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~~~~~-~~~~d~vIvDEAsq~~e~~~l~~l~~~~---~~~vlvGD~~QLpP 231 (236)
T PF13086_consen 156 LEKIREELRRFILKEADVIFTTLSSAASPFLSNF-KEKFDVVIVDEASQITEPEALIPLSRAP---KRIVLVGDPKQLPP 231 (236)
T ss_dssp HHHHHHHHHHHHHHT-SEEEEETCGGG-CCGTT------SEEEETTGGGS-HHHHHHHHTTTB---SEEEEEE-TTS---
T ss_pred ccccccchhhhhcccccccccccccchhhHhhhh-cccCCEEEEeCCCCcchHHHHHHHHHhC---CEEEEECChhhcCC
Confidence 012446789999999998843221111 1279999999999999999999996433 57999999999999
Q ss_pred eeec
Q 002849 575 VIYS 578 (874)
Q Consensus 575 vI~s 578 (874)
++.|
T Consensus 232 ~v~s 235 (236)
T PF13086_consen 232 VVKS 235 (236)
T ss_dssp --S-
T ss_pred eeCC
Confidence 9876
No 13
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=99.93 E-value=1.5e-24 Score=255.38 Aligned_cols=201 Identities=21% Similarity=0.154 Sum_probs=119.2
Q ss_pred HHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCC---CeEEEecCCHHHHHHHHHHHhcccccccccc
Q 002849 393 EEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATRED---ARLLVCAPSNSAADHLLEKILGEKAVEVREN 469 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~---~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~ 469 (874)
+.|+.|+..++.. ..++|.|+||||||||++.++..+.+..+. .+|+++|||++||..|.+.+.....
T Consensus 148 ~~Qk~A~~~al~~---~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~------ 218 (586)
T TIGR01447 148 NWQKVAVALALKS---NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVK------ 218 (586)
T ss_pred HHHHHHHHHHhhC---CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhc------
Confidence 7899999999986 578999999999999999988877654332 5899999999999999999865210
Q ss_pred cEEEecCCCCCCcCCc---hhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCCh
Q 002849 470 EIFRLNAPSRPYEDVN---ADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASE 546 (874)
Q Consensus 470 ~i~Rl~~~~r~~~~v~---~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~e 546 (874)
++.........++ ..+.++. .....+ ..+....-....+|+||||||||+..
T Consensus 219 ---~l~~~~~~~~~~~~~a~TiHrlL---------------------g~~~~~-~~~~~~~~~~l~~dvlIiDEaSMvd~ 273 (586)
T TIGR01447 219 ---NLAAAEALIAALPSEAVTIHRLL---------------------GIKPDT-KRFRHHERNPLPLDVLVVDEASMVDL 273 (586)
T ss_pred ---ccccchhhhhccccccchhhhhh---------------------cccCCc-chhhhcccCCCcccEEEEcccccCCH
Confidence 0000000000000 0000000 000000 00000111234689999999999998
Q ss_pred hhhHHHhhccccCCcEEEEecCCCcccceeecchhhhc------CCCccHHHHHHhcCCCC--CC--CccceeecccccC
Q 002849 547 PESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETY------GMGKSYLERLFECEPYC--HG--NENYVTKLVRNYR 616 (874)
Q Consensus 547 pe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~------gl~~SlfeRL~~~~~~~--~~--~~~~~~~L~~nYR 616 (874)
+.+...+. ....++++||+||+.||||+-.+..-.+. |........+....... .. -+..++.|+++||
T Consensus 274 ~l~~~ll~-al~~~~rlIlvGD~~QLpsV~~G~vl~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~L~~~~R 352 (586)
T TIGR01447 274 PLMAKLLK-ALPPNTKLILLGDKNQLPSVEAGAVLGDLCELASIGYLFQSAQAYALCKKINSKTRNPLSDNVCFLKTSHR 352 (586)
T ss_pred HHHHHHHH-hcCCCCEEEEECChhhCCCCCCChhHHHHHHhhccccchhhhhhhcccccccccccCCCCCcEEEeceeec
Confidence 87665555 44567899999999999998544321110 11010001110000000 00 1234889999999
Q ss_pred Cch--hhhcccccc
Q 002849 617 SHP--QILHLPSKL 628 (874)
Q Consensus 617 shp--~I~~~~n~~ 628 (874)
... .|..+++..
T Consensus 353 ~~~~S~I~~lA~~I 366 (586)
T TIGR01447 353 FGKDSGIGQLAKAI 366 (586)
T ss_pred CCCCccHHHHHHHH
Confidence 965 588887644
No 14
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.91 E-value=7.4e-24 Score=249.67 Aligned_cols=203 Identities=22% Similarity=0.204 Sum_probs=122.4
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..+.|+.|+..++.. ..++|.|+||||||||+..++..+.+.. +..+|+++|||++||..|.+++.....
T Consensus 153 ~~d~Qk~Av~~a~~~---~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~----- 224 (615)
T PRK10875 153 EVDWQKVAAAVALTR---RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALR----- 224 (615)
T ss_pred CCHHHHHHHHHHhcC---CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhh-----
Confidence 358999999999875 5789999999999999999888876643 346899999999999999999864210
Q ss_pred ccEEEecCCCCCCcCCc---hhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCC
Q 002849 469 NEIFRLNAPSRPYEDVN---ADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~---~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~ 545 (874)
++.........++ ..+.++... ...+ ..+....-....+|+||||||||+.
T Consensus 225 ----~~~~~~~~~~~~~~~a~TiHrlLg~---------------------~~~~-~~~~~~~~~~l~~dvlIvDEaSMvd 278 (615)
T PRK10875 225 ----QLPLTDEQKKRIPEEASTLHRLLGA---------------------QPGS-QRLRYHAGNPLHLDVLVVDEASMVD 278 (615)
T ss_pred ----ccccchhhhhcCCCchHHHHHHhCc---------------------CCCc-cchhhccccCCCCCeEEEChHhccc
Confidence 0000000000000 001111100 0000 0000011123368999999999999
Q ss_pred hhhhHHHhhccccCCcEEEEecCCCcccceeecchhhh------cCCCccH---HHHHHhcCCCC------CCCccceee
Q 002849 546 EPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAET------YGMGKSY---LERLFECEPYC------HGNENYVTK 610 (874)
Q Consensus 546 epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~------~gl~~Sl---feRL~~~~~~~------~~~~~~~~~ 610 (874)
.+.+...+.. ..+++++||+||+.||||+-.+..-.+ .++.... +.++.....-. +.-...+++
T Consensus 279 ~~lm~~ll~a-l~~~~rlIlvGD~~QL~sV~~G~VL~DL~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (615)
T PRK10875 279 LPMMARLIDA-LPPHARVIFLGDRDQLASVEAGAVLGDICRFAEAGYSAERAQQLSRLTGCHLPAGTGTEAASVRDSLCL 357 (615)
T ss_pred HHHHHHHHHh-cccCCEEEEecchhhcCCCCCCchHHHHHHhhhcccchhhhhHHhhhccccccccccccCCccccceee
Confidence 8877666664 456789999999999999855432111 1222222 22222111000 000123578
Q ss_pred cccccCCc--hhhhcccccc
Q 002849 611 LVRNYRSH--PQILHLPSKL 628 (874)
Q Consensus 611 L~~nYRsh--p~I~~~~n~~ 628 (874)
|+++||.. ..|..++...
T Consensus 358 L~~~~Rf~~~SgI~~lA~~I 377 (615)
T PRK10875 358 LRKSYRFGSDSGIGQLAAAV 377 (615)
T ss_pred cceeecCCCCCcHHHHHHHH
Confidence 99999985 5688887543
No 15
>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=99.91 E-value=2.1e-23 Score=252.23 Aligned_cols=299 Identities=22% Similarity=0.236 Sum_probs=182.5
Q ss_pred CCCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 388 SCNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 388 ~~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
...||++|++|+..++.. +.++|.|+|||||||++..++..+....+..+|++||||+.||+.|.+.+.. .
T Consensus 321 ~~~l~~~Q~~Ai~~~~~~---~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~------~ 391 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQH---KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGL------T 391 (720)
T ss_pred CCCCCHHHHHHHHHHHhC---CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCC------c
Confidence 357999999999999764 5689999999999998876555443322237899999999999977765421 1
Q ss_pred cccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChh
Q 002849 468 ENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEP 547 (874)
Q Consensus 468 ~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~ep 547 (874)
...+.|+-.... .... .. ..-.....++|||||||+....
T Consensus 392 a~Tih~lL~~~~-----------------~~~~--------------------~~---~~~~~~~~~llIvDEaSMvd~~ 431 (720)
T TIGR01448 392 ASTIHRLLGYGP-----------------DTFR--------------------HN---HLEDPIDCDLLIVDESSMMDTW 431 (720)
T ss_pred cccHHHHhhccC-----------------Cccc--------------------hh---hhhccccCCEEEEeccccCCHH
Confidence 112222111000 0000 00 0001236899999999999987
Q ss_pred hhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCc--hhhhccc
Q 002849 548 ESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSH--PQILHLP 625 (874)
Q Consensus 548 e~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRsh--p~I~~~~ 625 (874)
.+...+. ....+.++||+||+.||||+-.+ ..|..+..... ..++.|+++||.. ..|..++
T Consensus 432 ~~~~Ll~-~~~~~~rlilvGD~~QLpsV~~G----------~v~~dl~~~~~------~~~~~L~~i~RQ~~~s~i~~~a 494 (720)
T TIGR01448 432 LALSLLA-ALPDHARLLLVGDTDQLPSVGPG----------QVLKDLILSQA------IPVTRLTKVYRQAAGSPIITLA 494 (720)
T ss_pred HHHHHHH-hCCCCCEEEEECccccccCCCCC----------chHHHHHhcCC------CCEEEeCeeeccCCCcHHHHHH
Confidence 6655555 34567899999999999998332 33555654321 2478899999986 4577777
Q ss_pred ccccccccccccccccccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHH---cCCCCCCe
Q 002849 626 SKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTS---TGNLSEED 702 (874)
Q Consensus 626 n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~---~~~~~~~d 702 (874)
+.+- .|++... ..+ .+... + .++.+ .....+...+..++. .++++..+
T Consensus 495 ~~i~-~g~~~~~--------~~~----------~~~~~---~------~~~~~-~~~~~i~~~v~~~~~~~~~~~~~~~d 545 (720)
T TIGR01448 495 HGIL-HGEAPAW--------GDF----------KFLNL---T------RSEPE-GAARHIPLMVEKIVGMARVGGIPGAD 545 (720)
T ss_pred HHHH-cCCCchh--------hhh----------hcccc---c------cccch-hhHHHHHHHHHHHHHHHHhcCCChhH
Confidence 6432 3322100 000 00000 0 00111 112234444444433 22355678
Q ss_pred EEEEcccHHH---HHHHHHHHHhc---------------------------------C-----------C-CC-------
Q 002849 703 IGVITPYRQQ---VLKLNKALESL---------------------------------Y-----------M-PD------- 727 (874)
Q Consensus 703 IgIItPY~~Q---v~~Ir~~L~~~---------------------------------~-----------~-~~------- 727 (874)
+-||||.++- +..|.+.|.+. + + .+
T Consensus 546 ~qVL~p~~~g~~Gv~~lN~~lq~~lnp~~~~~~~~~~~~~~~~~GDkVm~~~N~~~~~v~NGdiG~I~~i~~~~~~~~~~ 625 (720)
T TIGR01448 546 IQVLAPMYKGPLGIDALNQHLQALLNPYQKGQGGIEIAEGEYRKGDRVMQTKNDYNNEIFNGDLGMIVKIEGAKQGKKDQ 625 (720)
T ss_pred eeEeCccccCccCHHHHHHHHHHHhCccCCCCceeecCCceecCCCEEEEeeecchhccccCCeeEEEeccccccCCCce
Confidence 8888887532 23333222110 0 0 00
Q ss_pred eE----------------------ECccccCCCceeeEEEEEeccCCCcCCccccccccccCCCCCceEeccccccccEE
Q 002849 728 IK----------------------VGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLI 785 (874)
Q Consensus 728 v~----------------------V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~Li 785 (874)
+. ..|||++||.|+|.||+....+. ..+-+++.+||||||||+.|+
T Consensus 626 i~v~f~g~~v~~~~~~~~~l~lAYAiTvHKsQGSe~~~Vii~l~~~~------------~~~l~r~llYTAiTRAk~~l~ 693 (720)
T TIGR01448 626 VVVDFDGNEVELTRAELFNLTLAYATSIHKSQGSEFPTVILPIHTAH------------MRMLYRNLLYTALTRAKKRVI 693 (720)
T ss_pred EEEEECCeEEEEcHHHhhhhhhhheeeehhccCccCCEEEEECCccc------------chhhhhchheeeeeeeceEEE
Confidence 11 37999999999999999765432 234568899999999999999
Q ss_pred EEEccccc
Q 002849 786 IIGNPHIV 793 (874)
Q Consensus 786 IvGn~~~L 793 (874)
|||++..|
T Consensus 694 lvg~~~a~ 701 (720)
T TIGR01448 694 LVGSAEAF 701 (720)
T ss_pred EEECHHHH
Confidence 99998765
No 16
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.90 E-value=2e-23 Score=254.58 Aligned_cols=310 Identities=20% Similarity=0.205 Sum_probs=191.5
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..||++|++||.+. .+|++|.|+||||||+||+.+|++++... ++.+||++||||+||++|.+|+.+..+...
T Consensus 3 ~~Ln~~Q~~av~~~-----~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~~ 77 (715)
T TIGR01075 3 DGLNDKQREAVAAP-----PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSA 77 (715)
T ss_pred cccCHHHHHHHcCC-----CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcccc
Confidence 36999999999753 15799999999999999999999999742 678999999999999999999986422111
Q ss_pred ccccE----------EEecCC----CCCCcCCchh-----hh---hhccccch----------hc--c--CCchhhccc-
Q 002849 467 RENEI----------FRLNAP----SRPYEDVNAD-----HI---RFCFFDEQ----------IF--K--CPPLAALVC- 509 (874)
Q Consensus 467 ~~~~i----------~Rl~~~----~r~~~~v~~~-----~~---~~~~~~~~----------~~--~--~~~~~~L~~- 509 (874)
....+ +|-... ...+.-+... +. +-....+. +. + ......+..
T Consensus 78 ~~~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~ 157 (715)
T TIGR01075 78 RGMWIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAMWYINNQKDEGLRPSHIQAF 157 (715)
T ss_pred cCcEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHCCCCHHHHHhc
Confidence 10111 110000 0000000000 00 00000000 00 0 000000000
Q ss_pred ---------------------c------eEEEEechhhhh-hhhcccCCCCccEEEEEcCCCCChhhhHHHhhccccCCc
Q 002849 510 ---------------------Y------RIIISTYMSASL-IYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYCKKDT 561 (874)
Q Consensus 510 ---------------------~------~VI~~T~~sa~~-l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~ 561 (874)
. +++..+..-... .........+|+||+|||+ |++.+..+..|..++..++
T Consensus 158 ~~~~~~~~~~iy~~Y~~~~~~~~~lDfdDll~~~~~lL~~~~~~~~~~~~~~~~ilVDEf-QDtn~~Q~~ll~~L~~~~~ 236 (715)
T TIGR01075 158 DNPVERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEF-QDTNKIQYAWIRLLAGNTG 236 (715)
T ss_pred cChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEcc-ccCCHHHHHHHHHHhCCCC
Confidence 0 000000000000 0000011347999999999 9998988888888887777
Q ss_pred EEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhccccccccccccccccccc
Q 002849 562 VVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDES 641 (874)
Q Consensus 562 ~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~ 641 (874)
++++|||++| .||++. |.+...|.++....+ ....+.|.+||||++.|++++|.++-.+.-.....
T Consensus 237 ~l~vVGD~~Q---sIY~fR----GA~~~~i~~f~~~~~-----~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~~-- 302 (715)
T TIGR01075 237 NVMIVGDDDQ---SIYGWR----GAQVENIQKFLKDFP-----GAETIRLEQNYRSTANILAAANALIANNDERLGKN-- 302 (715)
T ss_pred eEEEEeCCcc---cccccC----CCCHHHHHHHHHhCC-----CCeEEECcccCCCCHHHHHHHHHHHHhcccccccc--
Confidence 8999999999 999987 556666766654322 12367899999999999999998885442111000
Q ss_pred ccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHHH
Q 002849 642 ISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKALE 721 (874)
Q Consensus 642 ~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~ 721 (874)
.+.. ...+.++.++.... ...||..|++.|..++..| .+++||+||++.+.|...+...|.
T Consensus 303 -----~~~~-~~~g~~i~~~~~~~------------~~~Ea~~ia~~I~~l~~~g-~~~~diAVL~R~~~~~~~le~~L~ 363 (715)
T TIGR01075 303 -----LWTD-GEVGEPISLYSAFN------------ELDEARFVVSRIKTWQRNG-GALDECAVLYRSNAQSRVLEEALL 363 (715)
T ss_pred -----ccCC-CCCCCceEEEeCCC------------HHHHHHHHHHHHHHHHHcC-CCccCEEEEEecCchHHHHHHHHH
Confidence 0110 11112333333211 2368999999999998875 789999999999999999999999
Q ss_pred hcCCCCeEECccccCC
Q 002849 722 SLYMPDIKVGSVEQFQ 737 (874)
Q Consensus 722 ~~~~~~v~V~TVd~fQ 737 (874)
+.++|...++...-|+
T Consensus 364 ~~gIPy~~~g~~~f~~ 379 (715)
T TIGR01075 364 QASIPYRIYGGMRFFE 379 (715)
T ss_pred HcCCCEEEeCCccccc
Confidence 9998866555544333
No 17
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.90 E-value=2.6e-23 Score=253.47 Aligned_cols=310 Identities=20% Similarity=0.194 Sum_probs=191.1
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHh--cCCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYAT--REDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~--~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..||++|++||.+. .+|++|.|+||||||+||+++|++++.. .++.+||++||||+||++|.+|+.+..+...
T Consensus 8 ~~Ln~~Q~~av~~~-----~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~ 82 (721)
T PRK11773 8 DSLNDKQREAVAAP-----LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQ 82 (721)
T ss_pred HhcCHHHHHHHhCC-----CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccCC
Confidence 46999999999853 1579999999999999999999999974 2678999999999999999999976422111
Q ss_pred ccccE----------EEecC----CCCCCcCCchh----h-hhhc---ccc-----------------------chhcc-
Q 002849 467 RENEI----------FRLNA----PSRPYEDVNAD----H-IRFC---FFD-----------------------EQIFK- 500 (874)
Q Consensus 467 ~~~~i----------~Rl~~----~~r~~~~v~~~----~-~~~~---~~~-----------------------~~~~~- 500 (874)
....+ +|-.. ....+.-+... + .... ... +....
T Consensus 83 ~~~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~ 162 (721)
T PRK11773 83 GGMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDEGLRPQHIQSY 162 (721)
T ss_pred CCCEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHcCCCHHHHHhc
Confidence 10011 11000 00000000000 0 0000 000 00000
Q ss_pred -CCch-----------hh------cccceEEEEechhhhh-hhhcccCCCCccEEEEEcCCCCChhhhHHHhhccccCCc
Q 002849 501 -CPPL-----------AA------LVCYRIIISTYMSASL-IYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYCKKDT 561 (874)
Q Consensus 501 -~~~~-----------~~------L~~~~VI~~T~~sa~~-l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~ 561 (874)
.+.. +. +.-.+++..++..... .........+|+||+|||+ |++.+..+..|..++..+.
T Consensus 163 ~~~~~~~~~~iy~~Y~~~~~~~~~~DfdDll~~~~~lL~~~~~~~~~~~~~~~~IlVDEf-QDtn~~Q~~ll~~L~~~~~ 241 (721)
T PRK11773 163 GDPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEF-QDTNAIQYAWIRLLAGDTG 241 (721)
T ss_pred cChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEch-hcCCHHHHHHHHHHhCCCC
Confidence 0000 00 0000011111000000 0000011347999999999 9888888888888877777
Q ss_pred EEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhccccccccccccccccccc
Q 002849 562 VVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDES 641 (874)
Q Consensus 562 ~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~ 641 (874)
++++|||++| .||++. |.+...|.++....+ ....+.|.+||||++.|++++|.++-.+.-.....
T Consensus 242 ~l~vVGD~dQ---sIY~fR----GA~~~~~~~f~~~~~-----~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k~-- 307 (721)
T PRK11773 242 KVMIVGDDDQ---SIYGWR----GAQVENIQRFLNDFP-----GAETIRLEQNYRSTANILKAANALIANNNGRLGKE-- 307 (721)
T ss_pred eEEEEecCcc---cccccC----CCChHHHHHHHHhCC-----CCeEEECCcCCCCCHHHHHHHHHHHHhcccccCcc--
Confidence 8999999999 999988 556666766654322 12367899999999999999998885442111000
Q ss_pred ccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHHH
Q 002849 642 ISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKALE 721 (874)
Q Consensus 642 ~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~ 721 (874)
.+.. ...+.++.++... ....||..|++.|..++..| .+.+||+||++.+.|...+...|.
T Consensus 308 -----~~~~-~~~g~~v~~~~~~------------~~~~Ea~~ia~~I~~l~~~g-~~~~diAVL~R~~~~~~~le~~L~ 368 (721)
T PRK11773 308 -----LWTD-GGDGEPISLYCAF------------NELDEARFVVERIKTWQDNG-GALSDCAILYRSNAQSRVLEEALL 368 (721)
T ss_pred -----cccC-CCCCCeeEEEeCC------------CHHHHHHHHHHHHHHHHHcC-CCcccEEEEEecchhHHHHHHHHH
Confidence 0000 1111223333211 12468999999999998875 789999999999999999999999
Q ss_pred hcCCCCeEECccccCC
Q 002849 722 SLYMPDIKVGSVEQFQ 737 (874)
Q Consensus 722 ~~~~~~v~V~TVd~fQ 737 (874)
+.++|...++...-|+
T Consensus 369 ~~gIPy~~~g~~~f~~ 384 (721)
T PRK11773 369 QAGIPYRIYGGMRFFE 384 (721)
T ss_pred HCCCCEEEECCCCccc
Confidence 9998866665544333
No 18
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.90 E-value=8.2e-23 Score=246.37 Aligned_cols=313 Identities=18% Similarity=0.175 Sum_probs=190.4
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHh-c-CCCeEEEecCCHHHHHHHHHHHhcccccc-c
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYAT-R-EDARLLVCAPSNSAADHLLEKILGEKAVE-V 466 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~-~-~~~rILv~ApSNsAaD~l~~rL~~~~~~~-~ 466 (874)
.||++|++||.+. .+|++|.|+||||||+||+.+|++++.. + ++.+||++||||+||++|.+|+....+.. .
T Consensus 2 ~Ln~~Q~~av~~~-----~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~ 76 (672)
T PRK10919 2 RLNPGQQQAVEFV-----TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEA 76 (672)
T ss_pred CCCHHHHHHHhCC-----CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccc
Confidence 5899999999863 1679999999999999999999999964 2 57899999999999999999998632110 0
Q ss_pred ccccEEEecCCC--------------CCCcCCchhhhhhccccchhc---cCC-------------------chhhc-cc
Q 002849 467 RENEIFRLNAPS--------------RPYEDVNADHIRFCFFDEQIF---KCP-------------------PLAAL-VC 509 (874)
Q Consensus 467 ~~~~i~Rl~~~~--------------r~~~~v~~~~~~~~~~~~~~~---~~~-------------------~~~~L-~~ 509 (874)
....+-.+.+.. ..+.-+. ...+.....+... ... ....+ ..
T Consensus 77 ~~v~i~TfHS~~~~iLr~~~~~~g~~~~~~i~d-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~ 155 (672)
T PRK10919 77 RGLMISTFHTLGLDIIKREYAALGMKSNFSLFD-DTDQLALLKELTEGLIEDDKVLLQQLISTISNWKNDLKTPAQAAAG 155 (672)
T ss_pred cCcEEEcHHHHHHHHHHHHHHHhCCCCCCeeCC-HHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 001111110000 0000011 1111000000000 000 00000 00
Q ss_pred ceE----EEEechh-------------hh-------hhhhc-----ccCCCCccEEEEEcCCCCChhhhHHHhhccccCC
Q 002849 510 YRI----IISTYMS-------------AS-------LIYAE-----GVDRGHFSHIFLDEAGQASEPESMVPISSYCKKD 560 (874)
Q Consensus 510 ~~V----I~~T~~s-------------a~-------~l~~~-----~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~ 560 (874)
..- .+..+.. .. .+... .....+|+||+|||+ |++.+..+..|..++..+
T Consensus 156 ~~~~~~~~~~~~~~~Ye~~l~~~~~lDf~Dll~~~~~ll~~~~~~~~~~~~~~~~ilVDE~-QDtn~~Q~~ll~~l~~~~ 234 (672)
T PRK10919 156 AKGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEY-QDTNTSQYELVKLLVGSR 234 (672)
T ss_pred hcchhHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCHHHHHHHHhcCCEEEEEch-hcCCHHHHHHHHHHHcCC
Confidence 000 0000000 00 00000 001347999999999 999999999898888777
Q ss_pred cEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccccccccccccccccc
Q 002849 561 TVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDE 640 (874)
Q Consensus 561 ~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~ 640 (874)
.++++|||++| .||++. |.+...|.++....+ ....+.|.+||||++.|++++|.++-.+.-.. ...
T Consensus 235 ~~l~~VGD~~Q---sIY~fr----GA~~~~~~~f~~~~~-----~~~~~~L~~NyRs~~~I~~~an~li~~n~~~~-~k~ 301 (672)
T PRK10919 235 ARFTVVGDDDQ---SIYSWR----GARPQNLVLLSQDFP-----ALQVIKLEQNYRSSGRILKAANILIANNPHVF-EKR 301 (672)
T ss_pred CEEEEEcCCcc---cccccC----CCChHHHHHHHHhCC-----CCcEEECCCCCCCcHHHHHHHHHHHhhCcccc-ccc
Confidence 78999999999 999988 667777777654322 12367899999999999999998875432110 000
Q ss_pred cccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHH
Q 002849 641 SISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKAL 720 (874)
Q Consensus 641 ~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L 720 (874)
+ +...+ .+.++.++.... ...||..|+..+......++++.+||+||+..+.|...+...|
T Consensus 302 ----~--~~~~~-~g~~~~~~~~~~------------~~~ea~~i~~~i~~~~~~~~~~~~diAVL~Rs~~~~~~le~~L 362 (672)
T PRK10919 302 ----L--FSELG-YGDELKVLSANN------------EEHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFL 362 (672)
T ss_pred ----c--ccCCC-CCCceEEEcCCC------------HHHHHHHHHHHHHHHHHhcCCCcCcEEEEEeCchhHHHHHHHH
Confidence 0 00011 112233332211 1257888766554433233478899999999999999999999
Q ss_pred HhcCCCCeEECccccCCCcee
Q 002849 721 ESLYMPDIKVGSVEQFQGQER 741 (874)
Q Consensus 721 ~~~~~~~v~V~TVd~fQG~E~ 741 (874)
.+.++|-...+...-|+-.|-
T Consensus 363 ~~~gIP~~~~~~~~f~~~~ei 383 (672)
T PRK10919 363 MQNRIPYKISGGTSFFSRPEI 383 (672)
T ss_pred HHcCCCEEEeCCcchhcCHHH
Confidence 999999777776655665553
No 19
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.90 E-value=4.3e-23 Score=252.24 Aligned_cols=311 Identities=19% Similarity=0.199 Sum_probs=192.3
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..||++|++||.+. .+|++|.|+||||||+||+++|++++... ++.+||++||||+||.+|.+|+.+..+...
T Consensus 3 ~~Ln~~Q~~av~~~-----~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~ 77 (726)
T TIGR01073 3 AHLNPEQREAVKTT-----EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVA 77 (726)
T ss_pred cccCHHHHHHHhCC-----CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhcccc
Confidence 36999999999852 15799999999999999999999999743 568999999999999999999975322111
Q ss_pred ccccEEEecC--------------CCCCCcCCchh--------hh-h-------h---------ccccc------hhccC
Q 002849 467 RENEIFRLNA--------------PSRPYEDVNAD--------HI-R-------F---------CFFDE------QIFKC 501 (874)
Q Consensus 467 ~~~~i~Rl~~--------------~~r~~~~v~~~--------~~-~-------~---------~~~~~------~~~~~ 501 (874)
....+..+.+ ....+.-+... +. . + ....+ .....
T Consensus 78 ~~~~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~ 157 (726)
T TIGR01073 78 EDIWISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNELLPPEDFAKE 157 (726)
T ss_pred CCcEEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHcCCCHHHHHHh
Confidence 1111111000 00000000000 00 0 0 00000 00000
Q ss_pred C-c--h-----------hhccc------ceEEEEechhhhh-hhhcccCCCCccEEEEEcCCCCChhhhHHHhhccccCC
Q 002849 502 P-P--L-----------AALVC------YRIIISTYMSASL-IYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYCKKD 560 (874)
Q Consensus 502 ~-~--~-----------~~L~~------~~VI~~T~~sa~~-l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~ 560 (874)
. . . +.+.+ .+++..++.-... .........+|+||+|||+ |++.+..+..|..++...
T Consensus 158 ~~~~~~~~~~~iy~~Y~~~l~~~~~lDfdDll~~~~~lL~~~~~v~~~~~~~~~~IlVDEf-QDtn~~Q~~ll~~L~~~~ 236 (726)
T TIGR01073 158 ATNYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEY-QDTNRAQYTLVRLLASRF 236 (726)
T ss_pred hcchHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEcc-ccCCHHHHHHHHHHhCCC
Confidence 0 0 0 00000 0011000000000 0000001247999999999 888888888888787767
Q ss_pred cEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccccccccccccccccc
Q 002849 561 TVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDE 640 (874)
Q Consensus 561 ~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~ 640 (874)
.++++|||++| .||++. |.+...|.++....+ ....+.|.+||||++.|++++|.++-.+.-....
T Consensus 237 ~~l~vVGD~~Q---sIY~fR----gA~~~~~~~f~~~~~-----~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~~-- 302 (726)
T TIGR01073 237 RNLCVVGDADQ---SIYGWR----GADIQNILSFEKDYP-----NATTILLEQNYRSTKNILQAANEVIEHNSNRKPK-- 302 (726)
T ss_pred CEEEEEeCCCc---cccccC----CCChHHHHHHHHhCC-----CCeEEECccCCCCCHHHHHHHHHHHHhccccccc--
Confidence 78999999999 999987 555666666644321 1235789999999999999999887544211100
Q ss_pred cccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHH
Q 002849 641 SISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKAL 720 (874)
Q Consensus 641 ~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L 720 (874)
..+...+ .+.++.++.... -..||..|+..|.+++..|.++.+||+||++.+.|...+...|
T Consensus 303 -----~l~~~~~-~g~~v~~~~~~~------------~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~~l~~~L 364 (726)
T TIGR01073 303 -----NLWTENS-SGDKITYYEADT------------ERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETL 364 (726)
T ss_pred -----ccccCCC-CCcceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHHHHHHHH
Confidence 0011111 122344443211 2368999999999999887678999999999999999999999
Q ss_pred HhcCCCCeEECccccCC
Q 002849 721 ESLYMPDIKVGSVEQFQ 737 (874)
Q Consensus 721 ~~~~~~~v~V~TVd~fQ 737 (874)
.+.++|...++...-|+
T Consensus 365 ~~~gIP~~~~g~~~f~~ 381 (726)
T TIGR01073 365 LKANIPYKIVGGLKFYD 381 (726)
T ss_pred HHcCCCEEEeCCccccc
Confidence 99998876666554333
No 20
>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=99.87 E-value=3.8e-21 Score=233.35 Aligned_cols=159 Identities=22% Similarity=0.221 Sum_probs=108.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..||++|++||..++... ..++|.|+||||||+++..++ .+++. .+.+|++||||+.||..|.+.... ..
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~--~~~il~G~aGTGKTtll~~i~-~~~~~-~g~~V~~~ApTg~Aa~~L~~~~g~------~a 420 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSG--DIAVVVGRAGTGKSTMLKAAR-EAWEA-AGYRVIGAALSGKAAEGLQAESGI------ES 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCC--CEEEEEecCCCCHHHHHHHHH-HHHHh-CCCeEEEEeCcHHHHHHHHhccCC------ce
Confidence 569999999999998753 468999999999998877644 44443 468999999999999998764321 11
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe 548 (874)
..+.++. ..+. .........++|||||||++....
T Consensus 421 ~Ti~~~~-------------~~~~--------------------------------~~~~~~~~~~llIvDEasMv~~~~ 455 (744)
T TIGR02768 421 RTLASLE-------------YAWA--------------------------------NGRDLLSDKDVLVIDEAGMVGSRQ 455 (744)
T ss_pred eeHHHHH-------------hhhc--------------------------------cCcccCCCCcEEEEECcccCCHHH
Confidence 1111110 0000 000012368999999999999877
Q ss_pred hHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchh
Q 002849 549 SMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQ 620 (874)
Q Consensus 549 ~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~ 620 (874)
+...+......+.++||+||+.||||+-.+. .|..|.... ..+.|+..||....
T Consensus 456 ~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG~----------~f~~l~~~~--------~~~~Lt~I~RQ~~~ 509 (744)
T TIGR02768 456 MARVLKEAEEAGAKVVLVGDPEQLQPIEAGA----------AFRAIAERI--------GYAELETIRRQREA 509 (744)
T ss_pred HHHHHHHHHhcCCEEEEECChHHccccccCc----------HHHHHHHhh--------CeEEeeeEEecCCH
Confidence 6555543334577999999999999985432 355554321 25789999997543
No 21
>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=99.87 E-value=2e-21 Score=247.85 Aligned_cols=93 Identities=18% Similarity=0.230 Sum_probs=72.3
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccC---CcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKK---DTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENY 607 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~---~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~ 607 (874)
.+|+||+|||+ |++.+.+...|..++.. ..++++|||++| .||+++ |.+.++|.++........+....
T Consensus 387 ~rf~~ILVDEf-QDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQ---SIY~FR----GAdp~lf~~~~~~f~~~~~~~~~ 458 (1232)
T TIGR02785 387 EKFKEVLVDEY-QDTNLLQESILQLLKRGEEDEGNLFMVGDVKQ---SIYRFR----QADPSLFLEKYHRFAQEGNEHGK 458 (1232)
T ss_pred hCCCEEEEECC-cCCCHHHHHHHHHHhccCCCCCeEEEEcCCcc---hhhhhc----CCChHHHHHHHHHhhhhccCCce
Confidence 47999999999 99998887777766653 358999999999 999998 66788887765432110011234
Q ss_pred eeecccccCCchhhhccccccccc
Q 002849 608 VTKLVRNYRSHPQILHLPSKLFYE 631 (874)
Q Consensus 608 ~~~L~~nYRshp~I~~~~n~~fY~ 631 (874)
.+.|.+||||++.|+++.|.+|..
T Consensus 459 ~i~L~~NfRS~~~Il~~~N~lF~~ 482 (1232)
T TIGR02785 459 RIDLAENFRSRKEVLDTTNYLFKQ 482 (1232)
T ss_pred EEECCcCCCCcHHHHHHHHHHHHH
Confidence 678999999999999999999954
No 22
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.86 E-value=6.3e-21 Score=231.62 Aligned_cols=310 Identities=19% Similarity=0.182 Sum_probs=184.5
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHh--cCCCeEEEecCCHHHHHHHHHHHhcccccc--
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYAT--REDARLLVCAPSNSAADHLLEKILGEKAVE-- 465 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~--~~~~rILv~ApSNsAaD~l~~rL~~~~~~~-- 465 (874)
.||++|++||.+. .+|++|.|+||||||+||+.+|.+++.. .++.+||++||||.||.++.+|+.+..+..
T Consensus 1 ~Ln~~Q~~av~~~-----~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~ 75 (664)
T TIGR01074 1 KLNPQQQEAVEYV-----TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEA 75 (664)
T ss_pred CCCHHHHHHHhCC-----CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCcccc
Confidence 4899999999762 1579999999999999999999999964 266899999999999999999997632110
Q ss_pred --cccccEEEecC-----------CCCCCcCCchh----h-----hh-----------hcc-cc---------chhccCC
Q 002849 466 --VRENEIFRLNA-----------PSRPYEDVNAD----H-----IR-----------FCF-FD---------EQIFKCP 502 (874)
Q Consensus 466 --~~~~~i~Rl~~-----------~~r~~~~v~~~----~-----~~-----------~~~-~~---------~~~~~~~ 502 (874)
+....+.++.. ....+.-+.+. + .+ +.. +. +......
T Consensus 76 ~~v~v~TfHs~a~~il~~~~~~~g~~~~~~il~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~ 155 (664)
T TIGR01074 76 RGLTISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEGLIKDDKDLLDKLISTISNWKNDLLTPEQALASA 155 (664)
T ss_pred CCeEEEeHHHHHHHHHHHHHHHhCCCCCCEEeCHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHcCCCHHHHHHhc
Confidence 00011111100 00000000000 0 00 000 00 0000000
Q ss_pred ---ch-----------hhcccceE------EEEechhhh-hhhhcccCCCCccEEEEEcCCCCChhhhHHHhhccccCCc
Q 002849 503 ---PL-----------AALVCYRI------IISTYMSAS-LIYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYCKKDT 561 (874)
Q Consensus 503 ---~~-----------~~L~~~~V------I~~T~~sa~-~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~ 561 (874)
.. +.+..... +...+.-.. ..........+|+||+|||+ |++.|..+..|..++..+.
T Consensus 156 ~~~~~~~~~~i~~~Y~~~l~~~~~ldf~Dll~~~~~~L~~~~~i~~~~~~~~~~ilVDEf-QD~~~~Q~~ll~~L~~~~~ 234 (664)
T TIGR01074 156 RGEREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEY-QDTNTSQYELVKLLVGDRA 234 (664)
T ss_pred cChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhhChHHHHHHHHhCCEEEEeeh-ccCCHHHHHHHHHHhcCCC
Confidence 00 00000000 000000000 00000011247899999999 9999988888888877667
Q ss_pred EEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhccccccccccccccccccc
Q 002849 562 VVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDES 641 (874)
Q Consensus 562 ~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~ 641 (874)
++++|||++| .||++. |.+...|.++....+ ....+.|.+||||++.|+++.|.++-.+.-.. . .
T Consensus 235 ~l~~vGD~~Q---sIY~fr----ga~~~~~~~~~~~~~-----~~~~~~L~~NyRs~~~Il~~~n~l~~~~~~~~-~--~ 299 (664)
T TIGR01074 235 RFTVVGDDDQ---SIYSWR----GARPENLVLLKEDFP-----QLKVIKLEQNYRSTGRILKAANILIANNPHVF-E--K 299 (664)
T ss_pred eEEEEcCCcc---cccCCC----CCCHHHHHHHHHhCC-----CCeEEECCCCCCChHHHHHHHHHHHhcCcccc-c--c
Confidence 8999999999 999887 455666666644321 12356799999999999999998664322100 0 0
Q ss_pred ccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHHH
Q 002849 642 ISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKALE 721 (874)
Q Consensus 642 ~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~ 721 (874)
.. .... ..+.++.++.... ...|+..|+..|......++++.+||+||++.+.+...|...|.
T Consensus 300 --~~--~~~~-~~g~~v~~~~~~~------------~~~Ea~~ia~~I~~~~~~~~~~~~diAVL~R~~~~~~~l~~~l~ 362 (664)
T TIGR01074 300 --KL--FSEL-GYGEKIKVIECNN------------EEHEAERIAGEIIAHKLVNKTQYKDYAILYRGNHQSRLLEKALM 362 (664)
T ss_pred --cc--cccC-CCCCceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCCcccEEEEEecCchHHHHHHHHH
Confidence 00 0001 1122344433211 23688888887764433335889999999999999999999999
Q ss_pred hcCCCCeEECccccCC
Q 002849 722 SLYMPDIKVGSVEQFQ 737 (874)
Q Consensus 722 ~~~~~~v~V~TVd~fQ 737 (874)
+.++|-...+...-|+
T Consensus 363 ~~gIP~~~~~~~~~~~ 378 (664)
T TIGR01074 363 QNRIPYKLSGGTSFFS 378 (664)
T ss_pred HcCCCEEEeCCccccc
Confidence 9999866555543333
No 23
>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=99.84 E-value=5.2e-21 Score=241.45 Aligned_cols=167 Identities=20% Similarity=0.183 Sum_probs=105.4
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccCCc--EEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccce
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKKDT--VVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYV 608 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~--~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~ 608 (874)
.+|++|+|||+ |++.|.++..+..++..+. .+++||||+| .||+++ |.+...|.++..... ..
T Consensus 295 ~ry~~vLVDEF-QDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ---SIY~FR----GAD~~~~~~~~~~~~-------~~ 359 (1087)
T TIGR00609 295 EQYPIALIDEF-QDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ---AIYSFR----GADIFTYLQAKSKAD-------AR 359 (1087)
T ss_pred hCCCEEEEECC-cCCCHHHHHHHHHHHhCCCCCeEEEEECCcc---ccccCC----CCCHHHHHHHHHhcC-------cE
Confidence 48999999999 9999999888887764433 7999999999 999998 556566655543211 25
Q ss_pred eecccccCCchhhhcccccccccccccc-----ccccccccc--ccccCCCC-CCCCEEEEecCCCccccCCCCCccCHH
Q 002849 609 TKLVRNYRSHPQILHLPSKLFYEEELIA-----CKDESISCT--AYLNFLPN-KEFPVLFFGIQGCDEREGSNPSWFNRI 680 (874)
Q Consensus 609 ~~L~~nYRshp~I~~~~n~~fY~~~L~~-----~~~~~~~~~--~~~~~~~~-~~~pi~f~~v~g~~~~~~~s~S~~N~~ 680 (874)
+.|.+||||++.|+++.|.+|-...-.. ......... ......++ ...++.++....... +..-+...
T Consensus 360 ~~L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~ 435 (1087)
T TIGR00609 360 YTLGTNWRSTPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE----GVDDYRQT 435 (1087)
T ss_pred EECCCCCCCcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc----ccchHHHH
Confidence 6899999999999999999985422110 000000000 00000111 123555554432211 00011234
Q ss_pred HHHHHHHHHHHHHHc--------------CCCCCCeEEEEcccHHHHHHH
Q 002849 681 EVSKVVEIIQKLTST--------------GNLSEEDIGVITPYRQQVLKL 716 (874)
Q Consensus 681 Ea~~V~~~v~~L~~~--------------~~~~~~dIgIItPY~~Qv~~I 716 (874)
+|..++..|..++.. ..++++||+|+++.+.|...|
T Consensus 436 ~a~~~a~~I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i 485 (1087)
T TIGR00609 436 IAQKCAREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQI 485 (1087)
T ss_pred HHHHHHHHHHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHH
Confidence 566777777777643 136789999999988877766
No 24
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.83 E-value=5.6e-21 Score=241.47 Aligned_cols=177 Identities=21% Similarity=0.298 Sum_probs=112.8
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccC----CcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCcc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKK----DTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNEN 606 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~----~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~ 606 (874)
.+|+||+|||+ |++.|..+..|..+... ++.++||||||| .||+++ |.+...|....... ...
T Consensus 377 ~~~~~iLIDEf-QDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ---SIY~FR----gAD~~~f~~a~~~~-----~~~ 443 (1139)
T COG1074 377 EQYPHILIDEF-QDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ---SIYRFR----GADIFTFLEAASSE-----KAF 443 (1139)
T ss_pred hcCCeEEeecc-ccCCHHHHHHHHHHHhcCCCCCCceEEecCchH---Hhhhhc----CCChHHHHHHhhcc-----ccC
Confidence 57999999999 99999999988877655 347999999999 999999 77788887776531 123
Q ss_pred ceeecccccCCchhhhccccccccccc-ccc--ccccccccc--cc-ccCCCC-CCCCEE-EEecCCCccccCCC--CCc
Q 002849 607 YVTKLVRNYRSHPQILHLPSKLFYEEE-LIA--CKDESISCT--AY-LNFLPN-KEFPVL-FFGIQGCDEREGSN--PSW 676 (874)
Q Consensus 607 ~~~~L~~nYRshp~I~~~~n~~fY~~~-L~~--~~~~~~~~~--~~-~~~~~~-~~~pi~-f~~v~g~~~~~~~s--~S~ 676 (874)
..+.|.+||||.+++++..|.+|-.-. ... ......... .. .....+ ...|.. ++..........+. ...
T Consensus 444 ~~~~L~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~ 523 (1139)
T COG1074 444 ARITLETNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGEPLPALKFWEEEDDWTAPENEEDERE 523 (1139)
T ss_pred ceeecccccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCcccchhhhhhcCcccccCCCCchhHHH
Confidence 467899999999999999999996321 000 000000000 00 000011 111111 11111000011111 123
Q ss_pred cCHHHHHHHHHHHHHHHHcC-------CCCCCeEEEEcccHHHHHHHHHHH
Q 002849 677 FNRIEVSKVVEIIQKLTSTG-------NLSEEDIGVITPYRQQVLKLNKAL 720 (874)
Q Consensus 677 ~N~~Ea~~V~~~v~~L~~~~-------~~~~~dIgIItPY~~Qv~~Ir~~L 720 (874)
....+|..|...++.+...+ .+.++||+|+++-++++..|+++|
T Consensus 524 ~~~~~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL 574 (1139)
T COG1074 524 IADLEARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERAL 574 (1139)
T ss_pred HHHHHHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHH
Confidence 45677888888888887632 478999999999988887773333
No 25
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.83 E-value=1.5e-20 Score=233.95 Aligned_cols=156 Identities=21% Similarity=0.232 Sum_probs=104.7
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccc-----cC----CcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCC
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYC-----KK----DTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYC 601 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~-----~~----~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~ 601 (874)
.+|+||+|||+ |++.+.++..|..++ +. .+.+++|||++| .||+++ |.+..+|.++.....
T Consensus 327 ~~~~~ilVDEf-QDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ---SIY~FR----GA~~~~f~~~~~~~~-- 396 (910)
T PRK13909 327 SKISHILIDEF-QDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ---SIYRFR----GGKKELFDKVSKDFK-- 396 (910)
T ss_pred cCCCEEEEECc-cCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh---hhhhhc----CCChHHHHHHHHHhh--
Confidence 47999999999 898888877666542 11 357999999999 999987 667778888765321
Q ss_pred CCCccceeecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHH
Q 002849 602 HGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIE 681 (874)
Q Consensus 602 ~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~E 681 (874)
. ....|.+||||++.|+++.|.+|-... ..... .. ......+..+.++.... ....+
T Consensus 397 ---~-~~~~L~~NyRS~~~Iv~~~N~~f~~~~-~~~~~-~~------~~~~~~~g~v~i~~~~~-----------~~~~~ 453 (910)
T PRK13909 397 ---Q-KVDNLDTNYRSAPLIVDFVNEVFKKKY-KNYKT-QY------AEQHKSGGYVEVVEVAD-----------ESEEL 453 (910)
T ss_pred ---h-hhcccccCCCCChHHHHHHHHHHHHHH-Hhhhh-hh------cccccCCCcEEEEECCC-----------ccHHH
Confidence 1 246799999999999999999884321 00000 00 00011112233322110 12246
Q ss_pred HHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHHHHHHH
Q 002849 682 VSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLKLNKAL 720 (874)
Q Consensus 682 a~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L 720 (874)
+..|++.|..++..| ++++||+||++.+.|+..+.+.|
T Consensus 454 a~~ia~~I~~l~~~g-~~~~dIaILvR~~~~~~~l~~~L 491 (910)
T PRK13909 454 LEQLLQEIQFLLEKG-IDPDDIAILCWTNDDALEIKEFL 491 (910)
T ss_pred HHHHHHHHHHHHHcC-CCcCCEEEEEecCccHHHHHHHH
Confidence 888999999998875 88999999999877666554433
No 26
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.83 E-value=7.6e-20 Score=223.93 Aligned_cols=172 Identities=18% Similarity=0.133 Sum_probs=113.2
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..||++|++||..+++..+ .++|+|+|||||||++. .+..++.. .+.+|++||||+.||..|.+... +..
T Consensus 345 ~~Ls~eQr~Av~~il~s~~--v~vv~G~AGTGKTT~l~-~~~~~~e~-~G~~V~~~ApTGkAA~~L~e~tG------i~a 414 (988)
T PRK13889 345 LVLSGEQADALAHVTDGRD--LGVVVGYAGTGKSAMLG-VAREAWEA-AGYEVRGAALSGIAAENLEGGSG------IAS 414 (988)
T ss_pred CCCCHHHHHHHHHHhcCCC--eEEEEeCCCCCHHHHHH-HHHHHHHH-cCCeEEEecCcHHHHHHHhhccC------cch
Confidence 4699999999999997543 58999999999999865 45555553 47899999999999988865221 111
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe 548 (874)
..+.++. ..+ . .........++|||||||++....
T Consensus 415 ~TI~sll-------------~~~---~-----------------------------~~~~~l~~~~vlIVDEASMv~~~~ 449 (988)
T PRK13889 415 RTIASLE-------------HGW---G-----------------------------QGRDLLTSRDVLVIDEAGMVGTRQ 449 (988)
T ss_pred hhHHHHH-------------hhh---c-----------------------------ccccccccCcEEEEECcccCCHHH
Confidence 1111110 000 0 000012357899999999999887
Q ss_pred hHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccccc
Q 002849 549 SMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKL 628 (874)
Q Consensus 549 ~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~ 628 (874)
+...|......+.++|||||+.||||+-.+ ..|..|.... ..+.|++.+|-......-....
T Consensus 450 m~~LL~~a~~~garvVLVGD~~QLpsV~aG----------~~f~~L~~~~--------~~a~LteI~RQ~~~~~r~aa~~ 511 (988)
T PRK13889 450 LERVLSHAADAGAKVVLVGDPQQLQAIEAG----------AAFRSIHERH--------GGAEIGEVRRQREDWQRDATRD 511 (988)
T ss_pred HHHHHHhhhhCCCEEEEECCHHHcCCCCCC----------chHHHHHHhc--------CeEEeceeecCCCHHHHHHHHH
Confidence 766665444567899999999999998332 3355554321 2467999999865433333334
Q ss_pred ccccc
Q 002849 629 FYEEE 633 (874)
Q Consensus 629 fY~~~ 633 (874)
+..|+
T Consensus 512 i~~G~ 516 (988)
T PRK13889 512 LATGR 516 (988)
T ss_pred HHcCC
Confidence 44443
No 27
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.82 E-value=3.9e-19 Score=218.43 Aligned_cols=159 Identities=22% Similarity=0.288 Sum_probs=108.9
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..||++|++||..+.... ...+|+|+|||||||++..++ .++.. .+.+|+.+|||+.||..|.+...- ..
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 ARLSDEQKTAIEHVAGPA--RIAAVVGRAGAGKTTMMKAAR-EAWEA-AGYRVVGGALAGKAAEGLEKEAGI------QS 449 (1102)
T ss_pred CCCCHHHHHHHHHHhccC--CeEEEEeCCCCCHHHHHHHHH-HHHHH-cCCeEEEEcCcHHHHHHHHHhhCC------Ce
Confidence 479999999999986433 568999999999999887644 44443 578999999999999888754321 11
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe 548 (874)
..+.++. ..+ +. .......-++|||||||++....
T Consensus 450 ~TIas~l-------------l~~---~~-----------------------------~~~~l~~~~vlVIDEAsMv~~~~ 484 (1102)
T PRK13826 450 RTLSSWE-------------LRW---NQ-----------------------------GRDQLDNKTVFVLDEAGMVASRQ 484 (1102)
T ss_pred eeHHHHH-------------hhh---cc-----------------------------CccCCCCCcEEEEECcccCCHHH
Confidence 1111100 000 00 00011245799999999999988
Q ss_pred hHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchh
Q 002849 549 SMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQ 620 (874)
Q Consensus 549 ~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~ 620 (874)
+...|......+.++|||||+.||||+-.+ ..|..|.... ....|++.||-..+
T Consensus 485 m~~Ll~~~~~~garvVLVGD~~QL~~V~aG----------~~f~~l~~~i--------~~a~LteI~RQ~~~ 538 (1102)
T PRK13826 485 MALFVEAVTRAGAKLVLVGDPEQLQPIEAG----------AAFRAIADRI--------GYAELETIYRQREQ 538 (1102)
T ss_pred HHHHHHHHHhcCCEEEEECCHHHcCCCCCC----------cHHHHHHhhc--------CEEEeeeeeecCCh
Confidence 777666444457899999999999998443 2355554321 25789999998654
No 28
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.79 E-value=4.3e-19 Score=182.73 Aligned_cols=176 Identities=27% Similarity=0.233 Sum_probs=107.6
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVREN 469 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~ 469 (874)
+||++|++|+..++.+.+ ...+|+||||||||+++..++..+.. .+.+|+++||||.|+++|.+++.. ...
T Consensus 1 ~L~~~Q~~a~~~~l~~~~-~~~~l~G~aGtGKT~~l~~~~~~~~~--~g~~v~~~apT~~Aa~~L~~~~~~------~a~ 71 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGD-RVSVLQGPAGTGKTTLLKALAEALEA--AGKRVIGLAPTNKAAKELREKTGI------EAQ 71 (196)
T ss_dssp -S-HHHHHHHHHHHHCTC-SEEEEEESTTSTHHHHHHHHHHHHHH--TT--EEEEESSHHHHHHHHHHHTS-------EE
T ss_pred CCCHHHHHHHHHHHhcCC-eEEEEEECCCCCHHHHHHHHHHHHHh--CCCeEEEECCcHHHHHHHHHhhCc------chh
Confidence 489999999999987543 35899999999999998875544443 368999999999999999998632 011
Q ss_pred cEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhh
Q 002849 470 EIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPES 549 (874)
Q Consensus 470 ~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~ 549 (874)
.+.++.... .. .... ........++||||||||+....+
T Consensus 72 Ti~~~l~~~-------------~~---~~~~-------------------------~~~~~~~~~vliVDEasmv~~~~~ 110 (196)
T PF13604_consen 72 TIHSFLYRI-------------PN---GDDE-------------------------GRPELPKKDVLIVDEASMVDSRQL 110 (196)
T ss_dssp EHHHHTTEE-------------CC---EECC-------------------------SSCC-TSTSEEEESSGGG-BHHHH
T ss_pred hHHHHHhcC-------------Cc---cccc-------------------------ccccCCcccEEEEecccccCHHHH
Confidence 111100000 00 0000 000023578999999999998887
Q ss_pred HHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCc-hhhhcccccc
Q 002849 550 MVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSH-PQILHLPSKL 628 (874)
Q Consensus 550 li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRsh-p~I~~~~n~~ 628 (874)
...+......+.++|++||++||+|+-. .+.|.-+..... ..+.|++.+|.. +.+.... ..
T Consensus 111 ~~ll~~~~~~~~klilvGD~~QL~pV~~----------g~~~~~l~~~~~-------~~~~L~~i~Rq~~~~~~~~~-~~ 172 (196)
T PF13604_consen 111 ARLLRLAKKSGAKLILVGDPNQLPPVGA----------GSPFADLQESGG-------ITVELTEIRRQKDPELREAA-KA 172 (196)
T ss_dssp HHHHHHS-T-T-EEEEEE-TTSHHHCST----------TCHHHHHCGCST-------TEEEE---SCCCCTHHHHHH-HH
T ss_pred HHHHHHHHhcCCEEEEECCcchhcCCcC----------CcHHHHHHhcCC-------CeEEeChhhcCCChHHHHHH-HH
Confidence 7666655444789999999999999843 244666654322 167899999997 4454443 44
Q ss_pred ccccc
Q 002849 629 FYEEE 633 (874)
Q Consensus 629 fY~~~ 633 (874)
+.++.
T Consensus 173 ~~~g~ 177 (196)
T PF13604_consen 173 IREGD 177 (196)
T ss_dssp HCTT-
T ss_pred HHcCC
Confidence 54443
No 29
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.79 E-value=5.3e-19 Score=214.60 Aligned_cols=314 Identities=20% Similarity=0.211 Sum_probs=198.1
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
.||++|++||... .+|.+|.++||||||+|++++|++++... .+.+||++|+||+||.++.+|+.+..+....
T Consensus 2 ~Ln~~Q~~av~~~-----~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~ 76 (655)
T COG0210 2 KLNPEQREAVLHP-----DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAA 76 (655)
T ss_pred CCCHHHHHHHhcC-----CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccc
Confidence 6899999999886 26799999999999999999999999864 5678999999999999999999875331000
Q ss_pred c-ccEEEe----------cCC----CCCCcCCc-----hhhhhh---------------------ccccchhccC-----
Q 002849 468 E-NEIFRL----------NAP----SRPYEDVN-----ADHIRF---------------------CFFDEQIFKC----- 501 (874)
Q Consensus 468 ~-~~i~Rl----------~~~----~r~~~~v~-----~~~~~~---------------------~~~~~~~~~~----- 501 (874)
. ..+..+ ... ...+.-+. ..+... ....+.....
T Consensus 77 ~~~~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~ 156 (655)
T COG0210 77 EGLTVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASA 156 (655)
T ss_pred cCcEEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhh
Confidence 0 001000 000 00000000 000000 0000000000
Q ss_pred -------Cc-hh-----------hcccc------eEEEEechhhh-hhhhcccCCCCccEEEEEcCCCCChhhhHHHhhc
Q 002849 502 -------PP-LA-----------ALVCY------RIIISTYMSAS-LIYAEGVDRGHFSHIFLDEAGQASEPESMVPISS 555 (874)
Q Consensus 502 -------~~-~~-----------~L~~~------~VI~~T~~sa~-~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~ 555 (874)
.. .. .+... +.+.-++.-.. ..........+|++|+|||+ |++++.....+..
T Consensus 157 ~~~~~~~~~~~~~~~~~y~~Y~~~~~~~~~~df~dll~~~~~l~~~~~~v~~~~~~rf~~iLvDE~-QDtn~~Q~~ll~~ 235 (655)
T COG0210 157 LLLAAIKSEAEKKLAELYEEYQELLRLNNALDFDDLLLLALRLLEENPEVLEALQARFRYILVDEF-QDTNPLQYELLKL 235 (655)
T ss_pred hhhhccccHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHhhCCEEEEeCc-CCCCHHHHHHHHH
Confidence 00 00 00000 00000000000 00000011358999999999 9999988888888
Q ss_pred cccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhccccccccccccc
Q 002849 556 YCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELI 635 (874)
Q Consensus 556 l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~ 635 (874)
++.....+.+|||+.| .||++. |.....+.++....+. ..++.|.+||||.+.|+..+|.++-.+.-.
T Consensus 236 la~~~~~l~~VGD~dQ---sIY~fr----GA~~~ni~~f~~df~~-----~~~i~Le~NyRSt~~Il~~An~~i~~n~~r 303 (655)
T COG0210 236 LAGNAANLFVVGDDDQ---SIYGFR----GADPENILDFEKDFPA-----AKVIKLEQNYRSTPNILAAANKVIANNKKR 303 (655)
T ss_pred HhCCCCCEEEEcCCcc---ccceeC----CCChHHHHHHHhhCCC-----CcEEEecCCCCCcHHHHHHHHHHHhcCCcc
Confidence 8877677889999999 999987 6777888777665431 347899999999999999999877522111
Q ss_pred ccccccccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHHcCCCCCCeEEEEcccHHHHHH
Q 002849 636 ACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTSTGNLSEEDIGVITPYRQQVLK 715 (874)
Q Consensus 636 ~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~~~~~~dIgIItPY~~Qv~~ 715 (874)
... ..|......+..+.++. .+....||..|...+..+...+....++|+|+...+.|...
T Consensus 304 ~~k-------~l~~~~~~~~~~~~~~~------------~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s~~ 364 (655)
T COG0210 304 QAK-------TLRTEVEGSGEKVVLLL------------ANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQSRL 364 (655)
T ss_pred CCC-------cceeccCCCCCCceEEe------------CCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcchHH
Confidence 100 01111011122222222 12356899999999999998876889999999999999999
Q ss_pred HHHHHHhcCCCCeEE-CccccCCCce
Q 002849 716 LNKALESLYMPDIKV-GSVEQFQGQE 740 (874)
Q Consensus 716 Ir~~L~~~~~~~v~V-~TVd~fQG~E 740 (874)
+...|...+++...+ +.-.-|+=.|
T Consensus 365 ~e~~l~~~~ipy~i~~gg~~f~~r~e 390 (655)
T COG0210 365 IEEALRAAGIPYRIVIGGTSFFERKE 390 (655)
T ss_pred HHHHHHHcCCCeEEecCCcccccHHH
Confidence 999999989887666 4444444444
No 30
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.75 E-value=4.3e-18 Score=190.81 Aligned_cols=208 Identities=23% Similarity=0.280 Sum_probs=144.7
Q ss_pred CCCccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCcccee
Q 002849 530 RGHFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVT 609 (874)
Q Consensus 530 ~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~ 609 (874)
...+.|++|||| |+..+.++..+..+|.. .....+||-.| +|+.... ..+.++|...... +.+.-.+
T Consensus 526 ~~~~kh~vIDea-qdys~~q~~~~r~l~~~-as~tivgd~gq---~i~~~~~-----e~~~~e~~~~~fe---d~~~e~v 592 (747)
T COG3973 526 ERRLKHTVIDEA-QDYSRFQFTDNRTLAER-ASMTIVGDYGQ---VIYDEAQ-----ELSPMERMDVFFE---DPSFEYV 592 (747)
T ss_pred cccccceeechh-hhcchhhhHHHhhhhhh-ccceEeccCCc---eehhhhc-----ccCHHHHHHHHHh---CCCchhh
Confidence 346899999999 88889999999988865 46889999999 8875542 2455666644321 1223356
Q ss_pred ecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHH
Q 002849 610 KLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEII 689 (874)
Q Consensus 610 ~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v 689 (874)
.|..+|||+..|.+|+|.+.-++ ... -+...+...|.+...+ .|..=.+.+..++
T Consensus 593 ~l~~syrSt~eI~efan~~l~d~--~~~----------~p~~rsge~p~~i~~~-------------~ne~l~qr~~~ii 647 (747)
T COG3973 593 GLIASYRSTAEIDEFANSLLPDR--FRI----------HPLTRSGEKPAVIMSV-------------ANEELVQRNPDII 647 (747)
T ss_pred hhhhhhcChHHHHHHHHHhccCC--Ccc----------chhhcCCCCceeeecc-------------chHHHHHhhHHHH
Confidence 79999999999999999765310 000 0111223334333222 2444455666777
Q ss_pred HHHHHcCCCCCCeEEEEcccHHHHHHHHHHHHhcC------------CCCeEECccccCCCceeeEEEEEeccCCCcCCc
Q 002849 690 QKLTSTGNLSEEDIGVITPYRQQVLKLNKALESLY------------MPDIKVGSVEQFQGQERQVIIVSTVRSTIKHND 757 (874)
Q Consensus 690 ~~L~~~~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~------------~~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~ 757 (874)
..|.+.| .+.|+|||+...|+..+...|++.. ..+..|--|+-.+|.|||.||+.... ...+.+
T Consensus 648 ~~mkk~~---~etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~e~te 723 (747)
T COG3973 648 PRMKKRG---SETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IVEETE 723 (747)
T ss_pred HHHHhcC---CCceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hhcccc
Confidence 7776665 6899999999999999999997632 23566888899999999999985432 211111
Q ss_pred cccccccccCCCCCceEeccccccccEEEEEc
Q 002849 758 FDRKHCLGFLSNPRRFNVAVTRAISLLIIIGN 789 (874)
Q Consensus 758 ~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn 789 (874)
.+.|.||||+|||-+.|+|+|-
T Consensus 724 ----------~~~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 724 ----------QDLRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred ----------cchhhHHHHHHHHHHHHHHhhc
Confidence 2468899999999999999874
No 31
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.72 E-value=2.4e-18 Score=202.85 Aligned_cols=458 Identities=27% Similarity=0.370 Sum_probs=319.4
Q ss_pred CcEEEEEEechhhHHHHHHHhHHHhhcccccccCCCCCC--ccccccCCCCc-CCCCCCHHHHHHHHHHhc--cCCCCCE
Q 002849 337 NLYNVQFTYNRVNMRRLYQATDAAQELDTEFLFPSESSG--IRLIESNTLVP-ISCNLNEEQMCSIEKILG--LKGAPPY 411 (874)
Q Consensus 337 ~~~~v~f~~~r~~~~r~~~Al~~~~~~~~~~lfP~~~~~--~~~~~~~~~~~-~~~~LN~~Q~~AV~~il~--~~~~~~~ 411 (874)
..++..|..++..+..++.|++...... ..||-.... ........+.. ....+|..|+.++..+.- ....+|.
T Consensus 66 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~e~~P~ 143 (775)
T KOG1804|consen 66 LEVELQFQLNRAPLCESSFAVERISDST--YKFPFSSLLPSIEWYPEVQWAEKCEPRLNALQKGALLAITVPLLRELPPS 143 (775)
T ss_pred chhhHHHhhhhhhhccccchhhhccccc--ceeeeeccCCCCCCccccccchhcchhhhhhhcccccceeccccccCCcc
Confidence 3455666677777777888887654322 122221110 01111112221 235788888888776643 2334689
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcc-cccccccccEEEecCCCCCCcCCchhhhh
Q 002849 412 LIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGE-KAVEVRENEIFRLNAPSRPYEDVNADHIR 490 (874)
Q Consensus 412 lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~-~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~ 490 (874)
++.|+ |+|+|.+++..+....... ..+++++.++++|++...+.+... .....+...-+|+....++.....+-+.+
T Consensus 144 L~~G~-~~~~~~~~~~~~~~~~~~~-~~k~~~~l~~~~~~~~~ir~y~~~~v~~~~~~~~~~r~~~~~r~l~~~~pvv~~ 221 (775)
T KOG1804|consen 144 LLIGP-GTGETLELAQAVKSLLQQE-EAKILILLHSESAADIYIREYLHPYVEEGLPEATPLRVYSRKRPLAQVNPVVLQ 221 (775)
T ss_pred cccCC-ccccceeecchhhcccccc-cccceEeechhHHHHHHHHHhhcccccccccccccccceeecccccccCCceee
Confidence 99999 9999999999888877754 789999999999999888777642 11122323334888877887778888888
Q ss_pred hccccc--hhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecC
Q 002849 491 FCFFDE--QIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGD 568 (874)
Q Consensus 491 ~~~~~~--~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGD 568 (874)
+|.+-. ..+..+....+.+++|++.|...+......+...+.|+|++.|||.|+++++.+.||. +...+++++|+||
T Consensus 222 ~~~if~~~~~~~~pq~~~~~~Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~-~~~~~~~~~L~~~ 300 (775)
T KOG1804|consen 222 YCFIFDSHITFRRPQVEDLFKHRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLA-LPSSGTRIVLAGP 300 (775)
T ss_pred eeeeccchhhhccchhhhhcccceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccc-cCCCCceeeeccc
Confidence 875432 3445566677777999999988777666667778899999999999999999999998 5667789999999
Q ss_pred CCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccccccccccccccccccccccccc
Q 002849 569 PMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYL 648 (874)
Q Consensus 569 p~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~ 648 (874)
+.||-|.+++.......+. .+..++.. +|... ...-+-.+.|||++-.|+.+.+..||........+....
T Consensus 301 ~~ql~~~l~s~~~~~~~~~-~~~~~~~~--~y~~~-~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~----- 371 (775)
T KOG1804|consen 301 HLQLTPFLNSVAREEQALH-LLLCRLPE--PYIVF-GPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQ----- 371 (775)
T ss_pred ccccccchhhhhhhhhhhh-hccccccc--ccccc-cCCCcCCccchHHHHHHHHhcchHHHhhccccccccccc-----
Confidence 9999999888765544443 33333322 22211 223456789999999999999999987643322211110
Q ss_pred cCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHHHcC-----CCCCCeEEEEcccHHHHHHHHHHHHhc
Q 002849 649 NFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLTSTG-----NLSEEDIGVITPYRQQVLKLNKALESL 723 (874)
Q Consensus 649 ~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~~~~-----~~~~~dIgIItPY~~Qv~~Ir~~L~~~ 723 (874)
....-..|..|....+.+.+..++..|+|..|+..++.-++.+.+.. ...-..+|++++|..|+..++..|.+
T Consensus 372 -~~~rl~~p~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~D- 449 (775)
T KOG1804|consen 372 -PAHRLHYPLTFSTARGEDVRAKSSTAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVD- 449 (775)
T ss_pred -ccccccccccccccccccccccchhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeec-
Confidence 01112468889999999999999999999999999999888887432 22356789999999999999999843
Q ss_pred CCCCeEECccccCCCceee---EEEEEeccCCCcCC-ccccccccccCCCCCceEeccccccccEEEEEccccccC----
Q 002849 724 YMPDIKVGSVEQFQGQERQ---VIIVSTVRSTIKHN-DFDRKHCLGFLSNPRRFNVAVTRAISLLIIIGNPHIVSK---- 795 (874)
Q Consensus 724 ~~~~v~V~TVd~fQG~E~d---vVIiS~VRs~~~~~-~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn~~~L~~---- 795 (874)
..+..+...--.+|..+. .|++|+........ .......+|+ +...||.|+|||..++-++|+...++.
T Consensus 450 -eAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl--~rsLler~l~r~~~~~~~~g~~~~l~~t~l~ 526 (775)
T KOG1804|consen 450 -EAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGL--DRSLLERALTRAQSLVAVVGDYNALCSTGLC 526 (775)
T ss_pred -ccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcc--cHHHHHHHHHHHhhccccCCCcccccchhhH
Confidence 445566666666776665 56666543321100 0111122332 367899999999999999999999987
Q ss_pred ChHHHHHHHHHHhCCCcc
Q 002849 796 DPYWHQLLWYCSDNNSYQ 813 (874)
Q Consensus 796 ~~~w~~ll~~~~~~~~~~ 813 (874)
..+|.+++..|..|..|.
T Consensus 527 rnyrshp~il~l~~~l~y 544 (775)
T KOG1804|consen 527 RNYRSHPIILCLENRLYY 544 (775)
T ss_pred HHHhhhhHhhhccccccc
Confidence 789999999999888765
No 32
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.70 E-value=2.5e-16 Score=198.74 Aligned_cols=173 Identities=15% Similarity=0.142 Sum_probs=116.2
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH--HhcCCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY--ATREDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll--~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..||+.|++||..++...+ .+++|+|+|||||||++...+..+. ....+.+|+.+|||++||..|.+. . +
T Consensus 834 ~~Lt~~Qr~Av~~iLts~d-r~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e~--G-----i 905 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSD-RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSA--G-----V 905 (1623)
T ss_pred cccCHHHHHHHHHHHhCCC-ceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHHh--C-----c
Confidence 4799999999999997544 4699999999999999765443322 123467899999999999999642 1 1
Q ss_pred ccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCCh
Q 002849 467 RENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASE 546 (874)
Q Consensus 467 ~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~e 546 (874)
....+.++-.... .+. .....+....+++||||||++..
T Consensus 906 ~A~TIasfL~~~~------------------~~~-----------------------~~~~~~~~~~~llIVDEASMV~~ 944 (1623)
T PRK14712 906 DAQTLASFLHDTQ------------------LQQ-----------------------RSGETPDFSNTLFLLDESSMVGN 944 (1623)
T ss_pred hHhhHHHHhcccc------------------chh-----------------------hcccCCCCCCcEEEEEccccccH
Confidence 2222222211000 000 00001112468999999999999
Q ss_pred hhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccc
Q 002849 547 PESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPS 626 (874)
Q Consensus 547 pe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n 626 (874)
..+...+..+...+.++||+||++||+|+-. .+.|+.+..... ..+..|++.+|-.+.+.....
T Consensus 945 ~~m~~ll~~~~~~garvVLVGD~~QL~sV~a----------G~~F~~lq~~~~------~~ta~L~eI~RQ~~elr~AV~ 1008 (1623)
T PRK14712 945 TDMARAYALIAAGGGRAVASGDTDQLQAIAP----------GQPFRLQQTRSA------ADVVIMKEIVRQTPELREAVY 1008 (1623)
T ss_pred HHHHHHHHhhhhCCCEEEEEcchhhcCCCCC----------CHHHHHHHHcCC------CCeEEeCeeecCCHHHHHHHH
Confidence 8876666644444679999999999999833 245777765321 136789999999887666654
No 33
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.68 E-value=4.3e-16 Score=199.25 Aligned_cols=178 Identities=15% Similarity=0.146 Sum_probs=116.5
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHH--hcCCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYA--TREDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~--~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..||+.|++||..++...+ ..++|+|+|||||||++...+..+.. ...+.+|+.+|||+.||..|.+ . + +
T Consensus 966 ~~Lt~~Q~~Av~~il~s~d-r~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e-~----G--i 1037 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTD-RFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS-A----G--V 1037 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCC-cEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh-c----C--c
Confidence 4689999999999997543 47899999999999998765544322 2245689999999999998764 1 1 1
Q ss_pred ccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCCh
Q 002849 467 RENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASE 546 (874)
Q Consensus 467 ~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~e 546 (874)
....+.++-.... .+.. ....+....+++||||||++..
T Consensus 1038 ~A~TI~s~L~~~~------------------~~~~-----------------------~~~~~~~~~~llIVDEaSMv~~ 1076 (1747)
T PRK13709 1038 DAQTLASFLHDTQ------------------LQQR-----------------------SGETPDFSNTLFLLDESSMVGN 1076 (1747)
T ss_pred chhhHHHHhcccc------------------cccc-----------------------cccCCCCCCcEEEEEccccccH
Confidence 2222222211000 0000 0001112458999999999999
Q ss_pred hhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCchhhhcccc
Q 002849 547 PESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSHPQILHLPS 626 (874)
Q Consensus 547 pe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRshp~I~~~~n 626 (874)
..+...+......+.++|||||+.||||+-. + ..|..|..... ..++.|.+.+|-.+.+....
T Consensus 1077 ~~m~~Ll~~~~~~garvVLVGD~~QL~sV~a---------G-~~f~~l~~~~~------i~~~~L~eI~RQ~~~lr~Av- 1139 (1747)
T PRK13709 1077 TDMARAYALIAAGGGRAVSSGDTDQLQAIAP---------G-QPFRLMQTRSA------ADVAIMKEIVRQTPELREAV- 1139 (1747)
T ss_pred HHHHHHHHhhhcCCCEEEEecchHhcCCCCC---------C-hHHHHHHHhCC------CCeEEeCeEEcCcHHHHHHH-
Confidence 8877777644434689999999999999832 2 45666665322 23678999999887443333
Q ss_pred cccccc
Q 002849 627 KLFYEE 632 (874)
Q Consensus 627 ~~fY~~ 632 (874)
..+..+
T Consensus 1140 ~~~~~g 1145 (1747)
T PRK13709 1140 YSLINR 1145 (1747)
T ss_pred HHHHcc
Confidence 334443
No 34
>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=99.64 E-value=6.4e-16 Score=163.33 Aligned_cols=49 Identities=22% Similarity=0.252 Sum_probs=38.5
Q ss_pred EECccccCCCceeeEEEEEeccCCCcCCccccccccccC-CCCCceEeccccccccEEEE
Q 002849 729 KVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFL-SNPRRFNVAVTRAISLLIII 787 (874)
Q Consensus 729 ~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl-~d~rrlNVAiTRAK~~LiIv 787 (874)
.+.|++++||+|+|.|++...... ..... .+++++|||+||||..|+|+
T Consensus 184 ~~~T~~e~qG~tf~~V~l~~~~~~----------~~~~~~~~~~~~~VALTR~~~~l~i~ 233 (234)
T PF01443_consen 184 RVFTVHESQGLTFDNVTLVLLSDT----------DNELYSESRNHLYVALTRHTKSLVIL 233 (234)
T ss_pred ceechHHcceEEeCCEEEEECCCc----------ccccccCCcccEEEEccccccEEEEE
Confidence 699999999999999988554332 11222 35899999999999999986
No 35
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=99.64 E-value=1.8e-15 Score=193.50 Aligned_cols=174 Identities=19% Similarity=0.183 Sum_probs=104.7
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccC-----------CcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCC
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKK-----------DTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEP 599 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~-----------~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~ 599 (874)
..|+||+|||+ |++.+.++..|..++.. ...+++|||++| .||+++ |.+..+|.++.....
T Consensus 390 ~r~~~iLVDEF-QDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ---SIY~FR----GAd~~~f~~~~~~~~ 461 (1141)
T TIGR02784 390 RGIDHILVDEA-QDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ---SIYSFQ----GADPDRFAEERREFN 461 (1141)
T ss_pred cCCCEEEEECC-cCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc---cCcccc----CCCHHHHHHHHHHHH
Confidence 48999999999 99999888877776531 357999999999 999998 667788877643211
Q ss_pred --CC-CCCccceeecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCCCccccCC----
Q 002849 600 --YC-HGNENYVTKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGS---- 672 (874)
Q Consensus 600 --~~-~~~~~~~~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~---- 672 (874)
+. .+.+.....|.+||||++.|+++.|.+|-..........................++.++.....+..+..
T Consensus 462 ~~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~~~~~~~~~~~~~~~~g~v~l~~~~~~~~~~~~~~~~ 541 (1141)
T TIGR02784 462 RKVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDLVVHEAIRSDLPGEVELWDLISPEEGEDPEDWT 541 (1141)
T ss_pred HhhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCCcchhhcccccccCCCCceEEEeccCccccccccccc
Confidence 00 00122356899999999999999999996532111000000000000000111122333322111100000
Q ss_pred ------CCCccCHHHHHHHHHHHHHHHHcCC---------CCCCeEEEEcccHHH
Q 002849 673 ------NPSWFNRIEVSKVVEIIQKLTSTGN---------LSEEDIGVITPYRQQ 712 (874)
Q Consensus 673 ------s~S~~N~~Ea~~V~~~v~~L~~~~~---------~~~~dIgIItPY~~Q 712 (874)
........||+.|++.|+.++..|. +.++||+|+++.+.+
T Consensus 542 ~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~ 596 (1141)
T TIGR02784 542 APVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDA 596 (1141)
T ss_pred cccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCch
Confidence 0000112489999999999987652 568999999977665
No 36
>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=99.63 E-value=3.3e-16 Score=172.29 Aligned_cols=66 Identities=35% Similarity=0.408 Sum_probs=57.4
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
||++|+++|.. .. ++++|.|+||||||+|+++++++++... ++.+||++||||+||++|.+|+...
T Consensus 1 l~~eQ~~~i~~-~~----~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 1 LTDEQRRIIRS-TE----GPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp S-HHHHHHHHS--S----SEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-CC----CCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHh
Confidence 79999999998 33 6799999999999999999999998865 6789999999999999999999863
No 37
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.61 E-value=3.8e-15 Score=163.59 Aligned_cols=378 Identities=16% Similarity=0.117 Sum_probs=207.0
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccc---
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVE--- 465 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~--- 465 (874)
..++..|++|+-.+.. ++-.|.|-+|||||.+++..++.+...+|+.+|+++.+|...+..+..++.+.--..
T Consensus 161 anfD~~Q~kaa~~~~~----G~qrIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~~~e~ 236 (660)
T COG3972 161 ANFDTDQTKAAFQSGF----GKQRIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFMRVEK 236 (660)
T ss_pred hcccchhheeeeecCC----chhhhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHHHhhc
Confidence 3578888888755443 445899999999999999999999998999999999999999999988876531000
Q ss_pred --cccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCC
Q 002849 466 --VRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQ 543 (874)
Q Consensus 466 --~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ 543 (874)
-.....++.+...-..+.........|...+..|....-. . -..|. .+....-....||||+|||+ |
T Consensus 237 ~pdW~~~l~~h~wgG~t~~g~y~~~~~~~~~~~~~fsg~g~~----F---~~aC~---eli~~~~~~~~yD~ilIDE~-Q 305 (660)
T COG3972 237 QPDWGTKLFCHNWGGLTKEGFYGMYRYICHYYEIPFSGFGNG----F---DAACK---ELIADINNKKAYDYILIDES-Q 305 (660)
T ss_pred CCCccceEEEeccCCCCCCcchHHHHHHhcccccccCCCCcc----h---HHHHH---HHHHhhhccccccEEEeccc-c
Confidence 0112234444333333333333333333222222211000 0 00010 11111112457999999999 8
Q ss_pred CChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCC--CCCccceeecccccCCchhh
Q 002849 544 ASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYC--HGNENYVTKLVRNYRSHPQI 621 (874)
Q Consensus 544 ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~--~~~~~~~~~L~~nYRshp~I 621 (874)
+...+.+-..-.+....+++|.++|.-| .+.+..-.. ..++|..-....+.- ...+..-+.|.+.||..|..
T Consensus 306 DFP~~F~~Lcf~~tkd~KrlvyAyDelQ---nls~~~m~p---pe~iFg~d~dg~P~V~l~radr~DiVL~kCYRnsp~n 379 (660)
T COG3972 306 DFPQSFIDLCFMVTKDKKRLVYAYDELQ---NLSNVKMRP---PEEIFGPDSDGEPRVNLARADRNDIVLKKCYRNSPKN 379 (660)
T ss_pred cCCHHHHHHHHHHhcCcceEEEehHhhh---cccccCCCC---HHHhcCcCCCCCcccccccCccccchHHHHhcCCchh
Confidence 7755544443344556679999999999 322111000 011111110000000 00111235699999998887
Q ss_pred hcccccc---cccccccccccccc-c----cc--------ccccCCCCCCCCEEEEecCCCccccCC-CCCccCHHHHHH
Q 002849 622 LHLPSKL---FYEEELIACKDESI-S----CT--------AYLNFLPNKEFPVLFFGIQGCDEREGS-NPSWFNRIEVSK 684 (874)
Q Consensus 622 ~~~~n~~---fY~~~L~~~~~~~~-~----~~--------~~~~~~~~~~~pi~f~~v~g~~~~~~~-s~S~~N~~Ea~~ 684 (874)
+-++-.+ .|.+-.+-..++.. . .. ..............|+...+....... -++---+.|+.+
T Consensus 380 LvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~p~~i~~fi~fd~~~deivw 459 (660)
T COG3972 380 LVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHKPTAIHLFIGFDNGPDEIVW 459 (660)
T ss_pred hhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCChhhhheeeccCCcchhhHH
Confidence 6655443 23332211111100 0 00 000000000001112211111100000 000012468999
Q ss_pred HHHHHHHHHHcCCCCCCeEEEEccc----HHHHHHHHHHHHhcCC------------------CCeEECccccCCCceee
Q 002849 685 VVEIIQKLTSTGNLSEEDIGVITPY----RQQVLKLNKALESLYM------------------PDIKVGSVEQFQGQERQ 742 (874)
Q Consensus 685 V~~~v~~L~~~~~~~~~dIgIItPY----~~Qv~~Ir~~L~~~~~------------------~~v~V~TVd~fQG~E~d 742 (874)
|+..|.++.+. .+.++||.||.+- |.-...+.+.|.+.++ ..|.+.+|...+|.|+.
T Consensus 460 i~~qI~~~~ed-eLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dgkvtis~IyrAKGnEap 538 (660)
T COG3972 460 IIIQIKEFRED-ELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDGKVTISRIYRAKGNEAP 538 (660)
T ss_pred HHHHHHHhccc-ccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCceEEeeeehhccCCCCc
Confidence 99888885555 4889999999863 3344555666655332 14788999999999999
Q ss_pred EEEEEeccCCCcCCccccccccccCCCCCceEeccccccccEEEEEccccccCChHHHHHHH
Q 002849 743 VIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLIIIGNPHIVSKDPYWHQLLW 804 (874)
Q Consensus 743 vVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn~~~L~~~~~w~~ll~ 804 (874)
+|+.-.+..- ..|....++-+++|+||.|.-+-|+|- .|.-++++.
T Consensus 539 fV~aL~a~~l----------s~~la~~RN~LfTamTRSkawvrv~gl------gpqmqrLi~ 584 (660)
T COG3972 539 FVYALGAAYL----------STGLADWRNILFTAMTRSKAWVRVVGL------GPQMQRLIT 584 (660)
T ss_pred EEEEehhhhh----------CccchhHHhHHHHHHhhhhhhhhhhcc------ChHHHHHHH
Confidence 9998665443 234445556899999999999999993 444455554
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=99.59 E-value=7.8e-15 Score=192.78 Aligned_cols=169 Identities=20% Similarity=0.197 Sum_probs=111.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHH---HHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEA---ILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~---I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
..||++|++|+..++...+ ...+|+|+|||||||++... +.+++.. .+.+|+.+|||+.||..|.+. +.
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~-~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~-~g~~v~glApT~~Aa~~L~~~-----g~- 1089 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKD-RFVAVQGLAGVGKTTMLESRYKPVLQAFES-EQLQVIGLAPTHEAVGELKSA-----GV- 1089 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCC-cEEEEEeCCCCCHHHhHHHHHHHHHHHHHh-cCCeEEEEeChHHHHHHHHhc-----CC-
Confidence 4699999999999997644 36899999999999999543 4444442 467899999999999999641 11
Q ss_pred cccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCC
Q 002849 466 VRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 466 ~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~ 545 (874)
....+.++-... ..+. ........+++||||||++.
T Consensus 1090 -~a~Ti~s~l~~~------------------~~~~-------------------------~~~~~~~~~v~ivDEasMv~ 1125 (1960)
T TIGR02760 1090 -QAQTLDSFLTDI------------------SLYR-------------------------NSGGDFRNTLFILDESSMVS 1125 (1960)
T ss_pred -chHhHHHHhcCc------------------cccc-------------------------ccCCCCcccEEEEEcccccc
Confidence 111121111000 0000 00001256899999999999
Q ss_pred hhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCCc--hhhhc
Q 002849 546 EPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRSH--PQILH 623 (874)
Q Consensus 546 epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRsh--p~I~~ 623 (874)
...+...+......+.++||+||++||+|+- .+. .|+-+..... ...+.|.+.+|-. +.+..
T Consensus 1126 ~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~---------aG~-~f~~~~~~~~------~~~~~L~~I~RQ~~~~~l~~ 1189 (1960)
T TIGR02760 1126 NFQLTHATELVQKSGSRAVSLGDIAQLQSLA---------AGK-PFELAITFDI------IDTAIMKEIVRQNNSAELKA 1189 (1960)
T ss_pred HHHHHHHHHhccCCCCEEEEeCChhhcCCCC---------CCc-CHHHHHhcCC------CCeEEeeeEecCCCCHHHHH
Confidence 9887777764445568999999999999972 222 3444443321 1356799999983 54444
Q ss_pred cc
Q 002849 624 LP 625 (874)
Q Consensus 624 ~~ 625 (874)
..
T Consensus 1190 a~ 1191 (1960)
T TIGR02760 1190 AH 1191 (1960)
T ss_pred HH
Confidence 43
No 39
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.58 E-value=8.2e-15 Score=185.96 Aligned_cols=167 Identities=19% Similarity=0.255 Sum_probs=103.6
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhcccc--CCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccce
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCK--KDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYV 608 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~ 608 (874)
.+|++|+|||+ |++.|..+..+..++. +...+++||||+| .||++.+ .+...+-..... ....
T Consensus 376 ~~y~~ilIDEf-QDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ---sIY~FRG----Ad~~~~l~~~~~-------~~~~ 440 (1181)
T PRK10876 376 TRYPVAMIDEF-QDTDPQQYRIFRRIYRHQPETALLLIGDPKQ---AIYAFRG----ADIFTYMKARSE-------VSAH 440 (1181)
T ss_pred hCCCEEEEECC-ccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc---ccccCCC----CCchHHHHHHhc-------cCCe
Confidence 48999999999 9999998888887764 2457999999999 9999883 343333222211 0124
Q ss_pred eecccccCCchhhhccccccccccccc------ccccccc-cccccccC-CCCC-CCCEEEEecCCCccccCCCCCccCH
Q 002849 609 TKLVRNYRSHPQILHLPSKLFYEEELI------ACKDESI-SCTAYLNF-LPNK-EFPVLFFGIQGCDEREGSNPSWFNR 679 (874)
Q Consensus 609 ~~L~~nYRshp~I~~~~n~~fY~~~L~------~~~~~~~-~~~~~~~~-~~~~-~~pi~f~~v~g~~~~~~~s~S~~N~ 679 (874)
..|.+||||++.|+++.|.+|....-. +...... ........ ..+. ..++.++...+.. .+......
T Consensus 441 ~~L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~~~~ 516 (1181)
T PRK10876 441 YTLDTNWRSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLMEGEG----VGVGDYQQ 516 (1181)
T ss_pred eECCCCcCcCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeecCCCc----cCcchHHH
Confidence 679999999999999999998553210 0000000 00000000 0011 1233333322221 11122345
Q ss_pred HHHHHHHHHHHHHHHcC--------------CCCCCeEEEEcccHHHHHHH
Q 002849 680 IEVSKVVEIIQKLTSTG--------------NLSEEDIGVITPYRQQVLKL 716 (874)
Q Consensus 680 ~Ea~~V~~~v~~L~~~~--------------~~~~~dIgIItPY~~Qv~~I 716 (874)
.||..++..|..++..| .++++||+|+++.+.|...|
T Consensus 517 ~eA~~iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i 567 (1181)
T PRK10876 517 TMAQQCAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALI 567 (1181)
T ss_pred HHHHHHHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHH
Confidence 68889999888887542 25789999999988877766
No 40
>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=99.42 E-value=7.2e-13 Score=148.99 Aligned_cols=169 Identities=21% Similarity=0.218 Sum_probs=104.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhhh
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADHI 489 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~ 489 (874)
.++|.|.||||||.++..++..+.....+.++++++++..-.+.+.+.+...... . .....+.
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~-----------~------~~~~~~~ 65 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNP-----------K------LKKSDFR 65 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhccc-----------c------hhhhhhh
Confidence 4799999999999999999998843446788999999999999899888752100 0 0000000
Q ss_pred hhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCCh----------hhhHHHhhccccC
Q 002849 490 RFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASE----------PESMVPISSYCKK 559 (874)
Q Consensus 490 ~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~e----------pe~li~L~~l~~~ 559 (874)
.... .+.... ........||+||||||+...+ +..+.-+. ..
T Consensus 66 ~~~~------------~i~~~~-------------~~~~~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~---~~ 117 (352)
T PF09848_consen 66 KPTS------------FINNYS-------------ESDKEKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEII---KR 117 (352)
T ss_pred hhHH------------HHhhcc-------------cccccCCcCCEEEEehhHhhhhccccccccccHHHHHHHH---hc
Confidence 0000 000000 0122345899999999965555 13333333 23
Q ss_pred CcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCC--chhhhccccccccccc
Q 002849 560 DTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRS--HPQILHLPSKLFYEEE 633 (874)
Q Consensus 560 ~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRs--hp~I~~~~n~~fY~~~ 633 (874)
...+|++-|+.| +++... -.....++.+....... ....+.|..|||| .+++.+|.+.+++...
T Consensus 118 ~kv~v~f~D~~Q---~i~~~e----~~~~~~l~~~~~~~~~~---~~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 118 AKVVVFFYDENQ---SIRPSE----IGTLENLEEIAENLGIE---VRHFFELKTQFRCHGSKEYIDWIDNLLDNKN 183 (352)
T ss_pred CCEEEEEEcccc---Eeeccc----CCCHHHHHHHHHhcCCc---cccCcCcCcceecCCCHHHHHHHHHHHhccc
Confidence 346888999999 776543 12334466654432211 0011379999999 8999999998886543
No 41
>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=99.27 E-value=7.3e-11 Score=155.87 Aligned_cols=145 Identities=16% Similarity=0.125 Sum_probs=98.6
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..||++|++||..++...+ ...+|+|+||||||+++..++ .+++. .+.+|.++|||+.||..|.+.+.. ..
T Consensus 428 ~~Ls~~Q~~Av~~il~s~~-~v~ii~G~aGTGKTt~l~~l~-~~~~~-~G~~V~~lAPTgrAA~~L~e~~g~------~A 498 (1960)
T TIGR02760 428 FALSPSNKDAVSTLFTSTK-RFIIINGFGGTGSTEIAQLLL-HLASE-QGYEIQIITAGSLSAQELRQKIPR------LA 498 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCC-CeEEEEECCCCCHHHHHHHHH-HHHHh-cCCeEEEEeCCHHHHHHHHHHhcc------hh
Confidence 3799999999999997643 468999999999999877655 45543 578999999999999999887532 11
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe 548 (874)
..+.++.... +... ...|.. .+.....+...-++||||||+++...+
T Consensus 499 ~Ti~~~l~~l--------------------~~~~----------~~~tv~---~fl~~~~~l~~~~vlIVDEAsMl~~~~ 545 (1960)
T TIGR02760 499 STFITWVKNL--------------------FNDD----------QDHTVQ---GLLDKSSPFSNKDIFVVDEANKLSNNE 545 (1960)
T ss_pred hhHHHHHHhh--------------------cccc----------cchhHH---HhhcccCCCCCCCEEEEECCCCCCHHH
Confidence 1111111000 0000 000000 000011111357899999999999998
Q ss_pred hHHHhhccccCCcEEEEecCCCcccce
Q 002849 549 SMVPISSYCKKDTVVVLAGDPMQLGPV 575 (874)
Q Consensus 549 ~li~L~~l~~~~~~vVLvGDp~QL~Pv 575 (874)
+...|......+.++||+||+.||+++
T Consensus 546 ~~~Ll~~a~~~garvVlvGD~~QL~sV 572 (1960)
T TIGR02760 546 LLKLIDKAEQHNSKLILLNDSAQRQGM 572 (1960)
T ss_pred HHHHHHHHhhcCCEEEEEcChhhcCcc
Confidence 888777555567899999999999997
No 42
>PF13245 AAA_19: Part of AAA domain
Probab=99.26 E-value=1.2e-11 Score=107.20 Aligned_cols=60 Identities=42% Similarity=0.686 Sum_probs=50.4
Q ss_pred HHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHh--cCCCeEEEecCCHHHHHHHHHHH
Q 002849 397 CSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYAT--REDARLLVCAPSNSAADHLLEKI 458 (874)
Q Consensus 397 ~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~--~~~~rILv~ApSNsAaD~l~~rL 458 (874)
+||..++.. .+.++|.||||||||+|+++++..++.. .++.+||++||||.|+|+|.+|+
T Consensus 1 ~av~~al~~--~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 1 EAVRRALAG--SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CHHHHHHhh--CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 366666662 2557889999999999999999999853 34789999999999999999999
No 43
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=99.26 E-value=1.1e-11 Score=139.81 Aligned_cols=63 Identities=30% Similarity=0.469 Sum_probs=49.4
Q ss_pred CCCHHHHHHHHHHhc---cCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHH
Q 002849 390 NLNEEQMCSIEKILG---LKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHL 454 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~---~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l 454 (874)
.||++|++++..+++ ......+.|.||+|||||+++-.++..+-. .+..+++||+|..||-++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~--~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS--RGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc--ccceEEEecchHHHHHhc
Confidence 489999999888743 222245789999999999988765554432 467899999999999888
No 44
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.21 E-value=2.9e-11 Score=148.04 Aligned_cols=136 Identities=24% Similarity=0.195 Sum_probs=91.8
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..++++|.+|+..++.. +..+|.|+||||||+++...+..+.. .+..+++.|++..|+..+.+.-.. ..
T Consensus 318 ~~~~~~q~~a~~vl~~d---e~smlt~~~~~~~~~~~~~~~~l~~~--~~~~~l~aa~tG~a~~~l~e~tg~------~a 386 (696)
T COG0507 318 LRLSLEQKEALDVLVVD---EVSMLTGGPGTGKTTAIKAIARLIKE--GDGDQLLAAPTGKAAKRLNESTGL------EA 386 (696)
T ss_pred CCcCcccHHHHHHHhcC---CeeEEeccCCcchHHHHHHHHHHHHh--cCCcEEeechhhHHHHHHHHhhCc------ch
Confidence 46899999999999986 45799999999999998765554443 234599999999999888876411 00
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe 548 (874)
..+.|...... ... ........|.+||||+++...-.
T Consensus 387 ~ti~~~~~~~~-----------------~~~--------------------------~~~~~~~~d~~iiDe~~ml~~~~ 423 (696)
T COG0507 387 RTIHRLLGLWE-----------------KTG--------------------------NNEEPLDGDLLIIDEASMLDTSL 423 (696)
T ss_pred hHHHHHHhccc-----------------cCC--------------------------CCCCccccceeEEehhhhHHHHH
Confidence 11111110000 000 00112367999999999988733
Q ss_pred hHHHhhccccCCcEEEEecCCCcccceeecc
Q 002849 549 SMVPISSYCKKDTVVVLAGDPMQLGPVIYSR 579 (874)
Q Consensus 549 ~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~ 579 (874)
.. -+........++|++||..||+++.-+.
T Consensus 424 ~~-~l~~~i~~~a~~i~vGD~~ql~~v~~g~ 453 (696)
T COG0507 424 AF-GLLSAIGKLAKVILVGDVDQLPSVGAGA 453 (696)
T ss_pred hh-hhhcccccCCeEEEeCCHHhcCCCCCCc
Confidence 33 3333445667999999999999987655
No 45
>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=99.16 E-value=1.1e-10 Score=119.93 Aligned_cols=153 Identities=24% Similarity=0.275 Sum_probs=74.9
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVREN 469 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~ 469 (874)
.+|.+|+.++..++.. ..+++.||+|||||..++.++++++..+.-.+|+++-|.-.+. +.+-- .++
T Consensus 4 p~~~~Q~~~~~al~~~---~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~----~~lGf------lpG 70 (205)
T PF02562_consen 4 PKNEEQKFALDALLNN---DLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAG----EDLGF------LPG 70 (205)
T ss_dssp --SHHHHHHHHHHHH----SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT--------S------S--
T ss_pred CCCHHHHHHHHHHHhC---CeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCc----ccccc------CCC
Confidence 4799999999999954 5689999999999999999999998876667888887765441 22210 000
Q ss_pred cEEEecCCCCCCcCCchhhhhhccccchhcc-CCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhh
Q 002849 470 EIFRLNAPSRPYEDVNADHIRFCFFDEQIFK-CPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 470 ~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~-~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe 548 (874)
++ .+.+.+-...+...-+..+. ......+.+..|-+........ ..+ .-.+|||||| |-+.|+
T Consensus 71 ~~---------~eK~~p~~~p~~d~l~~~~~~~~~~~~~~~~~Ie~~~~~~iRG---rt~---~~~~iIvDEa-QN~t~~ 134 (205)
T PF02562_consen 71 DL---------EEKMEPYLRPIYDALEELFGKEKLEELIQNGKIEIEPLAFIRG---RTF---DNAFIIVDEA-QNLTPE 134 (205)
T ss_dssp ----------------TTTHHHHHHHTTTS-TTCHHHHHHTTSEEEEEGGGGTT-----B----SEEEEE-SG-GG--HH
T ss_pred CH---------HHHHHHHHHHHHHHHHHHhChHhHHHHhhcCeEEEEehhhhcC---ccc---cceEEEEecc-cCCCHH
Confidence 00 01111111111100011111 1112233455555555432211 111 2489999999 555555
Q ss_pred hHHHhhccccCCcEEEEecCCCc
Q 002849 549 SMVPISSYCKKDTVVVLAGDPMQ 571 (874)
Q Consensus 549 ~li~L~~l~~~~~~vVLvGDp~Q 571 (874)
.+.-+..-.+.+.++|+.||+.|
T Consensus 135 ~~k~ilTR~g~~skii~~GD~~Q 157 (205)
T PF02562_consen 135 ELKMILTRIGEGSKIIITGDPSQ 157 (205)
T ss_dssp HHHHHHTTB-TT-EEEEEE----
T ss_pred HHHHHHcccCCCcEEEEecCcee
Confidence 55544444567789999999999
No 46
>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=98.90 E-value=1e-09 Score=122.12 Aligned_cols=93 Identities=19% Similarity=0.277 Sum_probs=55.1
Q ss_pred eecccccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHH
Q 002849 609 TKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEI 688 (874)
Q Consensus 609 ~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~ 688 (874)
+.|++||||++.|+++.|.+|-.. ..... ........+........++.++...+ ...|++.|++.
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~e~~~i~~~ 66 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENI-LPNDN-KDRYEKEIQSAENSEDGKISIIEFDN------------EEEEAEYIAEE 66 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC----TTS-SSSCCCEEEESSTCEESSEEEEEESS------------HHHHHHHHHHH
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhh-hhhhc-cchhhhhhccccccccCCceeeccCC------------HHHHHHHHHHH
Confidence 369999999999999999988220 00000 00000000111111113344444322 33689999999
Q ss_pred HHHHHHcCCCCCCeEEEEcccHHHHHHH
Q 002849 689 IQKLTSTGNLSEEDIGVITPYRQQVLKL 716 (874)
Q Consensus 689 v~~L~~~~~~~~~dIgIItPY~~Qv~~I 716 (874)
|..+... +++++||+||++.+.+...|
T Consensus 67 I~~l~~~-~~~~~diAVL~R~~~~~~~i 93 (351)
T PF13361_consen 67 IKELIRN-GIPPSDIAVLVRTNSQIKEI 93 (351)
T ss_dssp HHHHHHT-TS-GGGEEEEESSGGHHHHH
T ss_pred HHHHhhc-CCCcccEEEEEECchhHHHH
Confidence 9999887 58999999999988887766
No 47
>PRK10536 hypothetical protein; Provisional
Probab=98.89 E-value=6.3e-09 Score=109.75 Aligned_cols=150 Identities=19% Similarity=0.235 Sum_probs=83.0
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
...|..|..++..+... ..+++.||+|||||+.+.....+.+....-.+|+++-|+-.+ ++...=|..
T Consensus 58 ~p~n~~Q~~~l~al~~~---~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~-ge~LGfLPG-------- 125 (262)
T PRK10536 58 LARNEAQAHYLKAIESK---QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQA-DEDLGFLPG-------- 125 (262)
T ss_pred cCCCHHHHHHHHHHhcC---CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCc-hhhhCcCCC--------
Confidence 56799999999977663 568999999999999998888866644344566666554433 222211111
Q ss_pred ccEEEecCCCCCCcCCchhhhhhcc--cc--chhccCCchhhc---ccceEEEEechhhhhhhhcccCCCCccEEEEEcC
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCF--FD--EQIFKCPPLAAL---VCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEA 541 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~--~~--~~~~~~~~~~~L---~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEA 541 (874)
++.+.+.+|.. .+ +........+.+ ....|-+.... .+ .+- ...-++||||||
T Consensus 126 --------------~~~eK~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~---ym--RGr-tl~~~~vIvDEa 185 (262)
T PRK10536 126 --------------DIAEKFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFA---YM--RGR-TFENAVVILDEA 185 (262)
T ss_pred --------------CHHHHHHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHH---Hh--cCC-cccCCEEEEech
Confidence 01111111100 00 000000001111 12334333321 11 111 113489999999
Q ss_pred CCCChhhhHHHhhccccCCcEEEEecCCCc
Q 002849 542 GQASEPESMVPISSYCKKDTVVVLAGDPMQ 571 (874)
Q Consensus 542 sQ~~epe~li~L~~l~~~~~~vVLvGDp~Q 571 (874)
+..+..+....|.. .+.+.++|++||+.|
T Consensus 186 qn~~~~~~k~~ltR-~g~~sk~v~~GD~~Q 214 (262)
T PRK10536 186 QNVTAAQMKMFLTR-LGENVTVIVNGDITQ 214 (262)
T ss_pred hcCCHHHHHHHHhh-cCCCCEEEEeCChhh
Confidence 66666555555554 457789999999999
No 48
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.89 E-value=1.9e-08 Score=101.69 Aligned_cols=160 Identities=17% Similarity=0.186 Sum_probs=98.5
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..+++.|.+++..++... ...+|.||+|||||++++..+...+...+..++|+++|++.++..+..++....... ..
T Consensus 7 ~~~~~~Q~~~~~~~~~~~--~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~-~~ 83 (201)
T smart00487 7 EPLRPYQKEAIEALLSGL--RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSL-GL 83 (201)
T ss_pred CCCCHHHHHHHHHHHcCC--CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccC-Ce
Confidence 468999999999998752 357999999999999999988888876556899999999999999999887621100 00
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhccc-ceEEEEechhhhhhhhcc-cCCCCccEEEEEcCCCCCh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVC-YRIIISTYMSASLIYAEG-VDRGHFSHIFLDEAGQASE 546 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~-~~VI~~T~~sa~~l~~~~-~~~~~fd~ViIDEAsQ~~e 546 (874)
.....+..... ..... +.... +.++++|........... ....++++||||||.....
T Consensus 84 ~~~~~~~~~~~-----~~~~~---------------~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~ 143 (201)
T smart00487 84 KVVGLYGGDSK-----REQLR---------------KLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLD 143 (201)
T ss_pred EEEEEeCCcch-----HHHHH---------------HHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhc
Confidence 01111111000 00000 01122 278888876554433322 3455789999999955443
Q ss_pred -h--hhHHHhhccc-cCCcEEEEecCCCc
Q 002849 547 -P--ESMVPISSYC-KKDTVVVLAGDPMQ 571 (874)
Q Consensus 547 -p--e~li~L~~l~-~~~~~vVLvGDp~Q 571 (874)
. ..+..+...+ .....+++.|.|.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~v~~saT~~~ 172 (201)
T smart00487 144 GGFGDQLEKLLKLLPKNVQLLLLSATPPE 172 (201)
T ss_pred CCcHHHHHHHHHhCCccceEEEEecCCch
Confidence 1 2222232222 22345666666654
No 49
>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=98.77 E-value=5.5e-08 Score=92.48 Aligned_cols=115 Identities=18% Similarity=0.167 Sum_probs=75.1
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhhhh
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADHIR 490 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~ 490 (874)
++|.||+|||||+++...+.++...+...++++++|++..++...+++...... ..-+.+....... ...
T Consensus 3 ~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~----~~~~~~~~~~~~~---~~~--- 72 (144)
T cd00046 3 VLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE----GIKVGYLIGGTSI---KQQ--- 72 (144)
T ss_pred EEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhC----CcEEEEEecCcch---hHH---
Confidence 699999999999999999999887667789999999999999999988762110 0111111110000 000
Q ss_pred hccccchhccCCchhhcccceEEEEechhhhhhhhcc-cCCCCccEEEEEcCCCCChh
Q 002849 491 FCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG-VDRGHFSHIFLDEAGQASEP 547 (874)
Q Consensus 491 ~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~-~~~~~fd~ViIDEAsQ~~ep 547 (874)
.........++++|........... .....+++||||||......
T Consensus 73 ------------~~~~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~ 118 (144)
T cd00046 73 ------------EKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQ 118 (144)
T ss_pred ------------HHHhcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhc
Confidence 0112356778888887554333221 23457999999999554444
No 50
>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=98.63 E-value=2.4e-07 Score=92.41 Aligned_cols=131 Identities=23% Similarity=0.286 Sum_probs=87.1
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccE
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEI 471 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i 471 (874)
++.|.+++..+++.. .++|.||+|+|||+...-.+.+.+...+..++++++|+.+.++...+++...... .....
T Consensus 1 t~~Q~~~~~~i~~~~---~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~--~~~~~ 75 (169)
T PF00270_consen 1 TPLQQEAIEAIISGK---NVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSN--TNVRV 75 (169)
T ss_dssp -HHHHHHHHHHHTTS---EEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTT--TTSSE
T ss_pred CHHHHHHHHHHHcCC---CEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccc--ccccc
Confidence 478999999999542 3799999999999999888887776555569999999999999999999763211 11122
Q ss_pred EEecCCCCCCcCCchhhhhhccccchhccCCchhhc-ccceEEEEechhhhhhhhcc-cCCCCccEEEEEcCCCCChh
Q 002849 472 FRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAAL-VCYRIIISTYMSASLIYAEG-VDRGHFSHIFLDEAGQASEP 547 (874)
Q Consensus 472 ~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L-~~~~VI~~T~~sa~~l~~~~-~~~~~fd~ViIDEAsQ~~ep 547 (874)
..+.... ..... ....+ .+++|+++|........... ....+.++|||||+ +....
T Consensus 76 ~~~~~~~------~~~~~-------------~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~-h~l~~ 133 (169)
T PF00270_consen 76 VLLHGGQ------SISED-------------QREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEA-HHLSD 133 (169)
T ss_dssp EEESTTS------CHHHH-------------HHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETH-HHHHH
T ss_pred ccccccc------ccccc-------------ccccccccccccccCcchhhccccccccccccceeeccCcc-ccccc
Confidence 2221110 00000 01112 46899999998766554431 12345899999999 44433
No 51
>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=98.62 E-value=1.1e-07 Score=122.72 Aligned_cols=164 Identities=15% Similarity=0.114 Sum_probs=96.2
Q ss_pred CccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccceeecchh-hhcCCCccHHHHHHhc---CCCCCCCccc
Q 002849 532 HFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREA-ETYGMGKSYLERLFEC---EPYCHGNENY 607 (874)
Q Consensus 532 ~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a-~~~gl~~SlfeRL~~~---~~~~~~~~~~ 607 (874)
...+|+|||+ |++.|..+..|..++....+++++||..|-. ..... .-+......+.++... ..+.. ..
T Consensus 196 ~~~~I~VDeF-qdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~~---~~~~~~~lf~~~~~~~~~l~~~~~~~~~~~---~~ 268 (1158)
T TIGR02773 196 KGAEIYIDGF-HSFTPQEYSVIGALMKKAKKVTVTLTLDGPK---SLEDELSLFRATSETYYRLKELAKELGIEV---EE 268 (1158)
T ss_pred CCCEEEEccC-CCCCHHHHHHHHHHHHhCCcEEEEEEeCCcc---ccCCccccchhHHHHHHHHHHHHHHcCCCc---cc
Confidence 3579999999 8888888888888887777899999999941 10000 0011112223333221 01100 00
Q ss_pred eeecccccCC--chhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHH
Q 002849 608 VTKLVRNYRS--HPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKV 685 (874)
Q Consensus 608 ~~~L~~nYRs--hp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V 685 (874)
.+.+..+++. ++.|..+...++-.+ .. ...+.+.++.++.... -..|++.|
T Consensus 269 ~i~~~~~~~~~~~~~l~~Lek~l~~~~-~~--------------~~~~~~~~I~i~~~~~------------~~~Eae~v 321 (1158)
T TIGR02773 269 PIFLNEYRPNKKNKELAHLEKQFDARP-FN--------------AYIEEDGSISIFEANN------------RRAEVEGV 321 (1158)
T ss_pred ccccccccCCCCCHHHHHHHHHHhhCC-CC--------------CCCCCCCCeEEEEcCC------------HHHHHHHH
Confidence 1123334442 444444443333110 00 0011122344443321 23799999
Q ss_pred HHHHHHHHHcCCCCCCeEEEEccc-HHHHHHHHHHHHhcCCCCeE
Q 002849 686 VEIIQKLTSTGNLSEEDIGVITPY-RQQVLKLNKALESLYMPDIK 729 (874)
Q Consensus 686 ~~~v~~L~~~~~~~~~dIgIItPY-~~Qv~~Ir~~L~~~~~~~v~ 729 (874)
+..|.+++..+++.++||+|+++. +.+...|...|.+.++|-..
T Consensus 322 a~~I~~l~~~~g~~~~DIAVL~R~~~~y~~~i~~~f~~~~IP~~i 366 (1158)
T TIGR02773 322 ARQILRLTRDKQYRYQDIAILTRDLEDYAKLVEAVFSDYEIPYFI 366 (1158)
T ss_pred HHHHHHHHHcCCCChhheEEEeCCHHHHHHHHHHHHHhCCCCeEE
Confidence 999999988745899999999999 89999999999988877543
No 52
>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=98.61 E-value=4.4e-07 Score=91.45 Aligned_cols=65 Identities=28% Similarity=0.426 Sum_probs=54.7
Q ss_pred CCCHHHHHHHHHHhcc---C-CCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 390 NLNEEQMCSIEKILGL---K-GAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~---~-~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
+|.+.|.+|+..++.. . ....++|.+|+|||||.+++.++.++.. ++++++|+.+.++.+.+.+.
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~-----~~l~~~p~~~l~~Q~~~~~~ 71 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR-----KVLIVAPNISLLEQWYDEFD 71 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC-----EEEEEESSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc-----ceeEecCHHHHHHHHHHHHH
Confidence 4789999999999852 1 1245899999999999999998888774 99999999999999998884
No 53
>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=98.45 E-value=1.6e-06 Score=83.45 Aligned_cols=110 Identities=21% Similarity=0.271 Sum_probs=71.0
Q ss_pred CEEEEcCCCCChhH-HHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhh
Q 002849 410 PYLIYGPPGTGKTM-TLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADH 488 (874)
Q Consensus 410 ~~lI~GPPGTGKT~-Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~ 488 (874)
..+|.=.||+|||+ ++.+.+.+.++ .+.|+||++||...++++.+.|... -+|.....+..
T Consensus 6 ~~~~d~hpGaGKTr~vlp~~~~~~i~--~~~rvLvL~PTRvva~em~~aL~~~---------~~~~~t~~~~~------- 67 (148)
T PF07652_consen 6 LTVLDLHPGAGKTRRVLPEIVREAIK--RRLRVLVLAPTRVVAEEMYEALKGL---------PVRFHTNARMR------- 67 (148)
T ss_dssp EEEEE--TTSSTTTTHHHHHHHHHHH--TT--EEEEESSHHHHHHHHHHTTTS---------SEEEESTTSS--------
T ss_pred eeEEecCCCCCCcccccHHHHHHHHH--ccCeEEEecccHHHHHHHHHHHhcC---------CcccCceeeec-------
Confidence 46888899999999 58888888886 5789999999999999999999752 13333222110
Q ss_pred hhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHhh
Q 002849 489 IRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPIS 554 (874)
Q Consensus 489 ~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~ 554 (874)
..-...-|-+.|..+.............|++||+||| ..+.|..+....
T Consensus 68 ----------------~~~g~~~i~vMc~at~~~~~~~p~~~~~yd~II~DEc-H~~Dp~sIA~rg 116 (148)
T PF07652_consen 68 ----------------THFGSSIIDVMCHATYGHFLLNPCRLKNYDVIIMDEC-HFTDPTSIAARG 116 (148)
T ss_dssp -------------------SSSSEEEEEHHHHHHHHHTSSCTTS-SEEEECTT-T--SHHHHHHHH
T ss_pred ----------------cccCCCcccccccHHHHHHhcCcccccCccEEEEecc-ccCCHHHHhhhe
Confidence 0002233444555555555445556678999999999 999998876554
No 54
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=98.41 E-value=2e-06 Score=93.37 Aligned_cols=199 Identities=20% Similarity=0.184 Sum_probs=100.2
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHH-HHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVE-AILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve-~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
...|.+|+-|+...+.. +.+.+.+.|.+|||||-.+.. .+.|.+....-.+|+|+-|+-.--.. +- .++
T Consensus 227 ~prn~eQ~~ALdlLld~-dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~d----IG-----fLP 296 (436)
T COG1875 227 RPRNAEQRVALDLLLDD-DIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGED----IG-----FLP 296 (436)
T ss_pred CcccHHHHHHHHHhcCC-CCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccc----cC-----cCC
Confidence 56799999999988764 345688999999999976544 34455554445678877664221111 10 011
Q ss_pred cccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChh
Q 002849 468 ENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEP 547 (874)
Q Consensus 468 ~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~ep 547 (874)
..+--.+..+. ..+.+.+.-....++.- ...-...+....+=+-.+.- +.-.. -+=..|||||| |-.+|
T Consensus 297 G~eEeKm~PWm---q~i~DnLE~L~~~~~~~-~~~l~~~l~~~~iev~alt~---IRGRS---l~~~FiIIDEa-QNLTp 365 (436)
T COG1875 297 GTEEEKMGPWM---QAIFDNLEVLFSPNEPG-DRALEEILSRGRIEVEALTY---IRGRS---LPDSFIIIDEA-QNLTP 365 (436)
T ss_pred CchhhhccchH---HHHHhHHHHHhcccccc-hHHHHHHHhccceeeeeeee---ecccc---cccceEEEehh-hccCH
Confidence 00000111111 11111111111111000 00000111222221111110 00011 13368999999 88888
Q ss_pred hhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecccccCC
Q 002849 548 ESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVRNYRS 617 (874)
Q Consensus 548 e~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~nYRs 617 (874)
..+..+..-++.++++||.||+.|.-.--.... ..| -..+.+|+.....+. -+.|...=||
T Consensus 366 heikTiltR~G~GsKIVl~gd~aQiD~~yl~~~--snG-Ltyvverfk~~~l~~------hi~L~r~eRS 426 (436)
T COG1875 366 HELKTILTRAGEGSKIVLTGDPAQIDTPYLDET--SNG-LTYVVEKFKGHPLSA------HITLQRGERS 426 (436)
T ss_pred HHHHHHHHhccCCCEEEEcCCHHHcCCccccCC--Ccc-HHHHHHHhcCCCcee------EEEEecccch
Confidence 777777767888999999999999422111110 112 134567776654432 3567776666
No 55
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.41 E-value=3.1e-06 Score=99.94 Aligned_cols=127 Identities=14% Similarity=0.144 Sum_probs=85.5
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..|.+.|++||..++.... .++++|.|+|||.+++.++..++.. ...++|+++||...+++..+++.+... ...
T Consensus 113 ~~~r~~Q~~av~~~l~~~~---~il~apTGsGKT~i~~~l~~~~~~~-~~~~vLilvpt~eL~~Q~~~~l~~~~~--~~~ 186 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNR---RLLNLPTSAGKSLIQYLLSRYYLEN-YEGKVLIIVPTTSLVTQMIDDFVDYRL--FPR 186 (501)
T ss_pred CCCCHHHHHHHHHHHhcCc---eEEEeCCCCCHHHHHHHHHHHHHhc-CCCeEEEEECcHHHHHHHHHHHHHhcc--ccc
Confidence 4688999999999987533 5999999999999887665555543 344999999999999999999976211 111
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe 548 (874)
..+.-+..... .-....|+++|..+........ ...|++||||||-......
T Consensus 187 ~~~~~i~~g~~--------------------------~~~~~~I~VaT~qsl~~~~~~~--~~~~~~iIvDEaH~~~~~~ 238 (501)
T PHA02558 187 EAMHKIYSGTA--------------------------KDTDAPIVVSTWQSAVKQPKEW--FDQFGMVIVDECHLFTGKS 238 (501)
T ss_pred cceeEEecCcc--------------------------cCCCCCEEEeeHHHHhhchhhh--ccccCEEEEEchhcccchh
Confidence 11111111000 0024679999987664432222 2479999999997776654
Q ss_pred h
Q 002849 549 S 549 (874)
Q Consensus 549 ~ 549 (874)
.
T Consensus 239 ~ 239 (501)
T PHA02558 239 L 239 (501)
T ss_pred H
Confidence 3
No 56
>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=2.1e-06 Score=88.68 Aligned_cols=132 Identities=17% Similarity=0.178 Sum_probs=81.8
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc---CCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR---EDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~---~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
.+++.|++|+..++..+ ..+|.+|.|+|||.+....+.+.+... .+.++++++|+...+..+.+.+......
T Consensus 21 ~~~~~Q~~~~~~~~~~~---~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~-- 95 (203)
T cd00268 21 KPTPIQARAIPPLLSGR---DVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKH-- 95 (203)
T ss_pred CCCHHHHHHHHHHhcCC---cEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhcc--
Confidence 57899999999999853 379999999999988555444444433 5668999999999999988877652110
Q ss_pred ccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhc-ccceEEEEechhhhhhh-hcccCCCCccEEEEEcCCCC
Q 002849 467 RENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAAL-VCYRIIISTYMSASLIY-AEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 467 ~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L-~~~~VI~~T~~sa~~l~-~~~~~~~~fd~ViIDEAsQ~ 544 (874)
....+.-+..... ..+ ....+ .+.+|+++|........ ........++++|||||-..
T Consensus 96 ~~~~~~~~~~~~~----~~~----------------~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~ 155 (203)
T cd00268 96 TNLKVVVIYGGTS----IDK----------------QIRKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRM 155 (203)
T ss_pred CCceEEEEECCCC----HHH----------------HHHHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHh
Confidence 0111111110000 000 00111 36789999976543322 22233356899999999444
Q ss_pred Ch
Q 002849 545 SE 546 (874)
Q Consensus 545 ~e 546 (874)
.+
T Consensus 156 ~~ 157 (203)
T cd00268 156 LD 157 (203)
T ss_pred hc
Confidence 33
No 57
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=98.30 E-value=1.1e-06 Score=93.45 Aligned_cols=49 Identities=16% Similarity=0.200 Sum_probs=33.7
Q ss_pred CCCCccEEEEEcCCCCChhhhHHHhhcccc---CCcEEEEecC-CCcccceeec
Q 002849 529 DRGHFSHIFLDEAGQASEPESMVPISSYCK---KDTVVVLAGD-PMQLGPVIYS 578 (874)
Q Consensus 529 ~~~~fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~vVLvGD-p~QL~PvI~s 578 (874)
+...|.+||+||| +.+..+++.+|..... +.++++|+-- ..-|++.+.|
T Consensus 126 ~~~~fKiiIlDEc-dsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~S 178 (346)
T KOG0989|consen 126 PCPPFKIIILDEC-DSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVS 178 (346)
T ss_pred CCCcceEEEEech-hhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHh
Confidence 4457999999999 8888889988876543 3457776643 3444444433
No 58
>PTZ00424 helicase 45; Provisional
Probab=98.24 E-value=7.9e-06 Score=93.66 Aligned_cols=131 Identities=21% Similarity=0.183 Sum_probs=83.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
..+++.|.+|+..++...+ .++.+|.|||||.+..-.+.+.+... .+.++|+++|+...|..+.+.+...... .
T Consensus 49 ~~~~~~Q~~ai~~i~~~~d---~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~-~- 123 (401)
T PTZ00424 49 EKPSAIQQRGIKPILDGYD---TIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDY-L- 123 (401)
T ss_pred CCCCHHHHHHHHHHhCCCC---EEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHhhh-c-
Confidence 3589999999999998654 69999999999998776666665432 4568999999999999888776642110 0
Q ss_pred cccEEE-ecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh-hcccCCCCccEEEEEcCCCC
Q 002849 468 ENEIFR-LNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY-AEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 468 ~~~i~R-l~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~-~~~~~~~~fd~ViIDEAsQ~ 544 (874)
.....- .+... ..... .......+|+++|........ ........+++||||||-..
T Consensus 124 ~~~~~~~~g~~~-----~~~~~---------------~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~ 182 (401)
T PTZ00424 124 KVRCHACVGGTV-----VRDDI---------------NKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEM 182 (401)
T ss_pred CceEEEEECCcC-----HHHHH---------------HHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHHH
Confidence 000110 11100 00000 011134689999987654332 22334567899999999433
No 59
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.20 E-value=1.2e-05 Score=93.19 Aligned_cols=132 Identities=19% Similarity=0.141 Sum_probs=83.1
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-----CCCeEEEecCCHHHHHHHHHHHhcccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-----EDARLLVCAPSNSAADHLLEKILGEKA 463 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-----~~~rILv~ApSNsAaD~l~~rL~~~~~ 463 (874)
..+++.|.+|+..++..++ +++.+|.|||||.+..-.+.+.+... ...++|+++||...|..+.+.+.....
T Consensus 22 ~~p~~iQ~~ai~~~~~g~d---~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~ 98 (434)
T PRK11192 22 TRPTAIQAEAIPPALDGRD---VLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELAK 98 (434)
T ss_pred CCCCHHHHHHHHHHhCCCC---EEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHHc
Confidence 3568999999999997643 79999999999998766666554322 246899999999999998887764211
Q ss_pred cccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh-hcccCCCCccEEEEEcCC
Q 002849 464 VEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY-AEGVDRGHFSHIFLDEAG 542 (874)
Q Consensus 464 ~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~-~~~~~~~~fd~ViIDEAs 542 (874)
. ....+.-+..... .. +. .......++|+++|......+. ...+....+++||||||-
T Consensus 99 ~--~~~~v~~~~gg~~------~~--------~~-----~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah 157 (434)
T PRK11192 99 H--THLDIATITGGVA------YM--------NH-----AEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEAD 157 (434)
T ss_pred c--CCcEEEEEECCCC------HH--------HH-----HHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHH
Confidence 0 1111222211100 00 00 0011135789999986543322 233445578999999994
Q ss_pred CC
Q 002849 543 QA 544 (874)
Q Consensus 543 Q~ 544 (874)
..
T Consensus 158 ~~ 159 (434)
T PRK11192 158 RM 159 (434)
T ss_pred HH
Confidence 33
No 60
>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=98.17 E-value=2.7e-05 Score=93.88 Aligned_cols=151 Identities=17% Similarity=0.176 Sum_probs=96.7
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..|=+.|++|+...+.+.....-+|.-|+|+|||.+.+.++..+ ..++||++||..++++-.+.+.+.. .+..
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l-----~k~tLILvps~~Lv~QW~~ef~~~~--~l~~ 326 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV-----KKSCLVLCTSAVSVEQWKQQFKMWS--TIDD 326 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh-----CCCEEEEeCcHHHHHHHHHHHHHhc--CCCC
Confidence 46789999999998854321235899999999999998776653 3679999999999999998887621 1122
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhh---------hhcccCCCCccEEEEE
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLI---------YAEGVDRGHFSHIFLD 539 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l---------~~~~~~~~~fd~ViID 539 (874)
..+.++....+. .....+.|+++|..+.... ....+....|++||+|
T Consensus 327 ~~I~~~tg~~k~------------------------~~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~D 382 (732)
T TIGR00603 327 SQICRFTSDAKE------------------------RFHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLD 382 (732)
T ss_pred ceEEEEecCccc------------------------ccccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEE
Confidence 233333221110 0013467899998765421 1123445689999999
Q ss_pred cCCCCChhhhHHHhhccccCCcEEEEecCCCc
Q 002849 540 EAGQASEPESMVPISSYCKKDTVVVLAGDPMQ 571 (874)
Q Consensus 540 EAsQ~~epe~li~L~~l~~~~~~vVLvGDp~Q 571 (874)
||-.+..+..-..+..+ ....++-|-|=|.+
T Consensus 383 EvH~lpA~~fr~il~~l-~a~~RLGLTATP~R 413 (732)
T TIGR00603 383 EVHVVPAAMFRRVLTIV-QAHCKLGLTATLVR 413 (732)
T ss_pred ccccccHHHHHHHHHhc-CcCcEEEEeecCcc
Confidence 99655544433233322 22346777777654
No 61
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.16 E-value=1.9e-05 Score=91.66 Aligned_cols=130 Identities=20% Similarity=0.209 Sum_probs=89.0
Q ss_pred CCCCCCHHHHHHHHHHhccCC-CCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 387 ISCNLNEEQMCSIEKILGLKG-APPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 387 ~~~~LN~~Q~~AV~~il~~~~-~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
+...|.+.|.+|+........ ....+|.-|+|+|||.+.++++..+. .++||++|+...++.-.+++.......
T Consensus 33 ~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~-----~~~Lvlv~~~~L~~Qw~~~~~~~~~~~ 107 (442)
T COG1061 33 FEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK-----RSTLVLVPTKELLDQWAEALKKFLLLN 107 (442)
T ss_pred cCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc-----CCEEEEECcHHHHHHHHHHHHHhcCCc
Confidence 456799999999999987411 23479999999999999998887754 339999999999999998887621110
Q ss_pred cccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhh-hhcccCCCCccEEEEEcCCCC
Q 002849 466 VRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLI-YAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 466 ~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l-~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
..+-.++... .+ .....|+++|..+.... ....+...+|+.||+||+-+.
T Consensus 108 ---~~~g~~~~~~-------------------------~~-~~~~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~ 158 (442)
T COG1061 108 ---DEIGIYGGGE-------------------------KE-LEPAKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHL 158 (442)
T ss_pred ---cccceecCce-------------------------ec-cCCCcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccC
Confidence 0111111100 00 01156899998887764 223444558999999999777
Q ss_pred ChhhhH
Q 002849 545 SEPESM 550 (874)
Q Consensus 545 ~epe~l 550 (874)
.-+..-
T Consensus 159 ~a~~~~ 164 (442)
T COG1061 159 PAPSYR 164 (442)
T ss_pred CcHHHH
Confidence 765433
No 62
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.14 E-value=1.4e-05 Score=97.38 Aligned_cols=128 Identities=21% Similarity=0.280 Sum_probs=85.5
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..|++.|++|+..++...+...++++||.|||||.+...++.+.+. .+.++|+++|+.+-+..+.+++.+. +.
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~--~g~~vLvLvPt~~L~~Q~~~~l~~~----fg- 215 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLA--QGKQALVLVPEIALTPQMLARFRAR----FG- 215 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHH--cCCeEEEEeCcHHHHHHHHHHHHHH----hC-
Confidence 4699999999999986412245899999999999999888888776 3679999999999999999999762 11
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCC
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
..+..+..... ..+....+ . .-.-...+||++|..... .+..++.+|||||+...
T Consensus 216 ~~v~~~~s~~s----~~~r~~~~---~--------~~~~g~~~IVVgTrsal~------~p~~~l~liVvDEeh~~ 270 (679)
T PRK05580 216 APVAVLHSGLS----DGERLDEW---R--------KAKRGEAKVVIGARSALF------LPFKNLGLIIVDEEHDS 270 (679)
T ss_pred CCEEEEECCCC----HHHHHHHH---H--------HHHcCCCCEEEeccHHhc------ccccCCCEEEEECCCcc
Confidence 12333322110 00000000 0 001135789999964332 23457899999999543
No 63
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.13 E-value=1.4e-05 Score=96.84 Aligned_cols=70 Identities=23% Similarity=0.318 Sum_probs=57.6
Q ss_pred CCCCHHHHHHHHHHhccC--CCC-CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLK--GAP-PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~--~~~-~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
-.|++.|++|+..++... +.+ ..+|+||.|||||.+....+.+.+. .+.++++++||...|....+.+.+
T Consensus 234 f~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~--~g~qvlilaPT~~LA~Q~~~~~~~ 306 (630)
T TIGR00643 234 FKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE--AGYQVALMAPTEILAEQHYNSLRN 306 (630)
T ss_pred CCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH--cCCcEEEECCHHHHHHHHHHHHHH
Confidence 368999999999998642 111 3699999999999988777777665 467999999999999999988875
No 64
>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=98.12 E-value=2.3e-05 Score=96.74 Aligned_cols=118 Identities=15% Similarity=0.211 Sum_probs=75.1
Q ss_pred HHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEe
Q 002849 395 QMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRL 474 (874)
Q Consensus 395 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl 474 (874)
.+..|...+... ..++|.|++|||||+.+...+.+... .+.+|+|+.|+..||..+++|+.+..+..+. ..+
T Consensus 6 ~~~~i~~~l~~~--~~vIi~a~TGSGKTT~vpl~lL~~~~--~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g----~~V 77 (819)
T TIGR01970 6 VLPALRDALAAH--PQVVLEAPPGAGKSTAVPLALLDAPG--IGGKIIMLEPRRLAARSAAQRLASQLGEAVG----QTV 77 (819)
T ss_pred HHHHHHHHHHcC--CcEEEECCCCCCHHHHHHHHHHHhhc--cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcC----cEE
Confidence 445555556443 45899999999999998877765442 4569999999999999999999753221111 111
Q ss_pred cCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCC
Q 002849 475 NAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAG 542 (874)
Q Consensus 475 ~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAs 542 (874)
+...+... . .-.+.+|+++|.............-..+++||||||-
T Consensus 78 Gy~vr~~~--------------~--------~s~~t~I~v~T~G~Llr~l~~d~~L~~v~~VIiDEaH 123 (819)
T TIGR01970 78 GYRVRGEN--------------K--------VSRRTRLEVVTEGILTRMIQDDPELDGVGALIFDEFH 123 (819)
T ss_pred EEEEcccc--------------c--------cCCCCcEEEECCcHHHHHHhhCcccccCCEEEEeccc
Confidence 11111000 0 0023578888876554433334445689999999995
No 65
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.12 E-value=2e-05 Score=92.11 Aligned_cols=133 Identities=18% Similarity=0.161 Sum_probs=84.1
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-------CCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-------EDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-------~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
..+++-|.+|+..++..++ +++.+|.|||||.+..-.+.+.+... ...++|+++||...|..+.+.+...
T Consensus 22 ~~pt~iQ~~ai~~il~g~d---vlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 22 REPTPIQQQAIPAVLEGRD---LMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred CCCCHHHHHHHHHHhCCCC---EEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 3578999999999998644 69999999999998766666555322 1237999999999999999888752
Q ss_pred cccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh-hcccCCCCccEEEEEc
Q 002849 462 KAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY-AEGVDRGHFSHIFLDE 540 (874)
Q Consensus 462 ~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~-~~~~~~~~fd~ViIDE 540 (874)
... .......+..... ..+... .....++|+++|......+. ...+....+++|||||
T Consensus 99 ~~~--~~~~~~~~~gg~~----~~~~~~---------------~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDE 157 (456)
T PRK10590 99 SKY--LNIRSLVVFGGVS----INPQMM---------------KLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDE 157 (456)
T ss_pred hcc--CCCEEEEEECCcC----HHHHHH---------------HHcCCCcEEEEChHHHHHHHHcCCcccccceEEEeec
Confidence 110 0111111111000 000000 11245789999986554332 2233445789999999
Q ss_pred CCCCC
Q 002849 541 AGQAS 545 (874)
Q Consensus 541 AsQ~~ 545 (874)
|-...
T Consensus 158 ah~ll 162 (456)
T PRK10590 158 ADRML 162 (456)
T ss_pred HHHHh
Confidence 94443
No 66
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.12 E-value=2.2e-05 Score=91.80 Aligned_cols=134 Identities=19% Similarity=0.164 Sum_probs=84.2
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
..+++-|.+|+..++...+ .++.||.|||||.+..-.+.+.+... ...++|+++||...|+.+.+.+..... ...
T Consensus 25 ~~~t~iQ~~ai~~~l~g~d---vi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~-~~~ 100 (460)
T PRK11776 25 TEMTPIQAQSLPAILAGKD---VIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLAR-FIP 100 (460)
T ss_pred CCCCHHHHHHHHHHhcCCC---EEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHh-hCC
Confidence 3579999999999998644 79999999999988666666655432 234799999999999999887764211 011
Q ss_pred cccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhh-cccCCCCccEEEEEcCCCCC
Q 002849 468 ENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYA-EGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 468 ~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~-~~~~~~~fd~ViIDEAsQ~~ 545 (874)
...+..+..... +..... ..-..++|+++|......+.. ..+....+++||||||-...
T Consensus 101 ~~~v~~~~Gg~~----~~~~~~---------------~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l 160 (460)
T PRK11776 101 NIKVLTLCGGVP----MGPQID---------------SLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRML 160 (460)
T ss_pred CcEEEEEECCCC----hHHHHH---------------HhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHh
Confidence 112222211100 000000 011457899999865543332 23334578999999994433
No 67
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.09 E-value=1.4e-05 Score=101.35 Aligned_cols=133 Identities=16% Similarity=0.187 Sum_probs=86.3
Q ss_pred CCCCHHHHHHHHHHhcc--CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILGL--KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..|-+.|.+||..+... .+..-.+|..|.|||||.|++.++..+++.....|||++++++.-++...+.+.... .
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~---~ 488 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTK---I 488 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcc---c
Confidence 35789999999887631 111237999999999999999999888876667899999999999999998886521 0
Q ss_pred ccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhh------cccCCCCccEEEEEc
Q 002849 467 RENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYA------EGVDRGHFSHIFLDE 540 (874)
Q Consensus 467 ~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~------~~~~~~~fd~ViIDE 540 (874)
... ..+. .+. .+.. ..+. ..-...+|+++|..+...... ..+..++||+|||||
T Consensus 489 ~~~--~~~~-------~i~-~i~~---L~~~-------~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDE 548 (1123)
T PRK11448 489 EGD--QTFA-------SIY-DIKG---LEDK-------FPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDE 548 (1123)
T ss_pred ccc--cchh-------hhh-chhh---hhhh-------cccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEEC
Confidence 000 0000 000 0000 0000 001357899999877543211 113457899999999
Q ss_pred CCCC
Q 002849 541 AGQA 544 (874)
Q Consensus 541 AsQ~ 544 (874)
|-..
T Consensus 549 aHRs 552 (1123)
T PRK11448 549 AHRG 552 (1123)
T ss_pred CCCC
Confidence 9554
No 68
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.08 E-value=1.4e-05 Score=94.76 Aligned_cols=124 Identities=23% Similarity=0.191 Sum_probs=87.4
Q ss_pred CCCCHHHHHHHHHHhcc--CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILGL--KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..+-..|..||..+... .+..-.||.=.+|||||.|+..+|-+|++.+.-+|||.+|-.|+.++........ ..
T Consensus 164 i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~----~~ 239 (875)
T COG4096 164 IGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFED----FL 239 (875)
T ss_pred ccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHH----hC
Confidence 35678899999888742 2222367777799999999999999999988889999999999999998877665 22
Q ss_pred ccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh------hcccCCCCccEEEEEc
Q 002849 467 RENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY------AEGVDRGHFSHIFLDE 540 (874)
Q Consensus 467 ~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~------~~~~~~~~fd~ViIDE 540 (874)
+.......-. .......++|.++|+.+..... ...+..++||.|||||
T Consensus 240 P~~~~~n~i~--------------------------~~~~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDE 293 (875)
T COG4096 240 PFGTKMNKIE--------------------------DKKGDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDE 293 (875)
T ss_pred CCccceeeee--------------------------cccCCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEech
Confidence 2211111100 0011125788999987654322 2346788999999999
Q ss_pred CC
Q 002849 541 AG 542 (874)
Q Consensus 541 As 542 (874)
|-
T Consensus 294 aH 295 (875)
T COG4096 294 AH 295 (875)
T ss_pred hh
Confidence 93
No 69
>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=98.08 E-value=2e-05 Score=98.25 Aligned_cols=140 Identities=20% Similarity=0.177 Sum_probs=87.0
Q ss_pred CCCCHHHHHHHHHHhccC--C-CCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 389 CNLNEEQMCSIEKILGLK--G-APPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~--~-~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
..+++.|.+||..++..- + ....+|+||.|||||.+...++...+. .+.++++++||..-|.+..+.+.+....
T Consensus 450 f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~--~g~qvlvLvPT~~LA~Q~~~~f~~~~~~- 526 (926)
T TIGR00580 450 FEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVL--DGKQVAVLVPTTLLAQQHFETFKERFAN- 526 (926)
T ss_pred CCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHH--hCCeEEEEeCcHHHHHHHHHHHHHHhcc-
Confidence 358999999999998631 1 123699999999999998877776665 3579999999999999998888752110
Q ss_pred cccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhc--ccceEEEEechhhhhhhhcccCCCCccEEEEEcCCC
Q 002849 466 VRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAAL--VCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQ 543 (874)
Q Consensus 466 ~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L--~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ 543 (874)
. ...+.-+.... .. .+..+ . .+.+ ...+||++|.. +....+...++.+|||||+ |
T Consensus 527 ~-~i~v~~Lsg~~-~~----~e~~~-------~-----~~~l~~g~~dIVIGTp~----ll~~~v~f~~L~llVIDEa-h 583 (926)
T TIGR00580 527 F-PVTIELLSRFR-SA----KEQNE-------I-----LKELASGKIDILIGTHK----LLQKDVKFKDLGLLIIDEE-Q 583 (926)
T ss_pred C-CcEEEEEeccc-cH----HHHHH-------H-----HHHHHcCCceEEEchHH----HhhCCCCcccCCEEEeecc-c
Confidence 0 01111111100 00 00000 0 0111 24789999963 2233444557899999999 5
Q ss_pred CChhhhHHHhh
Q 002849 544 ASEPESMVPIS 554 (874)
Q Consensus 544 ~~epe~li~L~ 554 (874)
.........|.
T Consensus 584 rfgv~~~~~L~ 594 (926)
T TIGR00580 584 RFGVKQKEKLK 594 (926)
T ss_pred ccchhHHHHHH
Confidence 55444444443
No 70
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.08 E-value=2.1e-05 Score=97.27 Aligned_cols=119 Identities=17% Similarity=0.167 Sum_probs=73.7
Q ss_pred HHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEe
Q 002849 395 QMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRL 474 (874)
Q Consensus 395 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl 474 (874)
.+..|...+... ..++|+||+|||||+.+.-.+.+.. ....+|+|+.|+..||..+++++.+..+.... ..+
T Consensus 9 ~~~~i~~~l~~~--~~vvv~A~TGSGKTt~~pl~lL~~~--~~~~~ilvlqPrR~aA~qia~rva~~l~~~~g----~~V 80 (812)
T PRK11664 9 VLPELLTALKTA--PQVLLKAPTGAGKSTWLPLQLLQHG--GINGKIIMLEPRRLAARNVAQRLAEQLGEKPG----ETV 80 (812)
T ss_pred HHHHHHHHHHhC--CCEEEEcCCCCCHHHHHHHHHHHcC--CcCCeEEEECChHHHHHHHHHHHHHHhCcccC----ceE
Confidence 445555555443 3489999999999999876554322 23459999999999999999999653221111 111
Q ss_pred cCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCC
Q 002849 475 NAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQ 543 (874)
Q Consensus 475 ~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ 543 (874)
+...+..... -.+.+|+++|.............-..+++||||||-.
T Consensus 81 Gy~vr~~~~~----------------------~~~t~I~v~T~G~Llr~l~~d~~L~~v~~IIlDEaHE 127 (812)
T PRK11664 81 GYRMRAESKV----------------------GPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHE 127 (812)
T ss_pred EEEecCcccc----------------------CCCCcEEEEChhHHHHHHhhCCCcCcCcEEEEcCCCc
Confidence 1111100000 0234688888765544444444456899999999943
No 71
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.07 E-value=9.2e-07 Score=81.22 Aligned_cols=50 Identities=26% Similarity=0.181 Sum_probs=38.3
Q ss_pred CeEECccccCCCceeeEEEEEeccCCCcCCccccccccccCCCCCceEeccccccccEEEE
Q 002849 727 DIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLIII 787 (874)
Q Consensus 727 ~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIv 787 (874)
.+.+.|+|++||.|+|.||+....... .-....++||||+||||..|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~-----------~~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSN-----------FDELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGS-----------GCGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCccc-----------CCchhhccEEeeHhHhhhhhCCC
Confidence 678999999999999999998765430 00223567999999999999987
No 72
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.07 E-value=2.4e-05 Score=94.39 Aligned_cols=134 Identities=20% Similarity=0.183 Sum_probs=84.2
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
..+++.|.+++..++..++ +++++|.|||||.+..-.+++.+... ...++||++||...|..+.+.+..... ...
T Consensus 27 ~~ptpiQ~~ai~~ll~g~d---vl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~-~~~ 102 (629)
T PRK11634 27 EKPSPIQAECIPHLLNGRD---VLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSK-HMR 102 (629)
T ss_pred CCCCHHHHHHHHHHHcCCC---EEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHh-hcC
Confidence 3578999999999997643 79999999999998765555544322 345899999999999999888765211 111
Q ss_pred cccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh-hcccCCCCccEEEEEcCCCCC
Q 002849 468 ENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY-AEGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 468 ~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~-~~~~~~~~fd~ViIDEAsQ~~ 545 (874)
...+.-+..... ..... ......++||++|........ ...+....+.+||||||-..+
T Consensus 103 ~i~v~~~~gG~~----~~~q~---------------~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml 162 (629)
T PRK11634 103 GVNVVALYGGQR----YDVQL---------------RALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEML 162 (629)
T ss_pred CceEEEEECCcC----HHHHH---------------HHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHHh
Confidence 112222211110 00000 011135789999987654332 223344578899999994333
No 73
>PRK02362 ski2-like helicase; Provisional
Probab=98.05 E-value=5.1e-05 Score=93.86 Aligned_cols=129 Identities=18% Similarity=0.088 Sum_probs=84.3
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..|++.|.+|+...+... .-++|.+|.|||||.+..-++.+.+. ++.++++++|+.+-|.+..+++...... .
T Consensus 22 ~~l~p~Q~~ai~~~~~~g--~nvlv~APTGSGKTlia~lail~~l~--~~~kal~i~P~raLa~q~~~~~~~~~~~---g 94 (737)
T PRK02362 22 EELYPPQAEAVEAGLLDG--KNLLAAIPTASGKTLIAELAMLKAIA--RGGKALYIVPLRALASEKFEEFERFEEL---G 94 (737)
T ss_pred CcCCHHHHHHHHHHHhCC--CcEEEECCCcchHHHHHHHHHHHHHh--cCCcEEEEeChHHHHHHHHHHHHHhhcC---C
Confidence 468999999998855332 23799999999999987777666664 5679999999999999999988752110 1
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcc-cCCCCccEEEEEcCCCCCh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG-VDRGHFSHIFLDEAGQASE 546 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~-~~~~~fd~ViIDEAsQ~~e 546 (874)
..+..+..... ...+.+..++||++|.-....+.... .....+++|||||+-...+
T Consensus 95 ~~v~~~tGd~~----------------------~~~~~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d 151 (737)
T PRK02362 95 VRVGISTGDYD----------------------SRDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDS 151 (737)
T ss_pred CEEEEEeCCcC----------------------ccccccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCC
Confidence 11111111000 00122456789999976554433321 1124689999999955543
No 74
>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=98.04 E-value=0.00023 Score=90.64 Aligned_cols=128 Identities=17% Similarity=0.144 Sum_probs=75.5
Q ss_pred HHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEe
Q 002849 395 QMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRL 474 (874)
Q Consensus 395 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl 474 (874)
.+..|...+... ..++|.|++||||||-+-..+...- .....+|+++-|-.-||-.+++|+.+..+..+. -.+
T Consensus 71 ~~~~Il~~l~~~--~vvii~g~TGSGKTTqlPq~lle~~-~~~~~~I~~tQPRRlAA~svA~RvA~elg~~lG----~~V 143 (1283)
T TIGR01967 71 KREDIAEAIAEN--QVVIIAGETGSGKTTQLPKICLELG-RGSHGLIGHTQPRRLAARTVAQRIAEELGTPLG----EKV 143 (1283)
T ss_pred HHHHHHHHHHhC--ceEEEeCCCCCCcHHHHHHHHHHcC-CCCCceEecCCccHHHHHHHHHHHHHHhCCCcc----eEE
Confidence 445566666543 4589999999999997765443321 123458999999999999999999874322211 112
Q ss_pred cCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCC-CChhhhHH
Q 002849 475 NAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQ-ASEPESMV 551 (874)
Q Consensus 475 ~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ-~~epe~li 551 (874)
++..|....+. .+.+|+++|....-........-..|++||||||-. ..+.+.+.
T Consensus 144 GY~vR~~~~~s----------------------~~T~I~~~TdGiLLr~l~~d~~L~~~~~IIIDEaHERsL~~D~LL 199 (1283)
T TIGR01967 144 GYKVRFHDQVS----------------------SNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLL 199 (1283)
T ss_pred eeEEcCCcccC----------------------CCceeeeccccHHHHHhhhCcccccCcEEEEcCcchhhccchhHH
Confidence 22211111110 234677777644333222222235799999999952 44444444
No 75
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.03 E-value=2.6e-05 Score=90.21 Aligned_cols=133 Identities=17% Similarity=0.116 Sum_probs=82.6
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--------CCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--------EDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--------~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+++-|.+|+..++..++ +++++|.|||||.+.+-.+.+.+... .+.++||++||...|..+.+.+..
T Consensus 29 ~~pt~iQ~~aip~il~g~d---vi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~ 105 (423)
T PRK04837 29 HNCTPIQALALPLTLAGRD---VAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEP 105 (423)
T ss_pred CCCCHHHHHHHHHHhCCCc---EEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHH
Confidence 3578999999999998754 69999999999998766555544321 235899999999999998776654
Q ss_pred ccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhh-cccCCCCccEEEEE
Q 002849 461 EKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYA-EGVDRGHFSHIFLD 539 (874)
Q Consensus 461 ~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~-~~~~~~~fd~ViID 539 (874)
... .. ...+.-+..... ...... ..-...+|+++|......+.. ..+....+.+||||
T Consensus 106 l~~-~~-~~~v~~~~gg~~----~~~~~~---------------~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lViD 164 (423)
T PRK04837 106 LAQ-AT-GLKLGLAYGGDG----YDKQLK---------------VLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLD 164 (423)
T ss_pred Hhc-cC-CceEEEEECCCC----HHHHHH---------------HhcCCCCEEEECHHHHHHHHHcCCcccccccEEEEe
Confidence 211 00 011111111000 000000 011346899999876644332 23445678999999
Q ss_pred cCCCCC
Q 002849 540 EAGQAS 545 (874)
Q Consensus 540 EAsQ~~ 545 (874)
||-...
T Consensus 165 Ead~l~ 170 (423)
T PRK04837 165 EADRMF 170 (423)
T ss_pred cHHHHh
Confidence 994443
No 76
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.03 E-value=4.4e-05 Score=93.33 Aligned_cols=70 Identities=23% Similarity=0.240 Sum_probs=58.4
Q ss_pred CCCCHHHHHHHHHHhccCC--C-CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKG--A-PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~--~-~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..|++.|++|+..+..... . .-.+++||.|||||.+....+.+.+. .+.++|++|||...|....+++.+
T Consensus 260 f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~--~g~q~lilaPT~~LA~Q~~~~l~~ 332 (681)
T PRK10917 260 FELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE--AGYQAALMAPTEILAEQHYENLKK 332 (681)
T ss_pred CCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH--cCCeEEEEeccHHHHHHHHHHHHH
Confidence 3699999999999986421 1 13699999999999998888877665 467999999999999999999876
No 77
>PRK01172 ski2-like helicase; Provisional
Probab=98.02 E-value=5e-05 Score=93.09 Aligned_cols=126 Identities=17% Similarity=0.184 Sum_probs=82.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..|++.|.+|+..+.+.+ .++|.+|.|||||.+...++.+.+. .+.++++++|+.+-|++..+++.+.... .
T Consensus 21 ~~l~~~Q~~ai~~l~~~~---nvlv~apTGSGKTl~a~lail~~l~--~~~k~v~i~P~raLa~q~~~~~~~l~~~--g- 92 (674)
T PRK01172 21 FELYDHQRMAIEQLRKGE---NVIVSVPTAAGKTLIAYSAIYETFL--AGLKSIYIVPLRSLAMEKYEELSRLRSL--G- 92 (674)
T ss_pred CCCCHHHHHHHHHHhcCC---cEEEECCCCchHHHHHHHHHHHHHH--hCCcEEEEechHHHHHHHHHHHHHHhhc--C-
Confidence 358999999999986653 3799999999999987766666554 3578999999999999998887642110 0
Q ss_pred ccEE-EecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcc-cCCCCccEEEEEcCCCCC
Q 002849 469 NEIF-RLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG-VDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 469 ~~i~-Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~-~~~~~fd~ViIDEAsQ~~ 545 (874)
..+. ..+... .....+..++|+++|.-....+.... .....+++||||||-...
T Consensus 93 ~~v~~~~G~~~-----------------------~~~~~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~ 148 (674)
T PRK01172 93 MRVKISIGDYD-----------------------DPPDFIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIG 148 (674)
T ss_pred CeEEEEeCCCC-----------------------CChhhhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhcc
Confidence 0111 111100 00122356789999986544332221 112468999999995554
No 78
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.96 E-value=3.3e-05 Score=92.56 Aligned_cols=132 Identities=20% Similarity=0.137 Sum_probs=82.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--------CCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--------EDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--------~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+++-|.++|..++..++ +++++|.|||||.+..-.+.+.+... ...++|+++||...|..+.+.+..
T Consensus 30 ~~ptpiQ~~~ip~~l~G~D---vi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~ 106 (572)
T PRK04537 30 TRCTPIQALTLPVALPGGD---VAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVK 106 (572)
T ss_pred CCCCHHHHHHHHHHhCCCC---EEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHH
Confidence 3578999999999998754 69999999999998766665544321 135899999999999999888765
Q ss_pred ccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhc-ccceEEEEechhhhhhhhc--ccCCCCccEEE
Q 002849 461 EKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAAL-VCYRIIISTYMSASLIYAE--GVDRGHFSHIF 537 (874)
Q Consensus 461 ~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L-~~~~VI~~T~~sa~~l~~~--~~~~~~fd~Vi 537 (874)
... .. ...+..+.... ..... .+.+ ..++||++|......+... .+....+++||
T Consensus 107 l~~-~~-~i~v~~l~Gg~------~~~~q--------------~~~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lV 164 (572)
T PRK04537 107 FGA-DL-GLRFALVYGGV------DYDKQ--------------RELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICV 164 (572)
T ss_pred Hhc-cC-CceEEEEECCC------CHHHH--------------HHHHhCCCCEEEECHHHHHHHHHhccccchhheeeeE
Confidence 211 00 01111111110 00000 0111 2468999997655433221 23334678999
Q ss_pred EEcCCCCC
Q 002849 538 LDEAGQAS 545 (874)
Q Consensus 538 IDEAsQ~~ 545 (874)
||||-...
T Consensus 165 iDEAh~ll 172 (572)
T PRK04537 165 LDEADRMF 172 (572)
T ss_pred ecCHHHHh
Confidence 99994443
No 79
>PRK09401 reverse gyrase; Reviewed
Probab=97.96 E-value=4.7e-05 Score=97.29 Aligned_cols=132 Identities=18% Similarity=0.203 Sum_probs=82.8
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..+++.|+.++..++..++ +++.+|.|||||..+.-.+..+. ..+.++|+++||..-|.++.+++...... . .
T Consensus 79 ~~pt~iQ~~~i~~il~g~d---v~i~ApTGsGKT~f~l~~~~~l~--~~g~~alIL~PTreLa~Qi~~~l~~l~~~-~-~ 151 (1176)
T PRK09401 79 SKPWSLQRTWAKRLLLGES---FAIIAPTGVGKTTFGLVMSLYLA--KKGKKSYIIFPTRLLVEQVVEKLEKFGEK-V-G 151 (1176)
T ss_pred CCCcHHHHHHHHHHHCCCc---EEEEcCCCCCHHHHHHHHHHHHH--hcCCeEEEEeccHHHHHHHHHHHHHHhhh-c-C
Confidence 3578999999999997643 69999999999976554333332 25689999999999999999999863211 0 1
Q ss_pred ccEEEecCCCCCCcCCc-hhhhhhccccchhccCCchhhc--ccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCC
Q 002849 469 NEIFRLNAPSRPYEDVN-ADHIRFCFFDEQIFKCPPLAAL--VCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~-~~~~~~~~~~~~~~~~~~~~~L--~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
..+.-+..... ++ .+..+ ..+.+ ..++|+++|......... .+....|++||||||-..
T Consensus 152 ~~~~~~~g~~~----~~~~ek~~------------~~~~l~~~~~~IlV~Tp~rL~~~~~-~l~~~~~~~lVvDEaD~~ 213 (1176)
T PRK09401 152 CGVKILYYHSS----LKKKEKEE------------FLERLKEGDFDILVTTSQFLSKNFD-ELPKKKFDFVFVDDVDAV 213 (1176)
T ss_pred ceEEEEEccCC----cchhHHHH------------HHHHHhcCCCCEEEECHHHHHHHHH-hccccccCEEEEEChHHh
Confidence 11111111000 00 00000 00111 247899999866554332 445557999999999433
No 80
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.95 E-value=4.5e-05 Score=97.29 Aligned_cols=71 Identities=20% Similarity=0.237 Sum_probs=57.0
Q ss_pred CCCCCHHHHHHHHHHhcc--CC-CCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 388 SCNLNEEQMCSIEKILGL--KG-APPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 388 ~~~LN~~Q~~AV~~il~~--~~-~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
...+++.|.+|+..++.. +. ....+++||.|||||.+...++...+. .+.++|+++||..-|..+.+.+.+
T Consensus 598 ~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~--~g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 598 PFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE--NHKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred CCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH--cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 347899999999999874 11 124799999999999988776655554 468999999999999999888865
No 81
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.95 E-value=1.4e-05 Score=86.88 Aligned_cols=55 Identities=24% Similarity=0.233 Sum_probs=47.5
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
...++.|+..++++... ...+-.||+|||||+..+..+.+.+....-.||+++=|
T Consensus 127 ~~kt~~Q~~y~eai~~~---di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP 181 (348)
T COG1702 127 IPKTPGQNMYPEAIEEH---DIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP 181 (348)
T ss_pred EecChhHHHHHHHHHhc---CeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc
Confidence 34699999999999875 44677889999999999999999998777789999888
No 82
>PRK04296 thymidine kinase; Provisional
Probab=97.90 E-value=1.9e-05 Score=81.04 Aligned_cols=35 Identities=26% Similarity=0.458 Sum_probs=28.7
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
..+|.||||+||||.+...+.++.. .+.++++..+
T Consensus 4 i~litG~~GsGKTT~~l~~~~~~~~--~g~~v~i~k~ 38 (190)
T PRK04296 4 LEFIYGAMNSGKSTELLQRAYNYEE--RGMKVLVFKP 38 (190)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHH--cCCeEEEEec
Confidence 4699999999999999988887765 3678888744
No 83
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.89 E-value=9.4e-05 Score=86.94 Aligned_cols=133 Identities=15% Similarity=0.122 Sum_probs=81.7
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcC--------CCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATRE--------DARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~--------~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+++.|.+|+..++..++ +++.+|.|||||.+..-.+.+.+...+ ..++|+++||...|..+.+.+..
T Consensus 108 ~~~~~iQ~~ai~~~~~G~d---vi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~ 184 (475)
T PRK01297 108 PYCTPIQAQVLGYTLAGHD---AIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAA 184 (475)
T ss_pred CCCCHHHHHHHHHHhCCCC---EEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHH
Confidence 3578999999999998644 699999999999876555544443322 45899999999999999888765
Q ss_pred ccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhc-ccCCCCccEEEEE
Q 002849 461 EKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAE-GVDRGHFSHIFLD 539 (874)
Q Consensus 461 ~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~-~~~~~~fd~ViID 539 (874)
.... ....+..+.... +........ .-..++|+++|......+... ......+++||||
T Consensus 185 l~~~--~~~~v~~~~gg~----~~~~~~~~~--------------~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViD 244 (475)
T PRK01297 185 LTKY--TGLNVMTFVGGM----DFDKQLKQL--------------EARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLD 244 (475)
T ss_pred hhcc--CCCEEEEEEccC----ChHHHHHHH--------------hCCCCCEEEECHHHHHHHHHcCCcccccCceEEec
Confidence 2110 011121111110 000000000 013568999998655433322 2233478999999
Q ss_pred cCCCC
Q 002849 540 EAGQA 544 (874)
Q Consensus 540 EAsQ~ 544 (874)
||-..
T Consensus 245 Eah~l 249 (475)
T PRK01297 245 EADRM 249 (475)
T ss_pred hHHHH
Confidence 99443
No 84
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.87 E-value=8.7e-05 Score=79.89 Aligned_cols=120 Identities=18% Similarity=0.224 Sum_probs=89.1
Q ss_pred CCCCCHHHHHHHHHHhcc-CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 388 SCNLNEEQMCSIEKILGL-KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 388 ~~~LN~~Q~~AV~~il~~-~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
...|++-|+.|-...+.. .....+||++..|+|||..+-..|.+.+. .+.+|.+.+|--.-+-++..||.. ..
T Consensus 95 ~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~--~G~~vciASPRvDVclEl~~Rlk~----aF 168 (441)
T COG4098 95 KGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALN--QGGRVCIASPRVDVCLELYPRLKQ----AF 168 (441)
T ss_pred ccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHh--cCCeEEEecCcccchHHHHHHHHH----hh
Confidence 367999999987777642 11245899999999999999999998886 578999999999999999999987 33
Q ss_pred ccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCCh
Q 002849 467 RENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASE 546 (874)
Q Consensus 467 ~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~e 546 (874)
...+|.-+...+.. -.++.+|++|....-.+. ..||++||||. ++..
T Consensus 169 ~~~~I~~Lyg~S~~--------------------------~fr~plvVaTtHQLlrFk------~aFD~liIDEV-DAFP 215 (441)
T COG4098 169 SNCDIDLLYGDSDS--------------------------YFRAPLVVATTHQLLRFK------QAFDLLIIDEV-DAFP 215 (441)
T ss_pred ccCCeeeEecCCch--------------------------hccccEEEEehHHHHHHH------hhccEEEEecc-cccc
Confidence 33444444333211 123678888887665543 37999999999 6654
No 85
>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=97.85 E-value=0.00017 Score=68.98 Aligned_cols=62 Identities=29% Similarity=0.439 Sum_probs=40.3
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLL 455 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~ 455 (874)
...+..++...+......+++|.||||||||+++.+.+.++.. .+..++.+..+..+.....
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~~~~~~~~~~ 64 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFR--PGAPFLYLNASDLLEGLVV 64 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhc--CCCCeEEEehhhhhhhhHH
Confidence 3456666666665433357999999999999877666655542 4566777766555544333
No 86
>PLN03025 replication factor C subunit; Provisional
Probab=97.84 E-value=9e-05 Score=82.45 Aligned_cols=42 Identities=31% Similarity=0.568 Sum_probs=32.8
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
|++..+.++.++.....+.++++||||||||+++-..+..+.
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence 666777777777665556799999999999998877666654
No 87
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.84 E-value=2.6e-06 Score=101.02 Aligned_cols=70 Identities=29% Similarity=0.362 Sum_probs=54.9
Q ss_pred CCCCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 387 ISCNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 387 ~~~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
....||.+|..++..-+.. -=+|.| ||||||.++.+.+++++... +...|++.|.+|.|+|.+.+++...
T Consensus 10 ~~~~l~~~q~~~~~~~~~~----~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~i 81 (853)
T KOG2108|consen 10 LYSLLNKSQRFSALSPLRR----KRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIAI 81 (853)
T ss_pred hhhhhhhhhhhhhcCCCcc----cceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHHH
Confidence 3456788888887653321 125666 99999999999999988754 4457999999999999999999763
No 88
>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=97.83 E-value=0.0005 Score=82.61 Aligned_cols=51 Identities=25% Similarity=0.345 Sum_probs=45.0
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
+..+|.+|=|||||+.+..-+.+.+. .++.+||++++-++-+.+++.|+..
T Consensus 50 ~V~vVRSpMGTGKTtaLi~wLk~~l~-~~~~~VLvVShRrSL~~sL~~rf~~ 100 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTALIRWLKDALK-NPDKSVLVVSHRRSLTKSLAERFKK 100 (824)
T ss_pred CeEEEECCCCCCcHHHHHHHHHHhcc-CCCCeEEEEEhHHHHHHHHHHHHhh
Confidence 56899999999999998887776654 4789999999999999999999975
No 89
>PRK00254 ski2-like helicase; Provisional
Probab=97.81 E-value=0.00026 Score=87.48 Aligned_cols=129 Identities=14% Similarity=0.078 Sum_probs=81.3
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..|++.|.+|+...+... ..++|.+|.|||||.+..-.+.+.+.. .+.++++++|+.+-|++..+++...... .
T Consensus 22 ~~l~~~Q~~ai~~~~~~g--~nvlv~apTGsGKT~~~~l~il~~l~~-~~~~~l~l~P~~aLa~q~~~~~~~~~~~---g 95 (720)
T PRK00254 22 EELYPPQAEALKSGVLEG--KNLVLAIPTASGKTLVAEIVMVNKLLR-EGGKAVYLVPLKALAEEKYREFKDWEKL---G 95 (720)
T ss_pred CCCCHHHHHHHHHHHhCC--CcEEEECCCCcHHHHHHHHHHHHHHHh-cCCeEEEEeChHHHHHHHHHHHHHHhhc---C
Confidence 468999999998744322 237999999999999886555554432 4679999999999999999888642110 1
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcc-cCCCCccEEEEEcCCCCC
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG-VDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~-~~~~~fd~ViIDEAsQ~~ 545 (874)
..+..+.... .. ....+.+++||++|......+.... ......++|||||+-...
T Consensus 96 ~~v~~~~Gd~------~~----------------~~~~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~ 151 (720)
T PRK00254 96 LRVAMTTGDY------DS----------------TDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIG 151 (720)
T ss_pred CEEEEEeCCC------CC----------------chhhhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccC
Confidence 1121111100 00 0122356789999976544332211 112468999999995443
No 90
>PTZ00110 helicase; Provisional
Probab=97.80 E-value=0.00011 Score=87.76 Aligned_cols=133 Identities=18% Similarity=0.134 Sum_probs=80.8
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHH-HHHHHHHh-----cCCCeEEEecCCHHHHHHHHHHHhccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVE-AILQLYAT-----REDARLLVCAPSNSAADHLLEKILGEK 462 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve-~I~~ll~~-----~~~~rILv~ApSNsAaD~l~~rL~~~~ 462 (874)
..+++-|.+|+..++..++ +++.+|.|||||.+.+- ++.++... ..+..+||++||...|..+.+.+....
T Consensus 151 ~~pt~iQ~~aip~~l~G~d---vI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~ 227 (545)
T PTZ00110 151 TEPTPIQVQGWPIALSGRD---MIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFG 227 (545)
T ss_pred CCCCHHHHHHHHHHhcCCC---EEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHh
Confidence 4579999999999998654 69999999999987433 33333321 124579999999999999888877531
Q ss_pred ccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhc-ccCCCCccEEEEEcC
Q 002849 463 AVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAE-GVDRGHFSHIFLDEA 541 (874)
Q Consensus 463 ~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~-~~~~~~fd~ViIDEA 541 (874)
.. ..-......+.. +... . .......++|+++|......+... ......+++||||||
T Consensus 228 ~~-~~i~~~~~~gg~-------~~~~--------q-----~~~l~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDEA 286 (545)
T PTZ00110 228 AS-SKIRNTVAYGGV-------PKRG--------Q-----IYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEA 286 (545)
T ss_pred cc-cCccEEEEeCCC-------CHHH--------H-----HHHHHcCCCEEEECHHHHHHHHHcCCCChhhCcEEEeehH
Confidence 10 000001111110 0000 0 011124568999998655433322 223357899999999
Q ss_pred CCCC
Q 002849 542 GQAS 545 (874)
Q Consensus 542 sQ~~ 545 (874)
-...
T Consensus 287 d~ml 290 (545)
T PTZ00110 287 DRML 290 (545)
T ss_pred Hhhh
Confidence 4444
No 91
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=97.77 E-value=7.3e-05 Score=76.67 Aligned_cols=43 Identities=33% Similarity=0.479 Sum_probs=34.2
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
=|++-.+.+.-+....+.|..+|.|||||||||.+.-++..++
T Consensus 31 GNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LL 73 (333)
T KOG0991|consen 31 GNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL 73 (333)
T ss_pred CCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHh
Confidence 3777777777776666668899999999999999877776666
No 92
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.76 E-value=0.0002 Score=85.05 Aligned_cols=132 Identities=14% Similarity=0.134 Sum_probs=79.3
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHH-HHHH-------hcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAIL-QLYA-------TREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~-~ll~-------~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+++-|.+|+..++..++ +++.+|.|||||.+..-.+. +++. ...+.++|+++||...|..+.+.+..
T Consensus 142 ~~ptpiQ~~aip~il~g~d---viv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~ 218 (518)
T PLN00206 142 EFPTPIQMQAIPAALSGRS---LLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKV 218 (518)
T ss_pred CCCCHHHHHHHHHHhcCCC---EEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHH
Confidence 3579999999999997643 79999999999987544333 3322 11345899999999999887766553
Q ss_pred ccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh-hcccCCCCccEEEEE
Q 002849 461 EKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY-AEGVDRGHFSHIFLD 539 (874)
Q Consensus 461 ~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~-~~~~~~~~fd~ViID 539 (874)
... ...-....-++... ..... ......++||++|......+. ...+.....++|+||
T Consensus 219 l~~-~~~~~~~~~~gG~~-----~~~q~---------------~~l~~~~~IiV~TPgrL~~~l~~~~~~l~~v~~lViD 277 (518)
T PLN00206 219 LGK-GLPFKTALVVGGDA-----MPQQL---------------YRIQQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLD 277 (518)
T ss_pred HhC-CCCceEEEEECCcc-----hHHHH---------------HHhcCCCCEEEECHHHHHHHHHcCCccchheeEEEee
Confidence 211 11100111111110 00000 011135789999976553332 223444578999999
Q ss_pred cCCCC
Q 002849 540 EAGQA 544 (874)
Q Consensus 540 EAsQ~ 544 (874)
||-..
T Consensus 278 Ead~m 282 (518)
T PLN00206 278 EVDCM 282 (518)
T ss_pred cHHHH
Confidence 99443
No 93
>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=97.75 E-value=0.00011 Score=94.21 Aligned_cols=134 Identities=20% Similarity=0.222 Sum_probs=82.1
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVREN 469 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~ 469 (874)
.+.+-|+.++..++..+ .+++.+|.|||||+.+.-++..+.. .+.++|+++||..-|.++.+++...... ...
T Consensus 78 ~p~~iQ~~~i~~il~G~---d~vi~ApTGsGKT~f~l~~~~~l~~--~g~~vLIL~PTreLa~Qi~~~l~~l~~~--~~i 150 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGD---SFAIIAPTGVGKTTFGLAMSLFLAK--KGKRCYIILPTTLLVIQVAEKISSLAEK--AGV 150 (1171)
T ss_pred CCcHHHHHHHHHHhCCC---eEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEeCHHHHHHHHHHHHHHHHHh--cCC
Confidence 57899999999999864 3699999999999865544433332 4679999999999999999998763110 001
Q ss_pred cEEEecCCCCCCcCCchhhhhhccccchhccCCchhhc--ccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCCh
Q 002849 470 EIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAAL--VCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASE 546 (874)
Q Consensus 470 ~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L--~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~e 546 (874)
....++... ..++..-.. . ..+.+ ..++|+++|.......... +.. +|++||||||-..+.
T Consensus 151 ~~~~i~~~~---Gg~~~~e~~------~-----~~~~l~~~~~dIlV~Tp~rL~~~~~~-l~~-~~~~iVvDEaD~~L~ 213 (1171)
T TIGR01054 151 GTVNIGAYH---SRLPTKEKK------E-----FMERIENGDFDILITTTMFLSKNYDE-LGP-KFDFIFVDDVDALLK 213 (1171)
T ss_pred ceeeeeeec---CCCCHHHHH------H-----HHHHHhcCCCCEEEECHHHHHHHHHH-hcC-CCCEEEEeChHhhhh
Confidence 111111000 001110000 0 00111 2478999998765443322 222 899999999955543
No 94
>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=97.75 E-value=9.1e-05 Score=91.21 Aligned_cols=69 Identities=17% Similarity=0.148 Sum_probs=58.8
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..|++.|.+|+..++..++ +++..|.|||||.+..--+.+.+...++.++|+++||.+-|....+++.+
T Consensus 35 ~~p~~~Q~~ai~~il~G~n---vvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~ 103 (742)
T TIGR03817 35 HRPWQHQARAAELAHAGRH---VVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRE 103 (742)
T ss_pred CcCCHHHHHHHHHHHCCCC---EEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHH
Confidence 3689999999999997643 79999999999988766666666555678999999999999999999976
No 95
>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=97.74 E-value=0.00029 Score=86.01 Aligned_cols=154 Identities=18% Similarity=0.184 Sum_probs=93.9
Q ss_pred CCHHHHHHHHHHhcc--C-----CCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccc
Q 002849 391 LNEEQMCSIEKILGL--K-----GAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKA 463 (874)
Q Consensus 391 LN~~Q~~AV~~il~~--~-----~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~ 463 (874)
.-..|..||..++.. . +..-.+|+-|.|||||.|++.++..++...+..+||++++.+.-.+.+.+.+.....
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~ 318 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQK 318 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCC
Confidence 467899999888642 1 112479999999999999999999888766778999999999999999998876211
Q ss_pred cccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhc---ccCCCCcc-EEEEE
Q 002849 464 VEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAE---GVDRGHFS-HIFLD 539 (874)
Q Consensus 464 ~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~---~~~~~~fd-~ViID 539 (874)
....+.. . ...+... + .. ...+|+++|..+....... .+....++ +||||
T Consensus 319 -----~~~~~~~-------s-~~~L~~~------l-~~------~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvD 372 (667)
T TIGR00348 319 -----DCAERIE-------S-IAELKRL------L-EK------DDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFD 372 (667)
T ss_pred -----CCCcccC-------C-HHHHHHH------H-hC------CCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEE
Confidence 0000000 0 0011100 0 00 2367999998877642211 12222233 89999
Q ss_pred cCCCCChhhhHHHhhccccCCcEEEEecCCC
Q 002849 540 EAGQASEPESMVPISSYCKKDTVVVLAGDPM 570 (874)
Q Consensus 540 EAsQ~~epe~li~L~~l~~~~~~vVLvGDp~ 570 (874)
||-..........+....+....+-|.|=|.
T Consensus 373 EaHrs~~~~~~~~l~~~~p~a~~lGfTaTP~ 403 (667)
T TIGR00348 373 EAHRSQYGELAKNLKKALKNASFFGFTGTPI 403 (667)
T ss_pred cCccccchHHHHHHHhhCCCCcEEEEeCCCc
Confidence 9955544443333432333334566666553
No 96
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.73 E-value=0.00012 Score=88.36 Aligned_cols=128 Identities=27% Similarity=0.370 Sum_probs=87.7
Q ss_pred CCCCHHHHHHHHHHhcc-CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 389 CNLNEEQMCSIEKILGL-KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~-~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
..||.+|..|+..+... .+..+++++|.+|+|||-+..++|.+.++ .++.+|++-|--+-...+.+|+...-+
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~--~GkqvLvLVPEI~Ltpq~~~rf~~rFg---- 270 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLA--QGKQVLVLVPEIALTPQLLARFKARFG---- 270 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHH--cCCEEEEEeccccchHHHHHHHHHHhC----
Confidence 57999999999999875 34567999999999999999999999997 468999999988888888888876211
Q ss_pred cccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCC
Q 002849 468 ENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 468 ~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
..+.-+.+. +. +-.++..|. ...-.+++||+.|-++... +-.+-..|||||=...
T Consensus 271 -~~v~vlHS~------Ls-~~er~~~W~--------~~~~G~~~vVIGtRSAlF~------Pf~~LGLIIvDEEHD~ 325 (730)
T COG1198 271 -AKVAVLHSG------LS-PGERYRVWR--------RARRGEARVVIGTRSALFL------PFKNLGLIIVDEEHDS 325 (730)
T ss_pred -CChhhhccc------CC-hHHHHHHHH--------HHhcCCceEEEEechhhcC------chhhccEEEEeccccc
Confidence 111111110 00 001111110 1122678999999765432 3335679999997443
No 97
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.70 E-value=2.6e-05 Score=74.34 Aligned_cols=52 Identities=31% Similarity=0.473 Sum_probs=33.3
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhc---CCCe-EEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATR---EDAR-LLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~---~~~r-ILv~ApSNsAaD~l~~rL~~ 460 (874)
...+|.||||+|||+++...+..+.... ...+ +.+.+++......+.+.+..
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 60 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILE 60 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHH
T ss_pred cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence 4589999999999999988877765421 1233 44555544446677777765
No 98
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.70 E-value=0.00019 Score=92.74 Aligned_cols=126 Identities=12% Similarity=0.129 Sum_probs=83.8
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCC-CChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPG-TGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPG-TGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
.++..|..|+..++..++ ...+|.|..| ||||+++.+.+ .+.. ..+.+|.++||+++|+..|.+... +..
T Consensus 281 ~~~~~q~~Av~~il~dr~-~v~iv~~~GgAtGKtt~l~~l~-~~a~-~~G~~V~~lApt~~a~~~L~e~~g------i~a 351 (1623)
T PRK14712 281 PRTAGYSDAVSVLAQDRP-SLAIVSGQGGAAGQRERVAELV-MMAR-EQGREVQIIAADRRSQMNLKQDER------LSG 351 (1623)
T ss_pred ccchhHHHHHHHHhcCCC-ceEEEEecccccccHHHHHHHH-HHHH-hCCcEEEEEeCCHHHHHHHHhccC------CCc
Confidence 367899999999996543 3455555555 99999998544 4444 378999999999999998875421 111
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe 548 (874)
..+.+... + .. ..... .=+++|||||++....+
T Consensus 352 ~Tva~~~~--------------~----------------------l~---------~~~~~--~~~ilIVDEA~~Ls~rd 384 (1623)
T PRK14712 352 ELITGRRQ--------------L----------------------LE---------GMAFT--PGSTVIVDQGEKLSLKE 384 (1623)
T ss_pred hhhhhhhh--------------h----------------------hc---------ccCCC--CCcEEEEECCCcCCHHH
Confidence 11111000 0 00 00011 22799999999999999
Q ss_pred hHHHhhccccCCcEEEEecCCCcc
Q 002849 549 SMVPISSYCKKDTVVVLAGDPMQL 572 (874)
Q Consensus 549 ~li~L~~l~~~~~~vVLvGDp~QL 572 (874)
++..+......+.+ |++||.+|+
T Consensus 385 m~~Ll~~A~~~gar-VllgD~~Q~ 407 (1623)
T PRK14712 385 TLTLLDGAARHNVQ-VLITDSGQR 407 (1623)
T ss_pred HHHHHHHHHhcCCE-EEEEechhh
Confidence 88877755555678 667899996
No 99
>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=97.69 E-value=0.00012 Score=82.65 Aligned_cols=50 Identities=18% Similarity=0.345 Sum_probs=44.4
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
++|.||.|||||.+....+...+......++++++|+.+.++.+.+++..
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~ 51 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKE 51 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHH
Confidence 68999999999999888777766655678999999999999999999986
No 100
>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=97.68 E-value=0.00013 Score=79.76 Aligned_cols=155 Identities=20% Similarity=0.217 Sum_probs=86.4
Q ss_pred HHHHHHHHHhccC----------CCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCC---eEEEecCCHHHHHHHHHHHhc
Q 002849 394 EQMCSIEKILGLK----------GAPPYLIYGPPGTGKTMTLVEAILQLYATREDA---RLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 394 ~Q~~AV~~il~~~----------~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~---rILv~ApSNsAaD~l~~rL~~ 460 (874)
.|++||...+... ...-.++.-.+|+|||.+++..+..+....+.. ++||++|+ +....-...+.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcc
Confidence 4888888876542 222357777899999999998888777654433 59999999 666666666655
Q ss_pred ccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhh----hhhhcccCCCCccEE
Q 002849 461 EKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSAS----LIYAEGVDRGHFSHI 536 (874)
Q Consensus 461 ~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~----~l~~~~~~~~~fd~V 536 (874)
.... ....++.+.... .... .....+..+.++++|..... ......+...+|+.|
T Consensus 80 ~~~~--~~~~v~~~~~~~-----------------~~~~--~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~v 138 (299)
T PF00176_consen 80 WFDP--DSLRVIIYDGDS-----------------ERRR--LSKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRV 138 (299)
T ss_dssp HSGT---TS-EEEESSSC-----------------HHHH--TTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEE
T ss_pred cccc--cccccccccccc-----------------cccc--ccccccccceeeeccccccccccccccccccccccceeE
Confidence 2100 012333333221 0000 01123466788999987665 111122333569999
Q ss_pred EEEcCCCCChhh--hHHHhhccccCCcEEEEecCCCc
Q 002849 537 FLDEAGQASEPE--SMVPISSYCKKDTVVVLAGDPMQ 571 (874)
Q Consensus 537 iIDEAsQ~~epe--~li~L~~l~~~~~~vVLvGDp~Q 571 (874)
|||||...-... ....+..+. ...+++|.|-|.+
T Consensus 139 IvDEaH~~k~~~s~~~~~l~~l~-~~~~~lLSgTP~~ 174 (299)
T PF00176_consen 139 IVDEAHRLKNKDSKRYKALRKLR-ARYRWLLSGTPIQ 174 (299)
T ss_dssp EETTGGGGTTTTSHHHHHHHCCC-ECEEEEE-SS-SS
T ss_pred EEecccccccccccccccccccc-cceEEeecccccc
Confidence 999996653332 233344333 4458999999988
No 101
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.64 E-value=0.00028 Score=75.03 Aligned_cols=62 Identities=13% Similarity=0.157 Sum_probs=43.3
Q ss_pred CCCcCCCCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 383 TLVPISCNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 383 ~~~~~~~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+..|...-|.....++.........++++|+||||||||+.+.....++.. .+.+++.++.
T Consensus 20 ~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~--~~~~v~y~~~ 81 (235)
T PRK08084 20 TFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQ--RGRAVGYVPL 81 (235)
T ss_pred CccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHh--CCCeEEEEEH
Confidence 3444444467777777777765444457899999999999987766655554 3567777665
No 102
>PRK13766 Hef nuclease; Provisional
Probab=97.63 E-value=0.00044 Score=86.32 Aligned_cols=131 Identities=18% Similarity=0.167 Sum_probs=86.4
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVREN 469 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~ 469 (874)
.+-+.|++++..++.. -.+|..|.|+|||.+.+..+..++. .++.++|+++||...++...+.+....+ ....
T Consensus 15 ~~r~yQ~~~~~~~l~~----n~lv~~ptG~GKT~~a~~~i~~~l~-~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~--~~~~ 87 (773)
T PRK13766 15 EARLYQQLLAATALKK----NTLVVLPTGLGKTAIALLVIAERLH-KKGGKVLILAPTKPLVEQHAEFFRKFLN--IPEE 87 (773)
T ss_pred CccHHHHHHHHHHhcC----CeEEEcCCCccHHHHHHHHHHHHHH-hCCCeEEEEeCcHHHHHHHHHHHHHHhC--CCCc
Confidence 4567899999988875 2699999999999987777776664 4678999999999999888888765211 1111
Q ss_pred cEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhh-hhhcccCCCCccEEEEEcCCCCChh
Q 002849 470 EIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASL-IYAEGVDRGHFSHIFLDEAGQASEP 547 (874)
Q Consensus 470 ~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~-l~~~~~~~~~fd~ViIDEAsQ~~ep 547 (874)
.+..+..... ..- ..+....++|+++|...... +....+....|++||||||-.+...
T Consensus 88 ~v~~~~g~~~------~~~--------------r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~ 146 (773)
T PRK13766 88 KIVVFTGEVS------PEK--------------RAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGN 146 (773)
T ss_pred eEEEEeCCCC------HHH--------------HHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCcccccc
Confidence 2222222110 000 01223457899999765533 2223344567999999999665543
No 103
>PRK09694 helicase Cas3; Provisional
Probab=97.60 E-value=0.00029 Score=87.42 Aligned_cols=69 Identities=17% Similarity=0.216 Sum_probs=56.0
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
...++-|..+..... +.+.++|.+|-|+|||..+..++..++......+|+++.||.+.++.+.+|+.+
T Consensus 285 ~~p~p~Q~~~~~~~~---~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 285 YQPRQLQTLVDALPL---QPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CCChHHHHHHHhhcc---CCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHH
Confidence 457899987743322 225699999999999999888888777665667999999999999999999975
No 104
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.60 E-value=7.8e-05 Score=93.58 Aligned_cols=68 Identities=22% Similarity=0.275 Sum_probs=53.4
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHh-------cCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYAT-------REDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~-------~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.|++-|.+|+..++... -++|.+|.|||||.+..-.+.+.+.. .++.++|+++|+.+.+..+.+++..
T Consensus 32 ~~tpiQ~~Ai~~il~g~---nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 32 TFTPPQRYAIPLIHEGK---NVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CCCHHHHHHHHHHHcCC---CEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 58999999999998764 37999999999999866555543322 1234799999999999998887753
No 105
>PRK14701 reverse gyrase; Provisional
Probab=97.58 E-value=0.00029 Score=92.47 Aligned_cols=131 Identities=18% Similarity=0.198 Sum_probs=79.8
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccc-c
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVR-E 468 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~-~ 468 (874)
.+.+-|++++..++..++ +++++|.|||||....-.+..+. .++.++||++||..-+.++.+++..... ... .
T Consensus 79 ~pt~iQ~~~i~~il~G~d---~li~APTGsGKTl~~~~~al~~~--~~g~~aLVl~PTreLa~Qi~~~l~~l~~-~~~~~ 152 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKS---FSIVAPTGMGKSTFGAFIALFLA--LKGKKCYIILPTTLLVKQTVEKIESFCE-KANLD 152 (1638)
T ss_pred CCCHHHHHHHHHHHcCCC---EEEEEcCCCCHHHHHHHHHHHHH--hcCCeEEEEECHHHHHHHHHHHHHHHHh-hcCCc
Confidence 478999999999998743 69999999999985443332222 2567999999999999999999976311 000 0
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhc--ccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCC
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAAL--VCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L--~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
..+.-++... +..-.. . ..+.+ ..++|+++|.......... +...++++|+||||-..
T Consensus 153 v~v~~~~g~~------s~~e~~------~-----~~~~l~~g~~dILV~TPgrL~~~~~~-l~~~~i~~iVVDEAD~m 212 (1638)
T PRK14701 153 VRLVYYHSNL------RKKEKE------E-----FLERIENGDFDILVTTAQFLARNFPE-MKHLKFDFIFVDDVDAF 212 (1638)
T ss_pred eeEEEEeCCC------CHHHHH------H-----HHHHHhcCCCCEEEECCchhHHhHHH-HhhCCCCEEEEECceec
Confidence 1111111110 000000 0 00111 2478999997644332222 22257999999999433
No 106
>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=97.49 E-value=9.8e-05 Score=95.57 Aligned_cols=51 Identities=18% Similarity=0.369 Sum_probs=45.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.++|.+++|||||++|+.++..++..+ ++.+||++||||+||.+|.+|+.+
T Consensus 12 ~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 12 SAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHH
Confidence 479999999999999999999988653 567999999999999999999875
No 107
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.44 E-value=0.00036 Score=80.57 Aligned_cols=38 Identities=24% Similarity=0.391 Sum_probs=25.5
Q ss_pred HHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 396 MCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 396 ~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
...+...+.....+ .+++.||||||||+++...+..+.
T Consensus 27 v~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 27 IGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence 33455555444434 389999999999998766655544
No 108
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=97.42 E-value=0.00097 Score=74.48 Aligned_cols=43 Identities=28% Similarity=0.549 Sum_probs=33.2
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
+++..+.+...+.....+++++.||||||||+++...+..+..
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~ 62 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYG 62 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 6667777777776655567999999999999988776666553
No 109
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.41 E-value=0.0008 Score=82.60 Aligned_cols=130 Identities=20% Similarity=0.229 Sum_probs=89.5
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVREN 469 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~ 469 (874)
.|.+.|+.||...+-.. .-+||..|-|+|||-+.--+|..-+..+ +.+++.++|+++-|.+.++++.......
T Consensus 31 el~~~qq~av~~~~~~~--~N~li~aPTgsGKTlIA~lai~~~l~~~-~~k~vYivPlkALa~Ek~~~~~~~~~~G---- 103 (766)
T COG1204 31 ELFNPQQEAVEKGLLSD--ENVLISAPTGSGKTLIALLAILSTLLEG-GGKVVYIVPLKALAEEKYEEFSRLEELG---- 103 (766)
T ss_pred HhhHHHHHHhhccccCC--CcEEEEcCCCCchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHhhhHHhcC----
Confidence 67888999998887553 3489999999999998877777766543 6799999999999999999987311111
Q ss_pred cEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcc-cCCCCccEEEEEcCCCCChh
Q 002849 470 EIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG-VDRGHFSHIFLDEAGQASEP 547 (874)
Q Consensus 470 ~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~-~~~~~fd~ViIDEAsQ~~ep 547 (874)
+|+.-...... ...+.+.+++||++|.-....+.... .....++.|||||+-++...
T Consensus 104 --irV~~~TgD~~-------------------~~~~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~ 161 (766)
T COG1204 104 --IRVGISTGDYD-------------------LDDERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDR 161 (766)
T ss_pred --CEEEEecCCcc-------------------cchhhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCc
Confidence 12211111000 01245678899999987665433322 12347899999999666655
No 110
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.41 E-value=0.00048 Score=81.14 Aligned_cols=48 Identities=25% Similarity=0.328 Sum_probs=30.9
Q ss_pred CCccEEEEEcCCCCChhhhHHHhh-cccc--CCcEEEEe-cCCCcccceeecc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPIS-SYCK--KDTVVVLA-GDPMQLGPVIYSR 579 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~-~l~~--~~~~vVLv-GDp~QL~PvI~s~ 579 (874)
++|.++|||||.+.+. +..-.|. .+-. ....+||+ .|+..++|.|.|.
T Consensus 118 ~~~kV~iIDE~~~ls~-~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SR 169 (509)
T PRK14958 118 GRFKVYLIDEVHMLSG-HSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSR 169 (509)
T ss_pred CCcEEEEEEChHhcCH-HHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHH
Confidence 5799999999955554 4444333 3322 23456654 6888998887654
No 111
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=97.37 E-value=0.00067 Score=86.30 Aligned_cols=127 Identities=17% Similarity=0.134 Sum_probs=74.0
Q ss_pred HHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEe
Q 002849 395 QMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRL 474 (874)
Q Consensus 395 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl 474 (874)
.++.|...+... ..++|.|++||||||.+-..+..+ ..+....|.++-|-.-||-.+++|+....+..+. . .+
T Consensus 78 ~r~~Il~ai~~~--~VviI~GeTGSGKTTqlPq~lle~-g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~lG--~--~V 150 (1294)
T PRK11131 78 KKQDILEAIRDH--QVVIVAGETGSGKTTQLPKICLEL-GRGVKGLIGHTQPRRLAARTVANRIAEELETELG--G--CV 150 (1294)
T ss_pred HHHHHHHHHHhC--CeEEEECCCCCCHHHHHHHHHHHc-CCCCCCceeeCCCcHHHHHHHHHHHHHHHhhhhc--c--ee
Confidence 344555555433 458999999999999765433322 1122347888889999999999999873221111 1 11
Q ss_pred cCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCC-CChhhhH
Q 002849 475 NAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQ-ASEPESM 550 (874)
Q Consensus 475 ~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ-~~epe~l 550 (874)
+...+. ++.. -...+|+++|....-........-..|++||||||-. ..+.+.+
T Consensus 151 GY~vrf--------------~~~~--------s~~t~I~v~TpG~LL~~l~~d~~Ls~~~~IIIDEAHERsLn~DfL 205 (1294)
T PRK11131 151 GYKVRF--------------NDQV--------SDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFI 205 (1294)
T ss_pred ceeecC--------------cccc--------CCCCCEEEEChHHHHHHHhcCCccccCcEEEecCccccccccchH
Confidence 211110 0000 1346788888765544333333346899999999942 4444443
No 112
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=97.37 E-value=0.00093 Score=77.56 Aligned_cols=55 Identities=24% Similarity=0.260 Sum_probs=37.3
Q ss_pred CHHHHHHHHHHhccCC-CCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 392 NEEQMCSIEKILGLKG-APPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~-~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
|..-..++..+....+ ..|++|+||||||||+.+.....++.+..++.+++.++.
T Consensus 113 n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 113 NSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred hHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 3333334444443322 347999999999999988777777776667788888764
No 113
>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=97.36 E-value=0.00055 Score=80.37 Aligned_cols=64 Identities=20% Similarity=0.274 Sum_probs=50.3
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+.+.|.+||..++..++ ++|.+|.|||||.+-. +-.+. .+...||++|+.+-+....+++..
T Consensus 10 ~~~r~~Q~~ai~~~l~g~d---vlv~apTGsGKTl~y~--lp~l~---~~~~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 10 SSFRPVQLEVINAVLLGRD---CFVVMPTGGGKSLCYQ--LPALC---SDGITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred CCCCHHHHHHHHHHHcCCC---EEEEcCCCCcHhHHHH--HHHHH---cCCcEEEEecHHHHHHHHHHHHHH
Confidence 4678999999999998753 6999999999996532 22222 346789999999998888888864
No 114
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.35 E-value=0.00061 Score=80.77 Aligned_cols=50 Identities=20% Similarity=0.301 Sum_probs=32.2
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhcccc--CCcEEEEec-CCCcccceeecch
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCK--KDTVVVLAG-DPMQLGPVIYSRE 580 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~vVLvG-Dp~QL~PvI~s~~ 580 (874)
++|.++||||+-+.+....-..|..+-. .+..+||+. |+.+|+|+|.|.-
T Consensus 123 gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRC 175 (700)
T PRK12323 123 GRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRC 175 (700)
T ss_pred CCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHH
Confidence 5799999999966655444333443322 234566665 5788899887753
No 115
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=97.35 E-value=0.00021 Score=91.99 Aligned_cols=52 Identities=29% Similarity=0.343 Sum_probs=44.3
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcC----------CCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATRE----------DARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~----------~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
+..||-+.+|||||.||+.+.+.++-... ..+|||+||||+|+.+|.+|+.+
T Consensus 18 G~~LIEASAGTGKTyTIa~lyLrLlL~~g~~~~~~~~L~~~~ILvvTFT~aAt~Elr~RIr~ 79 (1181)
T PRK10876 18 GERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEEILVVTFTEAATEELRGRIRS 79 (1181)
T ss_pred CCEEEEeCCCCcHHHHHHHHHHHHHccCCccccccCCCChhhEEEEechHHHHHHHHHHHHH
Confidence 35799999999999999999998876321 24899999999999999999854
No 116
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.33 E-value=0.00056 Score=80.70 Aligned_cols=105 Identities=17% Similarity=0.245 Sum_probs=67.8
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhhhhh
Q 002849 412 LIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADHIRF 491 (874)
Q Consensus 412 lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~ 491 (874)
|++||.|+|||.+...++..++. .+.++|+++|+.+-+..+.+++.+..+ ..+..+.... .+. .++
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~--~g~~vLvlvP~i~L~~Q~~~~l~~~f~-----~~v~vlhs~~------~~~-er~ 66 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLA--LGKSVLVLVPEIALTPQMIQRFKYRFG-----SQVAVLHSGL------SDS-EKL 66 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCcHHHHHHHHHHHHHHhC-----CcEEEEECCC------CHH-HHH
Confidence 58999999999999888888775 467899999999999999999986211 1233232211 110 000
Q ss_pred ccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCC
Q 002849 492 CFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 492 ~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
..+.. -.-.+++||++|.+... .+...+++|||||+...
T Consensus 67 ~~~~~--------~~~g~~~IVVGTrsalf------~p~~~l~lIIVDEeh~~ 105 (505)
T TIGR00595 67 QAWRK--------VKNGEILVVIGTRSALF------LPFKNLGLIIVDEEHDS 105 (505)
T ss_pred HHHHH--------HHcCCCCEEECChHHHc------CcccCCCEEEEECCCcc
Confidence 00000 01135789999875432 23457899999998443
No 117
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.30 E-value=0.0012 Score=86.63 Aligned_cols=126 Identities=13% Similarity=0.161 Sum_probs=84.7
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCC-ChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccccc
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGT-GKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENE 470 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGT-GKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~ 470 (874)
+..|.+|+..++.... ...++.|+.|. |+++ ++..+..++.. .+.+|.++|||++|+..|.+... +....
T Consensus 415 ~~~~~~av~~~~q~~~-~~~il~g~~G~aG~g~-~l~~l~~~a~~-~G~~V~glAPt~~a~~~L~~~~g------i~~~T 485 (1747)
T PRK13709 415 TAGYSDAVSVLAQDRP-SLAIVSGQGGAAGQRE-RVAELVMMARE-QGREVQILAADRRSQMNLKQDER------LSGEL 485 (1747)
T ss_pred chhhhHHHHHHhcccC-cEEEEEcCCcchHHHH-HHHHHHHHHHh-CCcEEEEEeCcHHHHHHHHHhcC------CCcce
Confidence 5688999999877543 46789988885 5554 44455555553 78899999999999999876521 11111
Q ss_pred EEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhH
Q 002849 471 IFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESM 550 (874)
Q Consensus 471 i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~l 550 (874)
+.+. .+ . . .......=+++|||||++...-++.
T Consensus 486 va~~---------------~~--l-------------~-----------------~~~~~~~~~ilIVDEAg~lsar~m~ 518 (1747)
T PRK13709 486 ITGR---------------RQ--L-------------Q-----------------EGMAFTPGSTLIVDQAEKLSLKETL 518 (1747)
T ss_pred eehh---------------hh--h-------------c-----------------cccCCCCCcEEEEECCCcCCHHHHH
Confidence 1110 00 0 0 0000112359999999999999988
Q ss_pred HHhhccccCCcEEEEecCCCccc
Q 002849 551 VPISSYCKKDTVVVLAGDPMQLG 573 (874)
Q Consensus 551 i~L~~l~~~~~~vVLvGDp~QL~ 573 (874)
..+...-..+.++||+||.+|++
T Consensus 519 ~Ll~~A~~~~arvVllgd~~Q~a 541 (1747)
T PRK13709 519 TLLDGAARHNVQVLILDSGQRTG 541 (1747)
T ss_pred HHHHHHHHhCCEEEEECCccccc
Confidence 88875555678999999999964
No 118
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=97.27 E-value=9.1e-05 Score=91.35 Aligned_cols=63 Identities=17% Similarity=0.192 Sum_probs=42.8
Q ss_pred CCeEECccccCCCceeeEEEEEeccCCCcCCccccccccccCC-CCCceEeccccccccEEEEEc
Q 002849 726 PDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFLS-NPRRFNVAVTRAISLLIIIGN 789 (874)
Q Consensus 726 ~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~-d~rrlNVAiTRAK~~LiIvGn 789 (874)
..|.+.|+|+.+|.|+++|+|..+....-..... ...-+-+. ..|.+||||||||..|++...
T Consensus 547 ~~V~lmTiH~sKGLEf~~Vfl~gl~eg~~P~~~~-~~~~~~leEERRL~YVAiTRAk~~L~ls~~ 610 (715)
T TIGR01075 547 DAVQLMTLHSAKGLEFPLVFLVGMEEGMFPSQMS-LDEGGRLEEERRLAYVGITRAMQKLTITYA 610 (715)
T ss_pred CcEEEEEeeeccCCcCCEEEEeCCcCCCCCCccc-cCccccHHHHHhHHhhhhhhhhhheEEEec
Confidence 3599999999999999999998764421110000 00001122 346799999999999999753
No 119
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.27 E-value=0.0018 Score=76.78 Aligned_cols=135 Identities=20% Similarity=0.184 Sum_probs=86.9
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHH--hcCCCe-EEEecCCHHHHHHHHHHHhcccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYA--TREDAR-LLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~--~~~~~r-ILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
...++-|..|+-.++..++ .+++++.|||||..-.--+.+.+. ...... .||++||...|..+.+-+......
T Consensus 50 ~~pt~IQ~~~IP~~l~g~D---vi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~- 125 (513)
T COG0513 50 EEPTPIQLAAIPLILAGRD---VLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKN- 125 (513)
T ss_pred CCCCHHHHHHHHHHhCCCC---EEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhh-
Confidence 3468999999999998754 699999999998775554555444 222222 899999999999999888763211
Q ss_pred cccccE-EEecCCCCCCcCCchhhhhhccccchhccCCchhhcc-cceEEEEechhhhhhhhc-ccCCCCccEEEEEcCC
Q 002849 466 VRENEI-FRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALV-CYRIIISTYMSASLIYAE-GVDRGHFSHIFLDEAG 542 (874)
Q Consensus 466 ~~~~~i-~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~-~~~VI~~T~~sa~~l~~~-~~~~~~fd~ViIDEAs 542 (874)
.....+ .-++..+ +... ...|. ..+||++|..-.-.+... .+...+..++++|||-
T Consensus 126 ~~~~~~~~i~GG~~-----~~~q----------------~~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEAD 184 (513)
T COG0513 126 LGGLRVAVVYGGVS-----IRKQ----------------IEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEAD 184 (513)
T ss_pred cCCccEEEEECCCC-----HHHH----------------HHHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEeccHh
Confidence 000111 1111111 0000 11222 388999998765444333 3556689999999998
Q ss_pred CCChhh
Q 002849 543 QASEPE 548 (874)
Q Consensus 543 Q~~epe 548 (874)
+.++.-
T Consensus 185 rmLd~G 190 (513)
T COG0513 185 RMLDMG 190 (513)
T ss_pred hhhcCC
Confidence 777653
No 120
>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=97.26 E-value=0.0019 Score=67.77 Aligned_cols=58 Identities=17% Similarity=0.224 Sum_probs=37.5
Q ss_pred CCCCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 387 ISCNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 387 ~~~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
+...-|..-.++++..+......+++|.||||||||+.+.....+... .+..++.+..
T Consensus 17 ~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~--~~~~~~~i~~ 74 (226)
T TIGR03420 17 FYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEE--RGKSAIYLPL 74 (226)
T ss_pred cCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHh--cCCcEEEEeH
Confidence 333345555666666554444467999999999999988776666543 3345555443
No 121
>PRK06893 DNA replication initiation factor; Validated
Probab=97.25 E-value=0.0019 Score=68.44 Aligned_cols=36 Identities=17% Similarity=0.257 Sum_probs=25.4
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
+.++++||||||||+.+..+..++.+. +.++.++..
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~ 75 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPL 75 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeH
Confidence 346999999999999887777666653 334444443
No 122
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=97.24 E-value=0.0011 Score=73.68 Aligned_cols=58 Identities=24% Similarity=0.333 Sum_probs=36.6
Q ss_pred HHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 397 CSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 397 ~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
..+..++.....+-+|.+|||||||||. +.+|++.. +..+.-+..+.+.+.++.+-+.
T Consensus 37 ~~lrr~v~~~~l~SmIl~GPPG~GKTTl-A~liA~~~----~~~f~~~sAv~~gvkdlr~i~e 94 (436)
T COG2256 37 KPLRRAVEAGHLHSMILWGPPGTGKTTL-ARLIAGTT----NAAFEALSAVTSGVKDLREIIE 94 (436)
T ss_pred chHHHHHhcCCCceeEEECCCCCCHHHH-HHHHHHhh----CCceEEeccccccHHHHHHHHH
Confidence 3445666555556689999999999974 45555432 3455555555555655555544
No 123
>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=97.24 E-value=0.0017 Score=73.53 Aligned_cols=61 Identities=20% Similarity=0.323 Sum_probs=47.5
Q ss_pred HHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 394 EQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 394 ~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.|.+|+..+..... ..++|.+|+|+|||....-.+. . ...+.++++|+++.++...+++.+
T Consensus 1 hQ~~~~~~~~~~~~-~~~~i~apTGsGKT~~~~~~~l---~--~~~~~~~~~P~~aL~~~~~~~~~~ 61 (357)
T TIGR03158 1 HQVATFEALQSKDA-DIIFNTAPTGAGKTLAWLTPLL---H--GENDTIALYPTNALIEDQTEAIKE 61 (357)
T ss_pred CHHHHHHHHHcCCC-CEEEEECCCCCCHHHHHHHHHH---H--cCCCEEEEeChHHHHHHHHHHHHH
Confidence 38899999887542 3478999999999987644333 2 345789999999999999988876
No 124
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=97.23 E-value=0.0011 Score=81.40 Aligned_cols=65 Identities=23% Similarity=0.246 Sum_probs=50.6
Q ss_pred HHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 394 EQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 394 ~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
..+..+..++... +.++|.||+|+||||-+-..+...-. ..+..|.++=|-.-||-.+++|+.+.
T Consensus 53 ~~~~~i~~ai~~~--~vvii~getGsGKTTqlP~~lle~g~-~~~g~I~~tQPRRlAArsvA~RvAee 117 (845)
T COG1643 53 AVRDEILKAIEQN--QVVIIVGETGSGKTTQLPQFLLEEGL-GIAGKIGCTQPRRLAARSVAERVAEE 117 (845)
T ss_pred HHHHHHHHHHHhC--CEEEEeCCCCCChHHHHHHHHHhhhc-ccCCeEEecCchHHHHHHHHHHHHHH
Confidence 4556666666543 55899999999999988776655443 24568999999999999999999874
No 125
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.22 E-value=0.0011 Score=80.38 Aligned_cols=65 Identities=17% Similarity=0.208 Sum_probs=47.9
Q ss_pred HHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHH---------HHH----hcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 393 EEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQ---------LYA----TREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~---------ll~----~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
.-|.+++..++.+ ..++++|+.|||||+.+-..+.. .+. .....+|++++|+..+|.++..++.
T Consensus 167 ~iQ~qil~~i~~g---kdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~ 243 (675)
T PHA02653 167 DVQLKIFEAWISR---KPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLL 243 (675)
T ss_pred HHHHHHHHHHHhC---CCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHH
Confidence 4577778877765 35799999999999876543322 111 1234589999999999999998886
Q ss_pred c
Q 002849 460 G 460 (874)
Q Consensus 460 ~ 460 (874)
+
T Consensus 244 ~ 244 (675)
T PHA02653 244 K 244 (675)
T ss_pred H
Confidence 5
No 126
>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=97.22 E-value=0.00018 Score=72.40 Aligned_cols=48 Identities=29% Similarity=0.329 Sum_probs=31.3
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 412 LIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 412 lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
+|.|+.|.|||+++-.++.+++... ..+|+||||+-.++..+.+.+..
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~-~~~I~vtAP~~~~~~~lf~~~~~ 48 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKG-KIRILVTAPSPENVQTLFEFAEK 48 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS------EEEE-SS--S-HHHHHCC--
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhc-CceEEEecCCHHHHHHHHHHHHh
Confidence 5899999999999988887777543 36899999999999999887754
No 127
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=97.22 E-value=0.00011 Score=89.57 Aligned_cols=62 Identities=13% Similarity=0.067 Sum_probs=43.1
Q ss_pred CCeEECccccCCCceeeEEEEEeccCCCcCCccccccccccCC-CCCceEeccccccccEEEEEc
Q 002849 726 PDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFLS-NPRRFNVAVTRAISLLIIIGN 789 (874)
Q Consensus 726 ~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~-d~rrlNVAiTRAK~~LiIvGn 789 (874)
..|.+.|+|+.+|.|||+|+|..+-...-.... ...-.-+. .+|.|||||||||..|++...
T Consensus 550 ~~V~L~TiH~sKGLEf~~Vfi~gl~eg~~P~~~--~~~~~~leEERRLfYVA~TRAk~~L~Ls~~ 612 (672)
T PRK10919 550 DQVQLMTLHASKGLEFPYVYLVGMEEGLLPHQS--SIDEDNIDEERRLAYVGITRAQKELTFTLC 612 (672)
T ss_pred CcEEEEeeecccCcCCCEEEEeCCcCCCCCCcc--cCCcccHHHHHHHHHHhHhhhhhheEEeeh
Confidence 359999999999999999999876543211000 00001122 256799999999999999864
No 128
>PRK14974 cell division protein FtsY; Provisional
Probab=97.22 E-value=0.0027 Score=70.78 Aligned_cols=45 Identities=27% Similarity=0.347 Sum_probs=31.3
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC-C--HHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP-S--NSAADHLLE 456 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap-S--NsAaD~l~~ 456 (874)
.+++.||||+|||||++.++..+.. .+.+|++++. + ..|.+.+..
T Consensus 142 vi~~~G~~GvGKTTtiakLA~~l~~--~g~~V~li~~Dt~R~~a~eqL~~ 189 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAYYLKK--NGFSVVIAAGDTFRAGAIEQLEE 189 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEecCCcCcHHHHHHHHH
Confidence 4789999999999999988876654 3467765543 2 445555543
No 129
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.21 E-value=0.0017 Score=77.51 Aligned_cols=131 Identities=18% Similarity=0.188 Sum_probs=89.0
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
-.|-..|.+.++-+|.. .+||..|-|+|||.+++..++..++-.+..+|+++||+.--+..-..++... ..+.
T Consensus 61 ~~lR~YQ~eivq~ALgk----Ntii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~---~~~~ 133 (746)
T KOG0354|consen 61 LELRNYQEELVQPALGK----NTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIY---LIPY 133 (746)
T ss_pred ccccHHHHHHhHHhhcC----CeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhc---cCcc
Confidence 46788999999999942 3799999999999999999999998889999999999988887766655431 1111
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcc-cCC-CCccEEEEEcCCCCCh
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG-VDR-GHFSHIFLDEAGQASE 546 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~-~~~-~~fd~ViIDEAsQ~~e 546 (874)
....-++.. .............+|+++|+.....-...+ ... ..|..+|||||-.++-
T Consensus 134 ~~T~~l~~~--------------------~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~k 193 (746)
T KOG0354|consen 134 SVTGQLGDT--------------------VPRSNRGEIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSK 193 (746)
T ss_pred cceeeccCc--------------------cCCCchhhhhcccceEEeChHhhhhhcccccccccceEEEEEEcccccccc
Confidence 111111110 000111133456789999987664332222 222 4699999999966653
No 130
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=97.21 E-value=0.00013 Score=90.31 Aligned_cols=60 Identities=18% Similarity=0.183 Sum_probs=42.9
Q ss_pred CCeEECccccCCCceeeEEEEEeccCCCcCCcccccccc---ccC-CCCCceEeccccccccEEEEEc
Q 002849 726 PDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCL---GFL-SNPRRFNVAVTRAISLLIIIGN 789 (874)
Q Consensus 726 ~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~l---GFl-~d~rrlNVAiTRAK~~LiIvGn 789 (874)
..|.+.|||+.+|.||++|++..+-...- .....+ .-+ .+.|.+||||||||..|++...
T Consensus 548 ~~V~LmTiH~sKGLEf~vVfv~gl~eg~~----P~~~~~~~~~~~eEERRL~YVAiTRAk~~L~ls~~ 611 (726)
T TIGR01073 548 GAVTLMTLHAAKGLEFPVVFLIGMEEGVF----PHSRSLMDEKELEEERRLAYVGITRAEEELYLTHA 611 (726)
T ss_pred CceEEEeeeeccCccCCEEEEeCCcCCCC----CcccccCCchhHHHHHhhHHhhhhhhhheEEEEeh
Confidence 45999999999999999999987643311 101111 112 2456799999999999999865
No 131
>PF13173 AAA_14: AAA domain
Probab=97.21 E-value=0.0017 Score=62.18 Aligned_cols=40 Identities=23% Similarity=0.307 Sum_probs=31.2
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAA 451 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAa 451 (874)
..++|.||.|+||||.+-+.+..+. ++.+++.+.......
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRD 42 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHH
Confidence 4589999999999999888777665 456778777765555
No 132
>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=97.19 E-value=0.00085 Score=72.45 Aligned_cols=40 Identities=18% Similarity=0.164 Sum_probs=26.6
Q ss_pred CHHHHHHHHHHhc--cCCCCCEEEEcCCCCChhHHHHHHHHH
Q 002849 392 NEEQMCSIEKILG--LKGAPPYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 392 N~~Q~~AV~~il~--~~~~~~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
.+.+++|+..... ..+.+.++|.||||+|||+++...+..
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHh
Confidence 5566666665532 122346899999999999887655433
No 133
>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=97.19 E-value=0.0039 Score=65.57 Aligned_cols=56 Identities=25% Similarity=0.350 Sum_probs=40.6
Q ss_pred CCHHHHHHHHHHhccCC--CCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 391 LNEEQMCSIEKILGLKG--APPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~--~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
-|..=..+++.+....+ ..|++|+||+|+|||+.+..+...+.+..++.+|+.++.
T Consensus 15 ~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 15 SNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp TTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH
T ss_pred cHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH
Confidence 46655666776665433 247899999999999987777777776667888887764
No 134
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=97.18 E-value=0.0016 Score=73.88 Aligned_cols=135 Identities=21% Similarity=0.149 Sum_probs=94.3
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccE
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEI 471 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i 471 (874)
-..|...+..++.. -+||.=|-|=|||.+++-.+...+...++ ++|++|||.-.+..=++.+.+. ..+++.++
T Consensus 17 R~YQ~~i~a~al~~----NtLvvlPTGLGKT~IA~~V~~~~l~~~~~-kvlfLAPTKPLV~Qh~~~~~~v--~~ip~~~i 89 (542)
T COG1111 17 RLYQLNIAAKALFK----NTLVVLPTGLGKTFIAAMVIANRLRWFGG-KVLFLAPTKPLVLQHAEFCRKV--TGIPEDEI 89 (542)
T ss_pred HHHHHHHHHHHhhc----CeEEEecCCccHHHHHHHHHHHHHHhcCC-eEEEecCCchHHHHHHHHHHHH--hCCChhhe
Confidence 45788888888864 37999999999999988888877776555 9999999999999888887763 23344455
Q ss_pred EEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhh-hhhcccCCCCccEEEEEcCCCCChhhhH
Q 002849 472 FRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASL-IYAEGVDRGHFSHIFLDEAGQASEPESM 550 (874)
Q Consensus 472 ~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~-l~~~~~~~~~fd~ViIDEAsQ~~epe~l 550 (874)
.-+....+ ++-. ...-...+|+++|.....+ +....+....+++|++|||-.++---+.
T Consensus 90 ~~ltGev~------p~~R--------------~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAY 149 (542)
T COG1111 90 AALTGEVR------PEER--------------EELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAY 149 (542)
T ss_pred eeecCCCC------hHHH--------------HHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchH
Confidence 44443322 1111 1223578899999987653 3333345567999999999888765444
Q ss_pred HHh
Q 002849 551 VPI 553 (874)
Q Consensus 551 i~L 553 (874)
.-+
T Consensus 150 v~V 152 (542)
T COG1111 150 VFV 152 (542)
T ss_pred HHH
Confidence 433
No 135
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.14 E-value=0.004 Score=78.00 Aligned_cols=163 Identities=20% Similarity=0.203 Sum_probs=94.9
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..|-+.|..++..++... .+-+||-=..|.|||......+.+++..+...+|||++|+. -..+=...+.+.-+.
T Consensus 151 ~~l~pHQl~~~~~vl~~~-~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~s-L~~QW~~El~~kF~l---- 224 (956)
T PRK04914 151 ASLIPHQLYIAHEVGRRH-APRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPET-LQHQWLVEMLRRFNL---- 224 (956)
T ss_pred CCCCHHHHHHHHHHhhcc-CCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHH-HHHHHHHHHHHHhCC----
Confidence 468899999998887643 23478888999999998888777777766668999999974 333333333220010
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhh--hhhcccCCCCccEEEEEcCCCCC-
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASL--IYAEGVDRGHFSHIFLDEAGQAS- 545 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~--l~~~~~~~~~fd~ViIDEAsQ~~- 545 (874)
. +.+....+.. .+. .........+++++++...... -....+....||+||||||..+-
T Consensus 225 -~-~~i~~~~~~~--------~~~--------~~~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~ 286 (956)
T PRK04914 225 -R-FSLFDEERYA--------EAQ--------HDADNPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVW 286 (956)
T ss_pred -C-eEEEcCcchh--------hhc--------ccccCccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhcc
Confidence 0 1111111100 000 0000122346788888765432 11123445589999999996653
Q ss_pred ---hhh-hHHHhhccccC-CcEEEEecCCCcccce
Q 002849 546 ---EPE-SMVPISSYCKK-DTVVVLAGDPMQLGPV 575 (874)
Q Consensus 546 ---epe-~li~L~~l~~~-~~~vVLvGDp~QL~Pv 575 (874)
.+. ....+..++.+ ...+.|-|=|.|.++.
T Consensus 287 ~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~ 321 (956)
T PRK04914 287 SEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQE 321 (956)
T ss_pred CCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcH
Confidence 121 12333333322 3479999999997663
No 136
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=97.13 E-value=0.0015 Score=78.43 Aligned_cols=42 Identities=26% Similarity=0.301 Sum_probs=27.4
Q ss_pred HHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHHH
Q 002849 393 EEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
+.-.+++...+.....+. +|++||||+|||+++...++.+..
T Consensus 22 e~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 22 EHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence 333445556665433333 799999999999987666655543
No 137
>COG4889 Predicted helicase [General function prediction only]
Probab=97.13 E-value=0.0021 Score=76.49 Aligned_cols=151 Identities=25% Similarity=0.249 Sum_probs=80.1
Q ss_pred CCCCHHHHHHHHHHhcc---CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 389 CNLNEEQMCSIEKILGL---KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~---~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
..+-+.|+.|+..++.. .+. --||.+ +|||||.|...+.-.+.+ .+||.++||-+..-.-.+-........
T Consensus 160 kk~R~hQq~Aid~a~~~F~~n~R-GkLIMA-cGTGKTfTsLkisEala~----~~iL~LvPSIsLLsQTlrew~~~~~l~ 233 (1518)
T COG4889 160 KKPRPHQQTAIDAAKEGFSDNDR-GKLIMA-CGTGKTFTSLKISEALAA----ARILFLVPSISLLSQTLREWTAQKELD 233 (1518)
T ss_pred CCCChhHHHHHHHHHhhcccccC-CcEEEe-cCCCccchHHHHHHHHhh----hheEeecchHHHHHHHHHHHhhccCcc
Confidence 46789999999998852 111 136666 899999998765554443 899999999877666555554432222
Q ss_pred cccccEEEecCCCCCCcCCchhhhhhccc--cchhcc-CCchhhcccceEEEEechhhhhhhhc-ccCCCCccEEEEEcC
Q 002849 466 VRENEIFRLNAPSRPYEDVNADHIRFCFF--DEQIFK-CPPLAALVCYRIIISTYMSASLIYAE-GVDRGHFSHIFLDEA 541 (874)
Q Consensus 466 ~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~--~~~~~~-~~~~~~L~~~~VI~~T~~sa~~l~~~-~~~~~~fd~ViIDEA 541 (874)
+.+..+..=...+|.-+++...-..+-.. .+.+.. ....+.-..--||+||..++-..... ....+.||.||-|||
T Consensus 234 ~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDliicDEA 313 (1518)
T COG4889 234 FRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLIICDEA 313 (1518)
T ss_pred ceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCccEEEecch
Confidence 22222221111223222222111111000 000100 00011113446899999876543221 122347999999999
Q ss_pred CCCC
Q 002849 542 GQAS 545 (874)
Q Consensus 542 sQ~~ 545 (874)
-..+
T Consensus 314 HRTt 317 (1518)
T COG4889 314 HRTT 317 (1518)
T ss_pred hccc
Confidence 4433
No 138
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=97.12 E-value=0.0018 Score=77.89 Aligned_cols=41 Identities=24% Similarity=0.207 Sum_probs=26.8
Q ss_pred HHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 393 EEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.=.+.+.+.+.....+ .+|++||+|||||+++...++.+.
T Consensus 22 e~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLn 63 (830)
T PRK07003 22 EHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALN 63 (830)
T ss_pred HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 33344555555543323 469999999999998766665554
No 139
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=97.12 E-value=0.00015 Score=89.37 Aligned_cols=60 Identities=18% Similarity=0.255 Sum_probs=42.6
Q ss_pred CCeEECccccCCCceeeEEEEEeccCCCcCCcccccccc---ccCCC-CCceEeccccccccEEEEEc
Q 002849 726 PDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCL---GFLSN-PRRFNVAVTRAISLLIIIGN 789 (874)
Q Consensus 726 ~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~l---GFl~d-~rrlNVAiTRAK~~LiIvGn 789 (874)
..|.+.|+|+.+|.||++|+|..+-...-. ....+ +-+.+ +|.+||||||||..|++...
T Consensus 552 ~~V~LmTiH~AKGLEf~~Vfl~gl~eg~~P----~~~~~~~~~~leEERRL~YVAiTRAk~~L~ls~~ 615 (721)
T PRK11773 552 DAVQLMTLHSAKGLEFPLVFIVGMEEGLFP----SQMSLEEGGRLEEERRLAYVGITRAMQKLTLTYA 615 (721)
T ss_pred CceEEEechhccCCcCCEEEEeCCccCCCC----CccccccchhhHHHHhHHHhhhhhhhheeEEEeh
Confidence 359999999999999999999876443111 00111 11222 46799999999999999754
No 140
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=97.12 E-value=0.0029 Score=73.63 Aligned_cols=38 Identities=29% Similarity=0.376 Sum_probs=29.3
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.|++|+|++|||||+.+..+...+....++.+++.++.
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 57999999999999887655555555557788887665
No 141
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.07 E-value=0.0015 Score=76.30 Aligned_cols=40 Identities=28% Similarity=0.292 Sum_probs=25.8
Q ss_pred HHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHH
Q 002849 393 EEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~l 432 (874)
+.-.+.+...+.....++ ++++||||||||+++-..+..+
T Consensus 20 ~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l 60 (472)
T PRK14962 20 DHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSL 60 (472)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 333455566565444333 7999999999998765544443
No 142
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=97.06 E-value=0.0045 Score=68.46 Aligned_cols=42 Identities=36% Similarity=0.564 Sum_probs=31.3
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++++.+.+...+.....++++++||||||||+++...+.++.
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~ 63 (319)
T PRK00440 22 QEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY 63 (319)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence 456777777777655456799999999999998776555554
No 143
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=97.06 E-value=0.0028 Score=70.18 Aligned_cols=130 Identities=22% Similarity=0.292 Sum_probs=68.8
Q ss_pred CCC-EEEEcCCCCChhHHHHHHHHHHHHhcCCCe-EEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCC-
Q 002849 408 APP-YLIYGPPGTGKTMTLVEAILQLYATREDAR-LLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDV- 484 (874)
Q Consensus 408 ~~~-~lI~GPPGTGKT~Tlve~I~~ll~~~~~~r-ILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v- 484 (874)
.++ +++.||||||||+++...+..+....+... .-.++ ..+..+.. ....+++.++++.....++
T Consensus 23 ~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~-------~~~~~~~~-----~~~~d~lel~~s~~~~~~i~ 90 (325)
T COG0470 23 LPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHC-------RSCKLIPA-----GNHPDFLELNPSDLRKIDII 90 (325)
T ss_pred CCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccch-------hhhhHHhh-----cCCCceEEecccccCCCcch
Confidence 355 999999999999998887777765432211 11111 22222221 1223566666655433221
Q ss_pred chhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHhhccc---cCCc
Q 002849 485 NADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPISSYC---KKDT 561 (874)
Q Consensus 485 ~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l~---~~~~ 561 (874)
.+.+..+.. ........+.+.+|||||| +.+.++..-++.... ...+
T Consensus 91 ~~~vr~~~~-----------------------------~~~~~~~~~~~kviiidea-d~mt~~A~nallk~lEep~~~~ 140 (325)
T COG0470 91 VEQVRELAE-----------------------------FLSESPLEGGYKVVIIDEA-DKLTEDAANALLKTLEEPPKNT 140 (325)
T ss_pred HHHHHHHHH-----------------------------HhccCCCCCCceEEEeCcH-HHHhHHHHHHHHHHhccCCCCe
Confidence 111221110 0001111357999999999 554454444444332 2345
Q ss_pred EEEEecC-CCcccceeecc
Q 002849 562 VVVLAGD-PMQLGPVIYSR 579 (874)
Q Consensus 562 ~vVLvGD-p~QL~PvI~s~ 579 (874)
.++|+-+ +..+.|+|.|.
T Consensus 141 ~~il~~n~~~~il~tI~SR 159 (325)
T COG0470 141 RFILITNDPSKILPTIRSR 159 (325)
T ss_pred EEEEEcCChhhccchhhhc
Confidence 6777666 77777777664
No 144
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=97.03 E-value=0.003 Score=73.74 Aligned_cols=56 Identities=20% Similarity=0.226 Sum_probs=38.3
Q ss_pred CHHHHHHHHHHhccC--CCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCC
Q 002849 392 NEEQMCSIEKILGLK--GAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPS 447 (874)
Q Consensus 392 N~~Q~~AV~~il~~~--~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApS 447 (874)
|..-..|+..+.... ...|++|+||||||||+.+.....++.+..++.+++.++..
T Consensus 130 n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~ 187 (450)
T PRK00149 130 NRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE 187 (450)
T ss_pred cHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence 443444444544432 23579999999999999988777777765567788777553
No 145
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.03 E-value=0.0014 Score=80.21 Aligned_cols=47 Identities=23% Similarity=0.336 Sum_probs=28.8
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhcccc-C--CcEEEEe-cCCCcccceeec
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCK-K--DTVVVLA-GDPMQLGPVIYS 578 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~-~--~~~vVLv-GDp~QL~PvI~s 578 (874)
+++.++||||| +.+..+..-.|..... + ..++|++ .|+..|.|+|.|
T Consensus 118 gk~KViIIDEA-h~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlS 168 (944)
T PRK14949 118 GRFKVYLIDEV-HMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLS 168 (944)
T ss_pred CCcEEEEEech-HhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHH
Confidence 57999999999 5555555555443332 2 2344443 466667777665
No 146
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.02 E-value=0.0017 Score=79.01 Aligned_cols=70 Identities=23% Similarity=0.293 Sum_probs=60.2
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc--------CCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR--------EDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~--------~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..||.-|..+...+..... -+||.+|-|+|||.+..-.|+++++++ .+-+|..+||+.+.|.++.+...+
T Consensus 109 ~~fN~iQS~vFp~aY~Sne--NMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 109 EEFNRIQSEVFPVAYKSNE--NMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred HHHHHHHHHhhhhhhcCCC--CEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhh
Confidence 5689999999999887653 389999999999999888888888742 456999999999999999998876
No 147
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.02 E-value=0.0022 Score=76.43 Aligned_cols=42 Identities=26% Similarity=0.285 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++.-.+.+...+.....++ ||+.||+|||||+++...++.+.
T Consensus 18 q~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 18 QEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3444444555555444444 79999999999998776665554
No 148
>PRK06526 transposase; Provisional
Probab=97.00 E-value=0.0015 Score=70.10 Aligned_cols=52 Identities=21% Similarity=0.381 Sum_probs=35.5
Q ss_pred CCCCHHHHHHHHHH--hccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEe
Q 002849 389 CNLNEEQMCSIEKI--LGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVC 444 (874)
Q Consensus 389 ~~LN~~Q~~AV~~i--l~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ 444 (874)
+.++..|...+... +.. ...+++.||||||||+++..+..++.. .+.++++.
T Consensus 79 ~~~~~~~~~~l~~~~fi~~--~~nlll~Gp~GtGKThLa~al~~~a~~--~g~~v~f~ 132 (254)
T PRK06526 79 RSLKRDTIAHLGTLDFVTG--KENVVFLGPPGTGKTHLAIGLGIRACQ--AGHRVLFA 132 (254)
T ss_pred CCcchHHHHHHhcCchhhc--CceEEEEeCCCCchHHHHHHHHHHHHH--CCCchhhh
Confidence 46777766554322 122 235899999999999999888777765 45677664
No 149
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.00 E-value=0.0022 Score=75.59 Aligned_cols=139 Identities=19% Similarity=0.222 Sum_probs=87.0
Q ss_pred CCCCHHHHHHHHHHhcc--CCCC-CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 389 CNLNEEQMCSIEKILGL--KGAP-PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~--~~~~-~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
-.|+..|++++..|... ++.+ .=||+|-=|||||.+++-++.+.+. .+....+.|||---|..-.+.+.+.
T Consensus 261 F~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~--~G~Q~ALMAPTEILA~QH~~~~~~~---- 334 (677)
T COG1200 261 FKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE--AGYQAALMAPTEILAEQHYESLRKW---- 334 (677)
T ss_pred CCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH--cCCeeEEeccHHHHHHHHHHHHHHH----
Confidence 47999999999999863 2211 1389999999999999888888776 5689999999999998888887762
Q ss_pred cccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCC
Q 002849 466 VRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 466 ~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~ 545 (874)
+.+.. +|+.--.-. +...-.+. ..+.+. =...++|+.|-. +.+..+.-...-+|||||=-..-
T Consensus 335 l~~~~-i~V~lLtG~---~kgk~r~~--~l~~l~-------~G~~~ivVGTHA----LiQd~V~F~~LgLVIiDEQHRFG 397 (677)
T COG1200 335 LEPLG-IRVALLTGS---LKGKARKE--ILEQLA-------SGEIDIVVGTHA----LIQDKVEFHNLGLVIIDEQHRFG 397 (677)
T ss_pred hhhcC-CeEEEeecc---cchhHHHH--HHHHHh-------CCCCCEEEEcch----hhhcceeecceeEEEEecccccc
Confidence 22111 222110000 00000000 000000 145789999943 44555555677899999984444
Q ss_pred hhhhH
Q 002849 546 EPESM 550 (874)
Q Consensus 546 epe~l 550 (874)
..+-+
T Consensus 398 V~QR~ 402 (677)
T COG1200 398 VHQRL 402 (677)
T ss_pred HHHHH
Confidence 44333
No 150
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=97.00 E-value=0.0029 Score=75.54 Aligned_cols=49 Identities=18% Similarity=0.290 Sum_probs=30.4
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccC--CcEEEEe-cCCCcccceeecc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKK--DTVVVLA-GDPMQLGPVIYSR 579 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~--~~~vVLv-GDp~QL~PvI~s~ 579 (874)
+.+.++||||+.+.+....-..|..+-.+ ...+|++ .++..++|+|.|.
T Consensus 118 ~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SR 169 (559)
T PRK05563 118 AKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSR 169 (559)
T ss_pred CCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhH
Confidence 47899999999766665433333333332 2344544 4688888887654
No 151
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=96.99 E-value=0.004 Score=75.80 Aligned_cols=129 Identities=19% Similarity=0.207 Sum_probs=83.8
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVREN 469 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~ 469 (874)
.+-..|+.=.+.++.+.. +-|.+|+|.||||....+.+.+.. .++|++++-||...+.+..+||.+..... . .
T Consensus 82 ~~ws~QR~WakR~~rg~S---FaiiAPTGvGKTTfg~~~sl~~a~--kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~-~-~ 154 (1187)
T COG1110 82 RPWSAQRVWAKRLVRGKS---FAIIAPTGVGKTTFGLLMSLYLAK--KGKRVYIIVPTTTLVRQVYERLKKFAEDA-G-S 154 (1187)
T ss_pred CchHHHHHHHHHHHcCCc---eEEEcCCCCchhHHHHHHHHHHHh--cCCeEEEEecCHHHHHHHHHHHHHHHhhc-C-C
Confidence 445679999999987643 689999999999998876665554 56999999999999999999998742111 1 1
Q ss_pred cEEEecCCCCCCcCCchhhhhhccccchhccCCchhhc--ccceEEEEechhhhhhhhcccCCCCccEEEEEcC
Q 002849 470 EIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAAL--VCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEA 541 (874)
Q Consensus 470 ~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L--~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEA 541 (874)
.-.++...+. ++..-.+- ..+.+ .+++|+++|..-..... ..+...+||.||||.+
T Consensus 155 ~~~~~~yh~~----l~~~ekee-----------~le~i~~gdfdIlitTs~FL~k~~-e~L~~~kFdfifVDDV 212 (1187)
T COG1110 155 LDVLVVYHSA----LPTKEKEE-----------ALERIESGDFDILITTSQFLSKRF-EELSKLKFDFIFVDDV 212 (1187)
T ss_pred cceeeeeccc----cchHHHHH-----------HHHHHhcCCccEEEEeHHHHHhhH-HHhcccCCCEEEEccH
Confidence 1122221111 11111100 01122 36889999976544322 2344468999999998
No 152
>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=96.96 E-value=0.0028 Score=76.68 Aligned_cols=64 Identities=19% Similarity=0.246 Sum_probs=50.5
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+++-|.+|+..++..++ +++..|.|+|||.+.. +-.++ .+...+|++|+.+.+..-.+++..
T Consensus 12 ~~fr~~Q~~~i~~il~g~d---vlv~~PTG~GKTl~y~--lpal~---~~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 12 DDFRPGQEEIISHVLDGRD---VLVVMPTGGGKSLCYQ--VPALL---LKGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred CCCCHHHHHHHHHHHcCCC---EEEEcCCCccHhHHHH--HHHHH---cCCcEEEEcCCHHHHHHHHHHHHH
Confidence 3689999999999998653 6999999999998753 22233 245789999999998888888865
No 153
>PRK08727 hypothetical protein; Validated
Probab=96.94 E-value=0.0054 Score=65.12 Aligned_cols=35 Identities=20% Similarity=0.145 Sum_probs=26.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
.+++|.||+|||||+.+.....++.. .+.++.+++
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~--~~~~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQ--AGRSSAYLP 76 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEEe
Confidence 56999999999999988876666554 345666665
No 154
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=96.94 E-value=0.0036 Score=75.87 Aligned_cols=64 Identities=25% Similarity=0.330 Sum_probs=50.3
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+.+.|++|+..++..++ .++.+|.|+|||.+-. +-.++ ....+||++|+.+-+....+++..
T Consensus 24 ~~~r~~Q~~ai~~il~g~d---vlv~apTGsGKTl~y~--lpal~---~~g~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 24 QQFRPGQQEIIDAVLSGRD---CLVVMPTGGGKSLCYQ--IPALV---LDGLTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred CCCCHHHHHHHHHHHcCCC---EEEEcCCCchHHHHHH--HHHHH---cCCCEEEEecHHHHHHHHHHHHHH
Confidence 3578999999999998643 6999999999997543 22233 245799999999999888888865
No 155
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.92 E-value=0.0026 Score=75.70 Aligned_cols=39 Identities=23% Similarity=0.171 Sum_probs=26.2
Q ss_pred HHHHHHHHhccCCC-CCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 395 QMCSIEKILGLKGA-PPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 395 Q~~AV~~il~~~~~-~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
=.+++...+..... ..+|+.||||||||+++...++.+.
T Consensus 23 vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 23 VSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 34555665654332 3579999999999988766555543
No 156
>PRK05642 DNA replication initiation factor; Validated
Probab=96.90 E-value=0.0073 Score=64.18 Aligned_cols=62 Identities=15% Similarity=0.196 Sum_probs=35.5
Q ss_pred CCCcCCCCCCHHHHHHHHHHhccC---CCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 383 TLVPISCNLNEEQMCSIEKILGLK---GAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 383 ~~~~~~~~LN~~Q~~AV~~il~~~---~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+..|-..-|..-..+++...... ...+++|+||+|||||+.+..+..++.. .+.++++++.
T Consensus 17 tfdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~--~~~~v~y~~~ 81 (234)
T PRK05642 17 TFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQ--RGEPAVYLPL 81 (234)
T ss_pred cccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHh--CCCcEEEeeH
Confidence 344343333544444444432221 1246899999999999987655554443 3466766553
No 157
>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=96.90 E-value=0.0031 Score=72.58 Aligned_cols=38 Identities=26% Similarity=0.426 Sum_probs=30.1
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.|++|+||||||||+.+..+...+.+..++.+++.++.
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 47899999999999998777777766555678887753
No 158
>KOG4284 consensus DEAD box protein [Transcription]
Probab=96.90 E-value=0.0009 Score=77.23 Aligned_cols=133 Identities=18% Similarity=0.201 Sum_probs=88.7
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHH-hcCCCeEEEecCCHHHHHHHHHHHhccccccccc-c
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYA-TREDARLLVCAPSNSAADHLLEKILGEKAVEVRE-N 469 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~-~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~-~ 469 (874)
++-|.+||-.++..- -+||++-.|||||.+-+-++.+-+. ......++|++||..-|-.+.+-+.+... .+.. .
T Consensus 49 tkiQaaAIP~~~~km---DliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~-sf~g~~ 124 (980)
T KOG4284|consen 49 TKIQAAAIPAIFSKM---DLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAP-SFTGAR 124 (980)
T ss_pred Cchhhhhhhhhhccc---ceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcc-cccCcc
Confidence 677999999988753 3699999999999876655555333 22345899999999999888887765211 0000 0
Q ss_pred cEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhc-ccCCCCccEEEEEcCCCCChhh
Q 002849 470 EIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAE-GVDRGHFSHIFLDEAGQASEPE 548 (874)
Q Consensus 470 ~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~-~~~~~~fd~ViIDEAsQ~~epe 548 (874)
.-+-++.. ........|.+.+|++.|..-...+... .+..++.++.++|||-|.++..
T Consensus 125 csvfIGGT---------------------~~~~d~~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~ 183 (980)
T KOG4284|consen 125 CSVFIGGT---------------------AHKLDLIRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTE 183 (980)
T ss_pred eEEEecCc---------------------hhhhhhhhhhhceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhhchh
Confidence 00111111 0111234568889999999876655543 3566799999999999988744
Q ss_pred h
Q 002849 549 S 549 (874)
Q Consensus 549 ~ 549 (874)
.
T Consensus 184 s 184 (980)
T KOG4284|consen 184 S 184 (980)
T ss_pred h
Confidence 3
No 159
>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=96.89 E-value=0.0023 Score=69.08 Aligned_cols=25 Identities=28% Similarity=0.226 Sum_probs=19.1
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.++++.||||||||+++-..+..+.
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~ 67 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFK 67 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHH
Confidence 4589999999999987665554443
No 160
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.88 E-value=0.0049 Score=72.59 Aligned_cols=38 Identities=26% Similarity=0.274 Sum_probs=24.9
Q ss_pred HHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHHH
Q 002849 397 CSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 397 ~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
+.+...+.....+. +|++||||||||+++...+..+..
T Consensus 24 ~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 24 EVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence 33444454443343 599999999999987666555543
No 161
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=96.86 E-value=0.0015 Score=68.65 Aligned_cols=151 Identities=20% Similarity=0.216 Sum_probs=91.8
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecCCHHHHHHHHHHHhcccccccccc
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAPSNSAADHLLEKILGEKAVEVREN 469 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~ 469 (874)
.+.-|++||..|+..++ .+.++-.|||||.|..--++|.+... ....+|+++||...|-.+.+-+...+.. . ..
T Consensus 50 PS~IQqrAi~~IlkGrd---ViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~-m-nv 124 (400)
T KOG0328|consen 50 PSAIQQRAIPQILKGRD---VIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDY-M-NV 124 (400)
T ss_pred chHHHhhhhhhhhcccc---eEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhccc-c-cc
Confidence 36679999999998755 59999999999999877777766543 3468999999999999998888753211 1 11
Q ss_pred cEE-EecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhh-hhhcccCCCCccEEEEEcCCCCChh
Q 002849 470 EIF-RLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASL-IYAEGVDRGHFSHIFLDEAGQASEP 547 (874)
Q Consensus 470 ~i~-Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~-l~~~~~~~~~fd~ViIDEAsQ~~ep 547 (874)
..+ -++.. .+-+++.+.. ....++..|...... .....+.-.....+++|||-..+.-
T Consensus 125 q~hacigg~-----n~gedikkld---------------~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEaDemL~k 184 (400)
T KOG0328|consen 125 QCHACIGGK-----NLGEDIKKLD---------------YGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEADEMLNK 184 (400)
T ss_pred eEEEEecCC-----ccchhhhhhc---------------ccceEeeCCCchHHHHHHhccccccceeEEEeccHHHHHHh
Confidence 111 11111 1122222211 344567777665443 3334455567899999999322211
Q ss_pred ---hhHHHhhccccCCcEEEEe
Q 002849 548 ---ESMVPISSYCKKDTVVVLA 566 (874)
Q Consensus 548 ---e~li~L~~l~~~~~~vVLv 566 (874)
+.+.-+....+++.+++++
T Consensus 185 gfk~Qiydiyr~lp~~~Qvv~~ 206 (400)
T KOG0328|consen 185 GFKEQIYDIYRYLPPGAQVVLV 206 (400)
T ss_pred hHHHHHHHHHHhCCCCceEEEE
Confidence 1111222334556677765
No 162
>PRK13342 recombination factor protein RarA; Reviewed
Probab=96.85 E-value=0.0042 Score=71.74 Aligned_cols=30 Identities=27% Similarity=0.565 Sum_probs=21.5
Q ss_pred HHHHhccCCCCCEEEEcCCCCChhHHHHHH
Q 002849 399 IEKILGLKGAPPYLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 399 V~~il~~~~~~~~lI~GPPGTGKT~Tlve~ 428 (874)
+..++.....+.++++||||||||+++...
T Consensus 27 L~~~i~~~~~~~ilL~GppGtGKTtLA~~i 56 (413)
T PRK13342 27 LRRMIEAGRLSSMILWGPPGTGKTTLARII 56 (413)
T ss_pred HHHHHHcCCCceEEEECCCCCCHHHHHHHH
Confidence 555555444456899999999999875543
No 163
>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=96.82 E-value=0.0053 Score=75.39 Aligned_cols=69 Identities=19% Similarity=0.186 Sum_probs=49.8
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHH-hcCCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYA-TREDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~-~~~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
.++-|.+++..++..+. +.+++.|.|||||.+++.-+..+.. .....++++++|+..-|+.+.+.+.+.
T Consensus 16 PtpiQ~~~i~~il~G~~--~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQP--PESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred CCHHHHHHHHHHHcCCC--cceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHH
Confidence 68999999999997542 4788999999999865421121111 112346777889999999998888763
No 164
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.81 E-value=0.0049 Score=73.16 Aligned_cols=49 Identities=22% Similarity=0.341 Sum_probs=30.1
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhcccc--CCcEEEEec-CCCcccceeecc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCK--KDTVVVLAG-DPMQLGPVIYSR 579 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~vVLvG-Dp~QL~PvI~s~ 579 (874)
+++.++|||||...+....-..|..+-. ....+||+. |+..++++|.|.
T Consensus 118 ~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SR 169 (527)
T PRK14969 118 GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR 169 (527)
T ss_pred CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHH
Confidence 4789999999965554332223333322 234677776 777788776543
No 165
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=96.81 E-value=0.0043 Score=75.13 Aligned_cols=42 Identities=26% Similarity=0.362 Sum_probs=27.6
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.+...+.+...+.....+ .||+.||||||||+++...+..+.
T Consensus 23 Qe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~Ln 65 (725)
T PRK07133 23 QDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALN 65 (725)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence 344455566666543333 479999999999998765554443
No 166
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=96.79 E-value=0.0079 Score=74.00 Aligned_cols=119 Identities=18% Similarity=0.192 Sum_probs=77.5
Q ss_pred HHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH-HhcCCCeEEEecCCHHHHHHHHHHHhcccccccccc--c
Q 002849 394 EQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY-ATREDARLLVCAPSNSAADHLLEKILGEKAVEVREN--E 470 (874)
Q Consensus 394 ~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll-~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~--~ 470 (874)
.++++|..++... ..++|.|-.|+||||-+-..|+.-. ..++..+|+++-|-..||-.+++|+....+...... .
T Consensus 176 ~~r~~Il~~i~~~--qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER~~~~g~~VGY 253 (924)
T KOG0920|consen 176 KMRDTILDAIEEN--QVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKERGESLGEEVGY 253 (924)
T ss_pred HHHHHHHHHHHhC--ceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHhccccCCeeeE
Confidence 4555555555543 5689999999999999988887654 334667999999999999999999987432221110 1
Q ss_pred EEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCC
Q 002849 471 IFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAG 542 (874)
Q Consensus 471 i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAs 542 (874)
-+|+.... -...++..||....-.....+-....++||||||.-
T Consensus 254 qvrl~~~~----------------------------s~~t~L~fcTtGvLLr~L~~~~~l~~vthiivDEVH 297 (924)
T KOG0920|consen 254 QVRLESKR----------------------------SRETRLLFCTTGVLLRRLQSDPTLSGVTHIIVDEVH 297 (924)
T ss_pred EEeeeccc----------------------------CCceeEEEecHHHHHHHhccCcccccCceeeeeeEE
Confidence 11221110 022566777765544333333344579999999983
No 167
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=96.78 E-value=0.0074 Score=60.36 Aligned_cols=42 Identities=19% Similarity=0.336 Sum_probs=28.4
Q ss_pred HHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHHHhcC
Q 002849 396 MCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLYATRE 437 (874)
Q Consensus 396 ~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll~~~~ 437 (874)
.+.+...+.....+. +|+.||+|+||++.+...+..++...+
T Consensus 6 ~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~ 48 (162)
T PF13177_consen 6 IELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNP 48 (162)
T ss_dssp HHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-
T ss_pred HHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCC
Confidence 344455555544454 799999999999999888888776543
No 168
>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=96.76 E-value=0.0046 Score=68.21 Aligned_cols=21 Identities=43% Similarity=0.680 Sum_probs=17.1
Q ss_pred CCEEEEcCCCCChhHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I 429 (874)
++++++||||||||+.+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia 51 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIA 51 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 468999999999998766543
No 169
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=96.76 E-value=0.0015 Score=78.32 Aligned_cols=59 Identities=22% Similarity=0.177 Sum_probs=40.4
Q ss_pred eEECccccCCCceeeEEEEEeccCCCcCCccccccccc------cC-CCCCceEeccccccccEEEE
Q 002849 728 IKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLG------FL-SNPRRFNVAVTRAISLLIII 787 (874)
Q Consensus 728 v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lG------Fl-~d~rrlNVAiTRAK~~LiIv 787 (874)
+..+|+|...|+|+|+|-+...+........+.. .++ +. ..++.+|||+||||..+|.-
T Consensus 675 ~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~-r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~ 740 (853)
T KOG2108|consen 675 VILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFE-RLPSFRVETYNEDEWNFLYVAVTRAKKRLIMC 740 (853)
T ss_pred hhhHHHHhccCcccceeecccCcccccccccchh-hcchhhhhhhhhhhhhheeeeecchhhhcccc
Confidence 6679999999999999999877654321111111 122 11 13578999999999977765
No 170
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.73 E-value=0.0063 Score=68.99 Aligned_cols=37 Identities=27% Similarity=0.281 Sum_probs=24.0
Q ss_pred HHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 397 CSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 397 ~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.+..++.....+ .+++.||||||||+++-..+..+.
T Consensus 26 ~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 26 TAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred HHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 3344444433333 469999999999988766555543
No 171
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.72 E-value=0.0051 Score=73.75 Aligned_cols=48 Identities=23% Similarity=0.331 Sum_probs=30.6
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccc-c--CCcEEEEe-cCCCcccceeecc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYC-K--KDTVVVLA-GDPMQLGPVIYSR 579 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~-~--~~~~vVLv-GDp~QL~PvI~s~ 579 (874)
++|+++||||+-+.+ .+..-.|.... . ....+||+ .|+..++++|.|.
T Consensus 123 g~~KV~IIDEvh~Ls-~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSR 174 (618)
T PRK14951 123 GRFKVFMIDEVHMLT-NTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSR 174 (618)
T ss_pred CCceEEEEEChhhCC-HHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHh
Confidence 579999999995555 44444443332 2 22356554 5899988887654
No 172
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=96.71 E-value=0.005 Score=73.12 Aligned_cols=41 Identities=20% Similarity=0.147 Sum_probs=27.0
Q ss_pred HHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 393 EEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.-.+.+...+.....+ .+|++||||+|||+++...+..+.
T Consensus 22 e~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~ 63 (605)
T PRK05896 22 ELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAIN 63 (605)
T ss_pred HHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 34445555555433223 489999999999998776666554
No 173
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.71 E-value=0.0048 Score=70.08 Aligned_cols=37 Identities=19% Similarity=0.351 Sum_probs=27.8
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHh--cCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYAT--REDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~--~~~~rILv~Ap 446 (874)
.+++.||.|+|||||++.++.++... ..+.+|++++-
T Consensus 176 vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~ 214 (388)
T PRK12723 176 VFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITI 214 (388)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEec
Confidence 57899999999999999988776543 23556665544
No 174
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=96.71 E-value=0.0068 Score=72.84 Aligned_cols=41 Identities=24% Similarity=0.271 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 393 EEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.-.+.+...+.....+ .+|++||||+|||+++...++.+.
T Consensus 22 e~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln 63 (709)
T PRK08691 22 EHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN 63 (709)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence 34445555555544333 479999999999998776666554
No 175
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.70 E-value=0.0049 Score=76.92 Aligned_cols=61 Identities=18% Similarity=0.314 Sum_probs=46.0
Q ss_pred CCCHHHHH---HHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHH
Q 002849 390 NLNEEQMC---SIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLL 455 (874)
Q Consensus 390 ~LN~~Q~~---AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~ 455 (874)
...+.|.+ +|...+... ...+|.+++|||||..-.--+.+ . ..+.+++|.|||..-++.+.
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~--~~~~~eA~tGtGKT~ayllp~l~--~-~~~~~vvI~t~T~~Lq~Ql~ 308 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDG--PASFIEAQTGIGKTYGYLLPLLA--Q-SDQRQIIVSVPTKILQDQIM 308 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCC--CcEEEECCCCCcHHHHHHHHHHH--h-cCCCcEEEEeCcHHHHHHHH
Confidence 34678887 777777653 45899999999999875544332 2 24679999999999999995
No 176
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.69 E-value=0.0079 Score=70.25 Aligned_cols=41 Identities=24% Similarity=0.324 Sum_probs=26.4
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
.+.-.+.+..++.....+ .+|++|||||||||++-..++.+
T Consensus 18 Qe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~L 59 (491)
T PRK14964 18 QDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCL 59 (491)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHH
Confidence 344445555555443333 59999999999999765544444
No 177
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=96.68 E-value=0.0077 Score=66.77 Aligned_cols=40 Identities=25% Similarity=0.230 Sum_probs=27.8
Q ss_pred CCCHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHH
Q 002849 390 NLNEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I 429 (874)
..+++..+.+...+.....+ ++++.||||||||+.+....
T Consensus 24 ~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~ 64 (316)
T PHA02544 24 ILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALC 64 (316)
T ss_pred cCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHH
Confidence 35777777777777544333 46668999999998765443
No 178
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.68 E-value=0.014 Score=65.78 Aligned_cols=135 Identities=17% Similarity=0.161 Sum_probs=86.5
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHh----cCCC--eEEEecCCHHHHHHHHHHHhccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYAT----REDA--RLLVCAPSNSAADHLLEKILGEK 462 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~----~~~~--rILv~ApSNsAaD~l~~rL~~~~ 462 (874)
..++|-|..+|-..+++++ +++.+|-|||||..-+-=+..++.. .++. --||+|||...|-.|.+-+....
T Consensus 27 ~~mTpVQa~tIPlll~~KD---VvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~ 103 (567)
T KOG0345|consen 27 EKMTPVQAATIPLLLKNKD---VVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFL 103 (567)
T ss_pred cccCHHHHhhhHHHhcCCc---eEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHH
Confidence 4579999999999998866 5999999999998876666666521 1344 56999999999988887665421
Q ss_pred ccccccc-cEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhc---ccCCCCccEEEE
Q 002849 463 AVEVREN-EIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAE---GVDRGHFSHIFL 538 (874)
Q Consensus 463 ~~~~~~~-~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~---~~~~~~fd~ViI 538 (874)
. ++.+. ..+-++. ..+.+++..+.. ....|+++|..-...+... .+...+..++++
T Consensus 104 ~-~l~~l~~~l~vGG-----~~v~~Di~~fke--------------e~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVL 163 (567)
T KOG0345|consen 104 E-HLPNLNCELLVGG-----RSVEEDIKTFKE--------------EGPNILVGTPGRLLDILQREAEKLSFRSLEILVL 163 (567)
T ss_pred H-hhhccceEEEecC-----ccHHHHHHHHHH--------------hCCcEEEeCchhHHHHHhchhhhccccccceEEe
Confidence 1 11111 1111222 123333333321 4567999998765544433 233447789999
Q ss_pred EcCCCCCh
Q 002849 539 DEAGQASE 546 (874)
Q Consensus 539 DEAsQ~~e 546 (874)
|||-...+
T Consensus 164 DEADrLld 171 (567)
T KOG0345|consen 164 DEADRLLD 171 (567)
T ss_pred cchHhHhc
Confidence 99954443
No 179
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.67 E-value=0.006 Score=73.63 Aligned_cols=38 Identities=34% Similarity=0.442 Sum_probs=25.3
Q ss_pred HHHHHHHhccCC-CCCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 396 MCSIEKILGLKG-APPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 396 ~~AV~~il~~~~-~~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.+.+...+.... .+.+|+.||||||||+++...+..+.
T Consensus 25 ~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~ 63 (620)
T PRK14948 25 ATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLN 63 (620)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhc
Confidence 334444444322 24589999999999998776666554
No 180
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=96.67 E-value=0.0053 Score=70.08 Aligned_cols=49 Identities=20% Similarity=0.325 Sum_probs=31.2
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccC--Cc-EEEEecCCCcccceeecc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKK--DT-VVVLAGDPMQLGPVIYSR 579 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~--~~-~vVLvGDp~QL~PvI~s~ 579 (874)
+++.++|||||...+....-..|..+-.+ +. -++.+.++..|.|+|.|.
T Consensus 116 ~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSR 167 (394)
T PRK07940 116 GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSR 167 (394)
T ss_pred CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhh
Confidence 57899999999555554443334433222 22 355667888888888764
No 181
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=96.66 E-value=0.0089 Score=69.45 Aligned_cols=36 Identities=28% Similarity=0.568 Sum_probs=27.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.|++|+||||+|||+.+..+...+.. .+.+++.++.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~--~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRE--SGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHH--cCCCEEEeeH
Confidence 57899999999999988766666654 3577877764
No 182
>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=96.66 E-value=0.0062 Score=68.60 Aligned_cols=43 Identities=26% Similarity=0.268 Sum_probs=29.6
Q ss_pred CCHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 391 LNEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
-+++..+.+...+.....+ .+++.||||+|||+++-..+..+.
T Consensus 18 g~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~ 61 (355)
T TIGR02397 18 GQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN 61 (355)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3666677777666543333 479999999999987655555444
No 183
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=96.65 E-value=0.0067 Score=74.31 Aligned_cols=32 Identities=25% Similarity=0.486 Sum_probs=22.7
Q ss_pred HHHHHhccCCCCCEEEEcCCCCChhHHHHHHH
Q 002849 398 SIEKILGLKGAPPYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 398 AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I 429 (874)
.+..++.....+.++++||||||||+++....
T Consensus 42 ~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA 73 (725)
T PRK13341 42 LLRRAIKADRVGSLILYGPPGVGKTTLARIIA 73 (725)
T ss_pred HHHHHHhcCCCceEEEECCCCCCHHHHHHHHH
Confidence 44555555555678999999999998655433
No 184
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=96.63 E-value=0.01 Score=70.60 Aligned_cols=38 Identities=26% Similarity=0.294 Sum_probs=30.6
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+++|+|++|||||+.+..+...+.+..++.+++.++.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 46899999999999988877776665556788887765
No 185
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=96.61 E-value=0.0058 Score=68.13 Aligned_cols=50 Identities=26% Similarity=0.323 Sum_probs=33.4
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccC--CcEEEEe-cCCCcccceeecch
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKK--DTVVVLA-GDPMQLGPVIYSRE 580 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~--~~~vVLv-GDp~QL~PvI~s~~ 580 (874)
+.+.++|||||...++...-..|..+-.+ +..+||+ -++.+|.|+|.|.-
T Consensus 105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc 157 (328)
T PRK05707 105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRC 157 (328)
T ss_pred CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhc
Confidence 47899999999666665555555544433 3455555 45678999988754
No 186
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=96.59 E-value=0.0092 Score=60.51 Aligned_cols=34 Identities=21% Similarity=0.321 Sum_probs=29.5
Q ss_pred ccEEEEEcCCCCChhhhHHHhhccccC-CcEEEEec
Q 002849 533 FSHIFLDEAGQASEPESMVPISSYCKK-DTVVVLAG 567 (874)
Q Consensus 533 fd~ViIDEAsQ~~epe~li~L~~l~~~-~~~vVLvG 567 (874)
.+.|+|||| |...++..-.|..++.. +..|++.|
T Consensus 83 ~~~v~IDEa-QF~~~~~v~~l~~lad~lgi~Vi~~G 117 (201)
T COG1435 83 VDCVLIDEA-QFFDEELVYVLNELADRLGIPVICYG 117 (201)
T ss_pred cCEEEEehh-HhCCHHHHHHHHHHHhhcCCEEEEec
Confidence 789999999 99989888888888877 77788877
No 187
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.59 E-value=0.0069 Score=71.71 Aligned_cols=41 Identities=24% Similarity=0.229 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 393 EEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.-.+.+...+.....+ .+|++||||||||+++...+..+.
T Consensus 22 ~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~ 63 (546)
T PRK14957 22 QHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLN 63 (546)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 33344455555543333 378999999999988766555544
No 188
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.55 E-value=0.0076 Score=74.05 Aligned_cols=65 Identities=17% Similarity=0.113 Sum_probs=51.2
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
|.+.|.+++-.++...+ .+...+.|||||.+.+-.+.+-+. .+..++|+|||.--|....+-+..
T Consensus 93 ~tp~qvQ~I~~i~l~~g---vIAeaqTGeGKTLAf~LP~l~~aL--~g~~v~IVTpTrELA~Qdae~m~~ 157 (970)
T PRK12899 93 MVPYDVQILGAIAMHKG---FITEMQTGEGKTLTAVMPLYLNAL--TGKPVHLVTVNDYLAQRDCEWVGS 157 (970)
T ss_pred CChHHHHHhhhhhcCCC---eEEEeCCCCChHHHHHHHHHHHHh--hcCCeEEEeCCHHHHHHHHHHHHH
Confidence 78999999988887654 699999999999998766654332 234589999999988888776654
No 189
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.54 E-value=0.0052 Score=67.55 Aligned_cols=156 Identities=17% Similarity=0.118 Sum_probs=97.4
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH-HhcCCCeEEEecCCHHHHHHHHHHHhcccc-cccc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY-ATREDARLLVCAPSNSAADHLLEKILGEKA-VEVR 467 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll-~~~~~~rILv~ApSNsAaD~l~~rL~~~~~-~~~~ 467 (874)
..++-|++||-.+++.++ ++..+--|||||-+-+-=|.+-+ .+...-..||+|||...|-.|.+.....+. ..+.
T Consensus 83 ~PT~IQ~~aiP~~L~g~d---vIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr 159 (476)
T KOG0330|consen 83 KPTKIQSEAIPVALGGRD---VIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGLR 159 (476)
T ss_pred CCchhhhhhcchhhCCCc---EEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCeE
Confidence 468889999999998754 59999999999988776666544 433446899999999999999988875311 1110
Q ss_pred cccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh--hcccCCCCccEEEEEcCCCCC
Q 002849 468 ENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY--AEGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 468 ~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~--~~~~~~~~fd~ViIDEAsQ~~ 545 (874)
. ..-++... . ........++.+|+++|........ ..++.-....++++|||-...
T Consensus 160 ~--~~lvGG~~-------m-------------~~q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrlL 217 (476)
T KOG0330|consen 160 V--AVLVGGMD-------M-------------MLQANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLL 217 (476)
T ss_pred E--EEEecCch-------H-------------HHHHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHHhhh
Confidence 0 00111100 0 0001122356788999986554322 244555567899999996655
Q ss_pred hhhhHHHhhc---cccCCcEEEEecCCC
Q 002849 546 EPESMVPISS---YCKKDTVVVLAGDPM 570 (874)
Q Consensus 546 epe~li~L~~---l~~~~~~vVLvGDp~ 570 (874)
+-+...-|.. ...+..+.+|++-.+
T Consensus 218 d~dF~~~ld~ILk~ip~erqt~LfsATM 245 (476)
T KOG0330|consen 218 DMDFEEELDYILKVIPRERQTFLFSATM 245 (476)
T ss_pred hhhhHHHHHHHHHhcCccceEEEEEeec
Confidence 5443333322 223455677766443
No 190
>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=96.54 E-value=0.011 Score=58.64 Aligned_cols=127 Identities=20% Similarity=0.200 Sum_probs=68.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCH----HHHHHHHHHHhcccccccccccEEEecCCCCCCcCC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSN----SAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDV 484 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSN----sAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v 484 (874)
+.+.|.+++|+|||+.+...+.+.+. .+.+|+++=|-. ..=..+.+++. ..+++|.+........-
T Consensus 3 G~i~vy~g~G~Gkt~~a~g~~~ra~~--~g~~v~~vQFlKg~~~~gE~~~l~~l~--------~v~~~~~g~~~~~~~~~ 72 (159)
T cd00561 3 GLIQVYTGNGKGKTTAALGLALRALG--HGYRVGVVQFLKGGWKYGELKALERLP--------NIEIHRMGRGFFWTTEN 72 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEEEeCCCCccCHHHHHHhCC--------CcEEEECCCCCccCCCC
Confidence 45789999999999999888877775 468888854422 22333444442 34566665432211110
Q ss_pred chhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCCh-----hhhHHHhhccccC
Q 002849 485 NADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASE-----PESMVPISSYCKK 559 (874)
Q Consensus 485 ~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~e-----pe~li~L~~l~~~ 559 (874)
.++..... ..........+..+.||.||+||..-+.. .+.++-+......
T Consensus 73 ~~~~~~~a-------------------------~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~ 127 (159)
T cd00561 73 DEEDIAAA-------------------------AEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPE 127 (159)
T ss_pred hHHHHHHH-------------------------HHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCC
Confidence 10000000 00011112223456899999999866632 2233333333444
Q ss_pred CcEEEEecCCC
Q 002849 560 DTVVVLAGDPM 570 (874)
Q Consensus 560 ~~~vVLvGDp~ 570 (874)
...+||.|-..
T Consensus 128 ~~evIlTGr~~ 138 (159)
T cd00561 128 DLELVLTGRNA 138 (159)
T ss_pred CCEEEEECCCC
Confidence 56799988653
No 191
>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=96.54 E-value=0.014 Score=58.69 Aligned_cols=33 Identities=33% Similarity=0.448 Sum_probs=25.9
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
+++.||||+|||+++...+..+.+. +.+++++.
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~--g~~v~~i~ 35 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKK--GKKVLLVA 35 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC--CCcEEEEE
Confidence 5889999999999998887776653 56776554
No 192
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.53 E-value=0.00075 Score=82.76 Aligned_cols=64 Identities=14% Similarity=0.087 Sum_probs=44.3
Q ss_pred CCCeEECccccCCCceeeEEEEEeccCCCcCCccccccccccCCCCCceEeccccccccEEEEEc
Q 002849 725 MPDIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGFLSNPRRFNVAVTRAISLLIIIGN 789 (874)
Q Consensus 725 ~~~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGFl~d~rrlNVAiTRAK~~LiIvGn 789 (874)
...|.++|+|+.+|.|+++|||..+-...-...... ..-..-.++|.|||||||||..|++...
T Consensus 549 ~d~V~l~TiH~sKGLEf~~Vfv~gl~eg~~P~~~~~-~~~~~~EErRlfYVA~TRAk~~L~Ls~~ 612 (664)
T TIGR01074 549 LDQVQLMTLHASKGLEFPYVFIVGMEEGILPHQSSI-EEDNVEEERRLAYVGITRAQKELTFTLC 612 (664)
T ss_pred CCeEEEEeeecccCccCCeEEEeCCcCCCCCCcccc-ccchHHHHHHHHHHhhhhhhheeEEEeh
Confidence 356999999999999999999987654321100000 0001223456799999999999999864
No 193
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=96.51 E-value=0.024 Score=66.65 Aligned_cols=53 Identities=17% Similarity=0.305 Sum_probs=39.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEK 462 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~ 462 (874)
..++|.|.-|+||||-+-.-+...--. ...+|.++-|-.-||-.+++|+....
T Consensus 67 qvlIviGeTGsGKSTQipQyL~eaG~~-~~g~I~~TQPRRVAavslA~RVAeE~ 119 (674)
T KOG0922|consen 67 QVLIVIGETGSGKSTQIPQYLAEAGFA-SSGKIACTQPRRVAAVSLAKRVAEEM 119 (674)
T ss_pred CEEEEEcCCCCCccccHhHHHHhcccc-cCCcEEeecCchHHHHHHHHHHHHHh
Confidence 568999999999999765433221111 23459999999999999999998753
No 194
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.51 E-value=0.01 Score=72.53 Aligned_cols=132 Identities=17% Similarity=0.172 Sum_probs=82.8
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHH-HHHhc-----CCCeEEEecCCHHHHHHHHHHHhccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQ-LYATR-----EDARLLVCAPSNSAADHLLEKILGEK 462 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~-ll~~~-----~~~rILv~ApSNsAaD~l~~rL~~~~ 462 (874)
..+++.|+.|+..|.... .+||.+|-|||||-++.--+.. +++.. .+-.+|.+||=.+-...+..||....
T Consensus 21 ~~~t~~Q~~a~~~i~~G~---nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~ 97 (814)
T COG1201 21 TSLTPPQRYAIPEIHSGE---NVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPL 97 (814)
T ss_pred CCCCHHHHHHHHHHhCCC---ceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHH
Confidence 468999999999999764 3799999999999987665554 44431 12479999999999999999997631
Q ss_pred ccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhc-cc--CCCCccEEEEE
Q 002849 463 AVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAE-GV--DRGHFSHIFLD 539 (874)
Q Consensus 463 ~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~-~~--~~~~fd~ViID 539 (874)
. ...-.--+|-+ +.+..-. ....-+-.+|+++|.-+...+... .+ .-....+||||
T Consensus 98 ~-~~G~~v~vRhG-------DT~~~er-------------~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVD 156 (814)
T COG1201 98 R-ELGIEVAVRHG-------DTPQSEK-------------QKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVD 156 (814)
T ss_pred H-HcCCccceecC-------CCChHHh-------------hhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEEee
Confidence 1 00000011111 1111111 011224568999998776544322 11 11367899999
Q ss_pred cCCCC
Q 002849 540 EAGQA 544 (874)
Q Consensus 540 EAsQ~ 544 (874)
|.-..
T Consensus 157 EiHel 161 (814)
T COG1201 157 EIHAL 161 (814)
T ss_pred hhhhh
Confidence 99443
No 195
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=96.51 E-value=0.031 Score=66.65 Aligned_cols=63 Identities=14% Similarity=0.094 Sum_probs=48.3
Q ss_pred HHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 394 EQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 394 ~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.+..++-..... ...++..|=|.|||+++.-.+..++.. .+.+|+++||.-+.+.++.+++..
T Consensus 176 ~~id~~~~~fkq---~~tV~taPRqrGKS~iVgi~l~~La~f-~Gi~IlvTAH~~~ts~evF~rv~~ 238 (752)
T PHA03333 176 REIDRIFDEYGK---CYTAATVPRRCGKTTIMAIILAAMISF-LEIDIVVQAQRKTMCLTLYNRVET 238 (752)
T ss_pred HHHHHHHHHHhh---cceEEEeccCCCcHHHHHHHHHHHHHh-cCCeEEEECCChhhHHHHHHHHHH
Confidence 344444444444 347999999999999998777766542 468999999999999999998876
No 196
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.50 E-value=0.0082 Score=72.09 Aligned_cols=42 Identities=21% Similarity=0.259 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++...+.+...+.....+ .||++||||||||+++...+..+.
T Consensus 21 q~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~ 63 (576)
T PRK14965 21 QEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN 63 (576)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence 455556666666544333 479999999999998766555544
No 197
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=96.48 E-value=0.011 Score=69.41 Aligned_cols=25 Identities=28% Similarity=0.308 Sum_probs=20.0
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
..++++||||||||+++-..+..+.
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhc
Confidence 3589999999999998766655554
No 198
>PRK04195 replication factor C large subunit; Provisional
Probab=96.46 E-value=0.012 Score=69.30 Aligned_cols=40 Identities=30% Similarity=0.398 Sum_probs=28.2
Q ss_pred CCHHHHHHHHHHhcc----CCCCCEEEEcCCCCChhHHHHHHHH
Q 002849 391 LNEEQMCSIEKILGL----KGAPPYLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 391 LN~~Q~~AV~~il~~----~~~~~~lI~GPPGTGKT~Tlve~I~ 430 (874)
.++.+.+.+...+.. ....+++|+||||||||+++...+.
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~ 61 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALAN 61 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHH
Confidence 477777777776642 1135699999999999987654433
No 199
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.45 E-value=0.0076 Score=64.30 Aligned_cols=62 Identities=19% Similarity=0.304 Sum_probs=42.3
Q ss_pred CHHHHHHHHHHhc---c--CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 392 NEEQMCSIEKILG---L--KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 392 N~~Q~~AV~~il~---~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
++.|+.|+..+.. . ....++++.|+||||||+.+..++.++.+ .+.++++++ +..+..++..
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~--~g~~v~~it-----~~~l~~~l~~ 144 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLL--RGKSVLIIT-----VADIMSAMKD 144 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEE-----HHHHHHHHHH
Confidence 5667777765543 1 11246899999999999999888887776 356787774 3345555543
No 200
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.45 E-value=0.0058 Score=67.73 Aligned_cols=53 Identities=25% Similarity=0.333 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEE
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLV 443 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv 443 (874)
..++++|.+.+..++..+. .++|.||+||||||++..++..+....+..||+.
T Consensus 127 g~~~~~~~~~L~~~v~~~~--nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 127 KIMTEAQASVIRSAIDSRL--NIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCCHHHHHHHHHHHHcCC--eEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 3478899999998887653 4899999999999999776665554334556654
No 201
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=96.44 E-value=0.0098 Score=60.77 Aligned_cols=36 Identities=25% Similarity=0.438 Sum_probs=25.0
Q ss_pred HHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 399 IEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 399 V~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
+...+.....+ .+|+.||||+|||+++...+..++.
T Consensus 4 l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~ 40 (188)
T TIGR00678 4 LKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLC 40 (188)
T ss_pred HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 33444333333 4899999999999988777766664
No 202
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=96.41 E-value=0.018 Score=64.83 Aligned_cols=43 Identities=19% Similarity=0.229 Sum_probs=29.1
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
++.-.+.+..++.....+ .++|.||+|+|||+.+-..+..++.
T Consensus 28 h~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 28 HEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred cHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence 344445555555443333 4899999999999988777766664
No 203
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.40 E-value=0.012 Score=67.92 Aligned_cols=35 Identities=20% Similarity=0.275 Sum_probs=26.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+++.|+||+|||||++.++.++.+ .+.+|++++.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~--~g~kV~lV~~ 131 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKK--KGLKVGLVAA 131 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHH--cCCeEEEecC
Confidence 4688999999999999998877664 3456665544
No 204
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=96.39 E-value=0.016 Score=68.48 Aligned_cols=41 Identities=24% Similarity=0.216 Sum_probs=27.5
Q ss_pred HHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 393 EEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.-.+.+...+.....+ .||++||||||||+++...+..++
T Consensus 20 e~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~ 61 (535)
T PRK08451 20 ESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALV 61 (535)
T ss_pred HHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhc
Confidence 33345555555544344 469999999999998776666655
No 205
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=96.33 E-value=0.075 Score=48.49 Aligned_cols=78 Identities=21% Similarity=0.341 Sum_probs=58.6
Q ss_pred ccCCCCcceeeecCCeEEEEEEEEcCCCccEEEeeecccCCCCceEEEEecCCCCCCCCCCCCccceeeecccceeeCCC
Q 002849 47 FPFIDGKPQSVSVGETAVDSITIKNTTREPVELWSKIYASTPENTFTLSVMKPPSPGSDSGTNRGFVEFFTLEERMIQPG 126 (874)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 126 (874)
-+|+ .+..|++...+|.|.|+|..+..+.=+. .....+.|+++. ....|.||
T Consensus 11 ldFG-----~v~~g~~~~~~v~l~N~s~~p~~f~v~~-~~~~~~~~~v~~----------------------~~g~l~PG 62 (102)
T PF14874_consen 11 LDFG-----NVFVGQTYSRTVTLTNTSSIPARFRVRQ-PESLSSFFSVEP----------------------PSGFLAPG 62 (102)
T ss_pred EEee-----EEccCCEEEEEEEEEECCCCCEEEEEEe-CCcCCCCEEEEC----------------------CCCEECCC
Confidence 4677 8899999999999999999997654322 111233454421 12469999
Q ss_pred CeEEEEEEEe-cCccceEeEEEEEEcc
Q 002849 127 QTLTIWLSCK-PKGIGLHTTVLQFDVE 152 (874)
Q Consensus 127 ~~~~~~~~~~-~~~~g~~~~~~~f~~~ 152 (874)
++.++.|+|. ++..|.+...+.+...
T Consensus 63 ~~~~~~V~~~~~~~~g~~~~~l~i~~e 89 (102)
T PF14874_consen 63 ESVELEVTFSPTKPLGDYEGSLVITTE 89 (102)
T ss_pred CEEEEEEEEEeCCCCceEEEEEEEEEC
Confidence 9999999999 8889999988877654
No 206
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=96.32 E-value=0.018 Score=68.47 Aligned_cols=106 Identities=19% Similarity=0.243 Sum_probs=63.0
Q ss_pred CCcEEEEEEechhhHHHHHHHhHHHhhcccccccCCCCCCccccccCCCCcCCCCCCHHHHHHHHHHhccCC--CCCEEE
Q 002849 336 ENLYNVQFTYNRVNMRRLYQATDAAQELDTEFLFPSESSGIRLIESNTLVPISCNLNEEQMCSIEKILGLKG--APPYLI 413 (874)
Q Consensus 336 ~~~~~v~f~~~r~~~~r~~~Al~~~~~~~~~~lfP~~~~~~~~~~~~~~~~~~~~LN~~Q~~AV~~il~~~~--~~~~lI 413 (874)
...|+-.|.+|-+++-....=|+.+..|....+-|... .++.||...++++--.+ +..+- ...++|
T Consensus 9 ~~~~~~~f~LNmTS~~kI~~IV~rI~~Ls~~~~~~~~~--------P~~~WF~~~~dp~~p~~----~~~p~LPFs~~~i 76 (828)
T PHA03311 9 MERFSDEFILNMTSMAKIRPIVDRIRSLSERRVSPADV--------PPLSWFRSEFDPETPLD----LPPPFLPFSVYLI 76 (828)
T ss_pred cccCCcceEEeccchhhhHHHHHHHHHHHhcccCCccC--------CChHHHHhhcCCCCccc----cCcCcCCeEEEEE
Confidence 34567778888777766666666665554333322111 12334433332211000 00011 123799
Q ss_pred EcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 414 YGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 414 ~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.|-+||||||.|...... -+.+|+++|..||.++-.+|..
T Consensus 77 tG~AGsGKst~i~~l~~~-------l~cvitg~T~vAAqN~~~~L~~ 116 (828)
T PHA03311 77 TGTAGAGKSTSIQTLNEN-------LDCVITGATRVAAQNLSAKLSR 116 (828)
T ss_pred ecCCCCChHHHHHHHHHh-------cCEEEEcchHHHHHhhhccccc
Confidence 999999999976543332 2788999999999999988874
No 207
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=96.32 E-value=0.023 Score=64.32 Aligned_cols=43 Identities=23% Similarity=0.217 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHHHh
Q 002849 393 EEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLYAT 435 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll~~ 435 (874)
+.-.+.+...+.....++ +|+.||+|+||++++...+..++-.
T Consensus 25 ~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~ 68 (365)
T PRK07471 25 AAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLAT 68 (365)
T ss_pred HHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCC
Confidence 334445555565444444 8999999999999988777777653
No 208
>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=96.30 E-value=0.0021 Score=60.52 Aligned_cols=46 Identities=24% Similarity=0.297 Sum_probs=30.9
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLE 456 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~ 456 (874)
..++|.||||||||+++...+.++... ...++.++.+.........
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~ 48 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPP--GGGVIYIDGEDILEEVLDQ 48 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCC--CCCEEEECCEEccccCHHH
Confidence 358999999999999887766554431 1357777776555444443
No 209
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.29 E-value=0.012 Score=70.18 Aligned_cols=42 Identities=26% Similarity=0.285 Sum_probs=27.5
Q ss_pred CHHHHHHHHHHhccCC-CCCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKG-APPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~-~~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++.=.+.+..++.... .+.+|++||||||||+++...++.+.
T Consensus 21 Qe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~ 63 (624)
T PRK14959 21 QETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALN 63 (624)
T ss_pred CHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhcc
Confidence 3333455555555433 34578899999999998766665554
No 210
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=96.25 E-value=0.028 Score=63.86 Aligned_cols=59 Identities=22% Similarity=0.258 Sum_probs=42.1
Q ss_pred CHHHHHHHHHHhc-cC--CCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHH
Q 002849 392 NEEQMCSIEKILG-LK--GAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSA 450 (874)
Q Consensus 392 N~~Q~~AV~~il~-~~--~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsA 450 (874)
+..+..|+...+. .. ...|++|+||.|.|||+.+-.+..+..+.+++.+|+.++..+-.
T Consensus 94 ~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~ 155 (408)
T COG0593 94 SNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFT 155 (408)
T ss_pred chHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHH
Confidence 4444444433333 22 25789999999999999988888888887888899887765443
No 211
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.22 E-value=0.022 Score=72.25 Aligned_cols=64 Identities=20% Similarity=0.223 Sum_probs=46.0
Q ss_pred CCHHHHH---HHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHH
Q 002849 391 LNEEQMC---SIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEK 457 (874)
Q Consensus 391 LN~~Q~~---AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~r 457 (874)
.-+.|.+ +|...+... ...+|.+|.|||||..-.-.+..... ..+.+|+|.|+|..-.+.|..+
T Consensus 258 ~R~~Q~~m~~~v~~~l~~~--~~~~iEA~TGtGKTlaYLlpa~~~a~-~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 258 KREGQQEMMKEVYTALRDS--EHALIEAGTGTGKSLAYLLPAAYFAK-KKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CCHHHHHHHHHHHHHHhcC--CCEEEECCCCCchhHHHHHHHHHHhh-ccCCeEEEEcCCHHHHHHHHHh
Confidence 3567877 666666644 45899999999999764332222222 3578999999999999998765
No 212
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=96.21 E-value=0.033 Score=56.87 Aligned_cols=38 Identities=13% Similarity=0.117 Sum_probs=31.5
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSN 448 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSN 448 (874)
+.++|.+++|+|||+.+...+.+.+. .+.+|+++=|-.
T Consensus 23 g~v~v~~g~GkGKtt~a~g~a~ra~g--~G~~V~ivQFlK 60 (191)
T PRK05986 23 GLLIVHTGNGKGKSTAAFGMALRAVG--HGKKVGVVQFIK 60 (191)
T ss_pred CeEEEECCCCCChHHHHHHHHHHHHH--CCCeEEEEEEec
Confidence 56899999999999999888887775 568899887733
No 213
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=96.20 E-value=0.0074 Score=61.18 Aligned_cols=47 Identities=26% Similarity=0.319 Sum_probs=36.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
++|.||||||||+.....+...++ .+.++++.+... .++.+.+++..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~--~g~~v~~~s~e~-~~~~~~~~~~~ 48 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA--RGEPGLYVTLEE-SPEELIENAES 48 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH--CCCcEEEEECCC-CHHHHHHHHHH
Confidence 689999999999999888887775 467888888754 45566666654
No 214
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=96.20 E-value=0.025 Score=62.79 Aligned_cols=50 Identities=18% Similarity=0.200 Sum_probs=36.0
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccC--CcEEEEecC-CCcccceeecch
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKK--DTVVVLAGD-PMQLGPVIYSRE 580 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~--~~~vVLvGD-p~QL~PvI~s~~ 580 (874)
+.+.++|||+|-..++...-..|..+-.+ ++.+||+.+ +.+|.|+|.|.-
T Consensus 112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRC 164 (319)
T PRK08769 112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRC 164 (319)
T ss_pred CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhh
Confidence 57899999999666665555555544443 457888887 788999988753
No 215
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=96.19 E-value=0.0067 Score=72.20 Aligned_cols=61 Identities=36% Similarity=0.345 Sum_probs=43.4
Q ss_pred CCCCHHHHHHHHHHh----ccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHH
Q 002849 389 CNLNEEQMCSIEKIL----GLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADH 453 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il----~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~ 453 (874)
..||++|+.....++ +..+ +.+. .|.+|||||+..-..+..+-. . +..++.+|.|..|+-.
T Consensus 116 ~~l~~eqk~v~d~~~~~v~~~~g-~~ff-~g~~gtgKt~l~~t~~~~~~~-~-g~~~~~v~~s~ia~~~ 180 (540)
T KOG0987|consen 116 KKLTPEQKRVYDAILEAVENNLG-GVFF-YGFGGTGKTYLLKTLIAALRS-R-GKIVLNVASSGIAALL 180 (540)
T ss_pred hhcCHHHHHHHHHHHHHHhcccc-ceee-eccCCccceeeHHHHHHHHhc-C-CceEEEeeecchhhhh
Confidence 568999997776333 3332 3334 899999999988776665554 3 6778888888888743
No 216
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=96.18 E-value=0.026 Score=70.55 Aligned_cols=134 Identities=16% Similarity=0.120 Sum_probs=87.9
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..|=..|.+|.+.+.+. .+++|.-|.|||||-+-.-.|...+...+..+-|++-|||+-|..=.+|+.+........
T Consensus 69 ~~lY~HQ~~A~~~~~~G---~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~ 145 (851)
T COG1205 69 ERLYSHQVDALRLIREG---RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPGK 145 (851)
T ss_pred ccccHHHHHHHHHHHCC---CCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCCc
Confidence 34888999999999876 358999999999999877777776666678899999999999999999998742211112
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcc-----cCCCCccEEEEEcCCC
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG-----VDRGHFSHIFLDEAGQ 543 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~-----~~~~~fd~ViIDEAsQ 543 (874)
..+.++..... +.-.+ .+ .-...+|++++........... +...+-.+|+|||+ +
T Consensus 146 v~~~~y~Gdt~------~~~r~------~~-------~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDEl-H 205 (851)
T COG1205 146 VTFGRYTGDTP------PEERR------AI-------IRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDEL-H 205 (851)
T ss_pred ceeeeecCCCC------hHHHH------HH-------HhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecc-e
Confidence 22333322211 11110 01 1246788888887655422111 11224789999998 5
Q ss_pred CC
Q 002849 544 AS 545 (874)
Q Consensus 544 ~~ 545 (874)
..
T Consensus 206 tY 207 (851)
T COG1205 206 TY 207 (851)
T ss_pred ec
Confidence 44
No 217
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.18 E-value=0.0097 Score=66.06 Aligned_cols=55 Identities=18% Similarity=0.237 Sum_probs=40.8
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.++++|.+.+..++..+ ..++|.||+||||||++..++..+....+..||+++-.
T Consensus 132 ~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd 186 (319)
T PRK13894 132 IMTAAQREAIIAAVRAH--RNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIED 186 (319)
T ss_pred CCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcC
Confidence 46888999998887754 34899999999999888776665543345567766444
No 218
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=96.16 E-value=0.017 Score=68.92 Aligned_cols=42 Identities=19% Similarity=0.271 Sum_probs=28.2
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++.-.+.+...+.....+ .||+.||||+|||+++-..+..+.
T Consensus 21 qe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~ 63 (563)
T PRK06647 21 QDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLN 63 (563)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence 444455566666544334 389999999999998766555544
No 219
>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=96.15 E-value=0.025 Score=69.00 Aligned_cols=66 Identities=14% Similarity=0.085 Sum_probs=47.0
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.+-+.|.+++.......+ .++.-+.|||||.|.+-.+.... ..+..++|+|||..-|....+.+..
T Consensus 68 glrpydVQlig~l~l~~G---~Iaem~TGeGKTLta~Lpa~l~a--L~g~~V~VVTpn~yLA~Rdae~m~~ 133 (762)
T TIGR03714 68 GMFPYDVQVLGAIVLHQG---NIAEMKTGEGKTLTATMPLYLNA--LTGKGAMLVTTNDYLAKRDAEEMGP 133 (762)
T ss_pred CCCccHHHHHHHHHhcCC---ceeEecCCcchHHHHHHHHHHHh--hcCCceEEeCCCHHHHHHHHHHHHH
Confidence 345666666666654444 49999999999999776543222 3456899999999888877776643
No 220
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.10 E-value=0.03 Score=70.81 Aligned_cols=159 Identities=15% Similarity=0.256 Sum_probs=93.4
Q ss_pred CCCCHHHHHHHHHHhcc--CCCCCEEEEcCCCCChhHHHHHHHHHHHHh-cCCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 389 CNLNEEQMCSIEKILGL--KGAPPYLIYGPPGTGKTMTLVEAILQLYAT-REDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~-~~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
..|-+.|.+++...+.. .+ .-.|+-=..|.|||.+++..+..+... ....++||++|... ..+-.+-+.+ .
T Consensus 168 ~~Lr~YQleGlnWLi~l~~~g-~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~Sl-L~nW~~Ei~k----w 241 (1033)
T PLN03142 168 GKMRDYQLAGLNWLIRLYENG-INGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKST-LGNWMNEIRR----F 241 (1033)
T ss_pred cchHHHHHHHHHHHHHHHhcC-CCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHH-HHHHHHHHHH----H
Confidence 46889999999988642 11 124666679999999988877766543 23468999999644 4455544543 1
Q ss_pred cccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCC
Q 002849 466 VRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 466 ~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~ 545 (874)
.+...++.+....... .... .... ....+.|+++|....... ...+....|++||||||..+-
T Consensus 242 ~p~l~v~~~~G~~~eR----~~~~------~~~~------~~~~~dVvITSYe~l~~e-~~~L~k~~W~~VIvDEAHrIK 304 (1033)
T PLN03142 242 CPVLRAVKFHGNPEER----AHQR------EELL------VAGKFDVCVTSFEMAIKE-KTALKRFSWRYIIIDEAHRIK 304 (1033)
T ss_pred CCCCceEEEeCCHHHH----HHHH------HHHh------cccCCCcceecHHHHHHH-HHHhccCCCCEEEEcCccccC
Confidence 1222233222111000 0000 0000 013567888887665432 233445579999999997776
Q ss_pred hhhhHH--HhhccccCCcEEEEecCCCc
Q 002849 546 EPESMV--PISSYCKKDTVVVLAGDPMQ 571 (874)
Q Consensus 546 epe~li--~L~~l~~~~~~vVLvGDp~Q 571 (874)
.+.+.. .+..+. ...+++|.|=|-|
T Consensus 305 N~~Sklskalr~L~-a~~RLLLTGTPlq 331 (1033)
T PLN03142 305 NENSLLSKTMRLFS-TNYRLLITGTPLQ 331 (1033)
T ss_pred CHHHHHHHHHHHhh-cCcEEEEecCCCC
Confidence 665433 233232 3457999999988
No 221
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.06 E-value=0.02 Score=66.81 Aligned_cols=57 Identities=21% Similarity=0.304 Sum_probs=41.4
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
...+|.|-+||||||-|-.-+...=....+.+|-++-|-..||..++.|+.+..++.
T Consensus 281 QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~EMgvk 337 (902)
T KOG0923|consen 281 QVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEEMGVK 337 (902)
T ss_pred cEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHHhCcc
Confidence 568999999999999765422221112245569999999999999999998754443
No 222
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=96.04 E-value=0.024 Score=63.36 Aligned_cols=49 Identities=16% Similarity=0.192 Sum_probs=32.9
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhcccc--CCcEEEEec-CCCcccceeecc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCK--KDTVVVLAG-DPMQLGPVIYSR 579 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~vVLvG-Dp~QL~PvI~s~ 579 (874)
+.+.++|||||...+....-..|..+-. ..+.+||+. ++.+|.|+|.|.
T Consensus 109 ~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSR 160 (329)
T PRK08058 109 SNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSR 160 (329)
T ss_pred cCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhh
Confidence 4689999999966665444444444433 345677766 678888988765
No 223
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=96.03 E-value=0.026 Score=70.14 Aligned_cols=41 Identities=27% Similarity=0.279 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHH
Q 002849 393 EEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.-.+.+...+.....+. ||++||+|+|||+++...++.|+
T Consensus 21 e~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 21 EHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred HHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence 334445555565433343 89999999999998776665554
No 224
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=96.03 E-value=0.024 Score=68.05 Aligned_cols=43 Identities=19% Similarity=0.220 Sum_probs=29.7
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
++.-.+.+...+.....+ .+|++||+|+|||+++...++.+..
T Consensus 29 q~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c 72 (598)
T PRK09111 29 QEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNY 72 (598)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCc
Confidence 455556666666543333 4899999999999987766666543
No 225
>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=96.01 E-value=0.012 Score=60.64 Aligned_cols=43 Identities=26% Similarity=0.428 Sum_probs=29.8
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEE-EecCCH--HHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLL-VCAPSN--SAADHL 454 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rIL-v~ApSN--sAaD~l 454 (874)
.+++.||+|+|||||++.++.++... +.+|. +++-+. .|.+.+
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL 48 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQL 48 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHH
Confidence 36899999999999999999888765 55554 444433 344444
No 226
>PRK08181 transposase; Validated
Probab=95.99 E-value=0.02 Score=61.97 Aligned_cols=62 Identities=26% Similarity=0.382 Sum_probs=44.0
Q ss_pred CCCCHHHHHHHHHH---hccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 389 CNLNEEQMCSIEKI---LGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 389 ~~LN~~Q~~AV~~i---l~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
+.++..|..++... +... .-+++.||||||||+.+..+..++.. .+.++++++. ..+.+.|.
T Consensus 86 ~~~~~~~~~~L~~~~~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a~~--~g~~v~f~~~-----~~L~~~l~ 150 (269)
T PRK08181 86 PMVSKAQVMAIAAGDSWLAKG--ANLLLFGPPGGGKSHLAAAIGLALIE--NGWRVLFTRT-----TDLVQKLQ 150 (269)
T ss_pred CCCCHHHHHHHHHHHHHHhcC--ceEEEEecCCCcHHHHHHHHHHHHHH--cCCceeeeeH-----HHHHHHHH
Confidence 56899999888654 2222 34899999999999998877777765 3577777653 34555554
No 227
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.98 E-value=0.028 Score=63.48 Aligned_cols=44 Identities=23% Similarity=0.345 Sum_probs=31.4
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC-CHH--HHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP-SNS--AADHLL 455 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap-SNs--AaD~l~ 455 (874)
.+++.||+|+|||||++.++..+.. .+.+|++++- +.. |++.+.
T Consensus 243 vI~LVGptGvGKTTTiaKLA~~L~~--~GkkVglI~aDt~RiaAvEQLk 289 (436)
T PRK11889 243 TIALIGPTGVGKTTTLAKMAWQFHG--KKKTVGFITTDHSRIGTVQQLQ 289 (436)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHH--cCCcEEEEecCCcchHHHHHHH
Confidence 5789999999999999998887764 3556655544 443 555544
No 228
>PRK12377 putative replication protein; Provisional
Probab=95.96 E-value=0.014 Score=62.55 Aligned_cols=53 Identities=23% Similarity=0.346 Sum_probs=34.4
Q ss_pred CHHHHHHHHHHh---cc--CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 392 NEEQMCSIEKIL---GL--KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 392 N~~Q~~AV~~il---~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
++.|+.|+..+. .. .+...++++||||||||+.+..++..+.. .+..+++++.
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~--~g~~v~~i~~ 137 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLA--KGRSVIVVTV 137 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHH--cCCCeEEEEH
Confidence 456666554332 11 12245899999999999998887777765 3556655543
No 229
>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=95.95 E-value=0.014 Score=64.27 Aligned_cols=54 Identities=15% Similarity=0.223 Sum_probs=39.6
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
.++++|.+.+..++..+ ..++|.||+||||||++..++..+-...+..||+++-
T Consensus 116 ~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiE 169 (299)
T TIGR02782 116 IMTAAQRDVLREAVLAR--KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIE 169 (299)
T ss_pred CCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEEC
Confidence 46788888888888654 3489999999999999876665544333456776644
No 230
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=95.94 E-value=0.039 Score=55.54 Aligned_cols=37 Identities=16% Similarity=0.113 Sum_probs=30.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPS 447 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApS 447 (874)
+.+.|.+++|.|||+.+...+.+.+. .+.+|+++=|-
T Consensus 6 Gli~v~~g~GkGKtt~a~g~a~ra~~--~g~~v~ivQFl 42 (173)
T TIGR00708 6 GIIIVHTGNGKGKTTAAFGMALRALG--HGKKVGVIQFI 42 (173)
T ss_pred cEEEEECCCCCChHHHHHHHHHHHHH--CCCeEEEEEEe
Confidence 56889999999999999988888775 56899888553
No 231
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=95.94 E-value=0.017 Score=58.26 Aligned_cols=43 Identities=26% Similarity=0.360 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhc---cCCCCCEEEEcCCCCChhHHHHHHHHHHHHh
Q 002849 393 EEQMCSIEKILG---LKGAPPYLIYGPPGTGKTMTLVEAILQLYAT 435 (874)
Q Consensus 393 ~~Q~~AV~~il~---~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~ 435 (874)
++|.+.+...+. ......++|.|+||+|||+.+.+.+.++...
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 467777777772 1223468999999999999998877666654
No 232
>PRK06620 hypothetical protein; Validated
Probab=95.91 E-value=0.033 Score=58.35 Aligned_cols=38 Identities=11% Similarity=0.259 Sum_probs=22.5
Q ss_pred CccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCC
Q 002849 532 HFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDP 569 (874)
Q Consensus 532 ~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp 569 (874)
..+.++|||+....+.+.+..+..+-..++++++.+|.
T Consensus 85 ~~d~lliDdi~~~~~~~lf~l~N~~~e~g~~ilits~~ 122 (214)
T PRK06620 85 KYNAFIIEDIENWQEPALLHIFNIINEKQKYLLLTSSD 122 (214)
T ss_pred cCCEEEEeccccchHHHHHHHHHHHHhcCCEEEEEcCC
Confidence 35789999994333233333333333455678888883
No 233
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.90 E-value=0.016 Score=66.77 Aligned_cols=43 Identities=30% Similarity=0.465 Sum_probs=36.4
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.+++.|.+.+..++... .+.+||.||-|||||||+-.++..+.
T Consensus 241 g~~~~~~~~~~~~~~~p-~GliLvTGPTGSGKTTTLY~~L~~ln 283 (500)
T COG2804 241 GMSPFQLARLLRLLNRP-QGLILVTGPTGSGKTTTLYAALSELN 283 (500)
T ss_pred CCCHHHHHHHHHHHhCC-CeEEEEeCCCCCCHHHHHHHHHHHhc
Confidence 46899999999998764 36799999999999999988877654
No 234
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.84 E-value=0.0088 Score=67.61 Aligned_cols=21 Identities=48% Similarity=0.915 Sum_probs=17.8
Q ss_pred EEEEcCCCCChhHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ 431 (874)
||+.||||||||+.|++++..
T Consensus 238 YLLYGPPGTGKSS~IaAmAn~ 258 (457)
T KOG0743|consen 238 YLLYGPPGTGKSSFIAAMANY 258 (457)
T ss_pred ceeeCCCCCCHHHHHHHHHhh
Confidence 899999999999988765544
No 235
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=95.81 E-value=0.035 Score=60.91 Aligned_cols=67 Identities=21% Similarity=0.236 Sum_probs=47.6
Q ss_pred CHHHHHHHHHHh---ccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCC----CeEEEecCCHHHHHHHHHHHhc
Q 002849 392 NEEQMCSIEKIL---GLKGAPPYLIYGPPGTGKTMTLVEAILQLYATRED----ARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 392 N~~Q~~AV~~il---~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~----~rILv~ApSNsAaD~l~~rL~~ 460 (874)
-+.|.+.++.+. ... ...+|.+|.|||||.++.-.++..+...+. .+|++++.|++-.......+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~--~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 10 YPIQYEFMEELKRVLDRG--KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcC--CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 678888555544 332 468999999999998877766544443333 3899999999977776655543
No 236
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=95.81 E-value=0.035 Score=60.91 Aligned_cols=67 Identities=21% Similarity=0.236 Sum_probs=47.6
Q ss_pred CHHHHHHHHHHh---ccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCC----CeEEEecCCHHHHHHHHHHHhc
Q 002849 392 NEEQMCSIEKIL---GLKGAPPYLIYGPPGTGKTMTLVEAILQLYATRED----ARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 392 N~~Q~~AV~~il---~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~----~rILv~ApSNsAaD~l~~rL~~ 460 (874)
-+.|.+.++.+. ... ...+|.+|.|||||.++.-.++..+...+. .+|++++.|++-.......+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~--~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 10 YPIQYEFMEELKRVLDRG--KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcC--CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 678888555544 332 468999999999998877766544443333 3899999999977776655543
No 237
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.80 E-value=0.043 Score=62.30 Aligned_cols=40 Identities=18% Similarity=0.196 Sum_probs=27.5
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
++...+.+...+.....+ .++++||||+|||+++-..+..
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~ 62 (367)
T PRK14970 22 QSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARK 62 (367)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 555666666666543333 5899999999999776554333
No 238
>PTZ00293 thymidine kinase; Provisional
Probab=95.78 E-value=0.035 Score=57.60 Aligned_cols=36 Identities=25% Similarity=0.298 Sum_probs=28.6
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPS 447 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApS 447 (874)
..+|.||-|+|||+-|..++..... .+.++++..|.
T Consensus 6 i~vi~GpMfSGKTteLLr~i~~y~~--ag~kv~~~kp~ 41 (211)
T PTZ00293 6 ISVIIGPMFSGKTTELMRLVKRFTY--SEKKCVVIKYS 41 (211)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHH--cCCceEEEEec
Confidence 4699999999999988888776654 45778887773
No 239
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=95.77 E-value=0.0068 Score=57.37 Aligned_cols=21 Identities=43% Similarity=0.583 Sum_probs=16.4
Q ss_pred EEEEcCCCCChhHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ 431 (874)
++|.||||||||+++...+.+
T Consensus 1 ill~G~~G~GKT~l~~~la~~ 21 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQY 21 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHhh
Confidence 489999999999876554443
No 240
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.76 E-value=0.039 Score=64.14 Aligned_cols=132 Identities=20% Similarity=0.166 Sum_probs=81.7
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHH-HHHHHHH------hcCCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVE-AILQLYA------TREDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve-~I~~ll~------~~~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
..+++-|.+..-.++..++ ++..+--|||||..-.- +|.++.. ...+.++||++||...|..+.+-..+.
T Consensus 112 ~~PtpIQaq~wp~~l~GrD---~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 112 EKPTPIQAQGWPIALSGRD---LVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCCchhhhcccceeccCCc---eEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 3467888888888888765 58889999999975332 3333333 123568999999999999998877653
Q ss_pred cccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhc-ccceEEEEechhhhhhhhc-ccCCCCccEEEEE
Q 002849 462 KAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAAL-VCYRIIISTYMSASLIYAE-GVDRGHFSHIFLD 539 (874)
Q Consensus 462 ~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L-~~~~VI~~T~~sa~~l~~~-~~~~~~fd~ViID 539 (874)
... ..-....-.+.. -..+....| ..++|+++|..-...+... .+.-..++|+++|
T Consensus 189 ~~~-~~~~~~cvyGG~---------------------~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylVLD 246 (519)
T KOG0331|consen 189 GKS-LRLRSTCVYGGA---------------------PKGPQLRDLERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLD 246 (519)
T ss_pred cCC-CCccEEEEeCCC---------------------CccHHHHHHhcCCcEEEeCChHHHHHHHcCCccccceeEEEec
Confidence 111 110011111111 111222233 4588999998765443332 3444589999999
Q ss_pred cCCCCC
Q 002849 540 EAGQAS 545 (874)
Q Consensus 540 EAsQ~~ 545 (874)
||-+.+
T Consensus 247 EADrMl 252 (519)
T KOG0331|consen 247 EADRML 252 (519)
T ss_pred cHHhhh
Confidence 995443
No 241
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.76 E-value=0.027 Score=59.30 Aligned_cols=60 Identities=10% Similarity=0.147 Sum_probs=39.1
Q ss_pred CCcCCCCCCHHHHHHHHHHhcc-CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 384 LVPISCNLNEEQMCSIEKILGL-KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 384 ~~~~~~~LN~~Q~~AV~~il~~-~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
+..+...-|.....++...... ....+++|+||||||||+.+..+..++.. .+..+.++.
T Consensus 17 ~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~--~~~~~~~i~ 77 (227)
T PRK08903 17 FDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASY--GGRNARYLD 77 (227)
T ss_pred hcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHh--CCCcEEEEe
Confidence 4444445577777777776542 23357999999999999987766665544 344444444
No 242
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.75 E-value=0.051 Score=62.80 Aligned_cols=37 Identities=22% Similarity=0.284 Sum_probs=27.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+++.||+|+|||||++.++..+.....+.+|++++.
T Consensus 223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 4788999999999999988877762224456655543
No 243
>PRK10867 signal recognition particle protein; Provisional
Probab=95.74 E-value=0.048 Score=62.93 Aligned_cols=40 Identities=25% Similarity=0.275 Sum_probs=29.1
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEE-EecCCHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLL-VCAPSNSA 450 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rIL-v~ApSNsA 450 (874)
.+++.||||+|||||++..+..+.+. .+.+|+ |.+-+..+
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~-~G~kV~lV~~D~~R~ 142 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKK-KKKKVLLVAADVYRP 142 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHh-cCCcEEEEEccccch
Confidence 36899999999999999988877654 245655 44444443
No 244
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=95.73 E-value=0.044 Score=60.85 Aligned_cols=42 Identities=21% Similarity=0.272 Sum_probs=28.6
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.+...+.+...+.....+ .|++.||+|+|||+++-..+..++
T Consensus 9 ~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~ 51 (313)
T PRK05564 9 HENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKIL 51 (313)
T ss_pred cHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHc
Confidence 345555566666543333 579999999999998776665544
No 245
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=95.71 E-value=0.04 Score=55.84 Aligned_cols=35 Identities=29% Similarity=0.409 Sum_probs=28.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
..+|.||=++|||+-|..++..+.. .+.++++.-|
T Consensus 3 l~~i~GpM~sGKS~eLi~~~~~~~~--~~~~v~~~kp 37 (176)
T PF00265_consen 3 LEFITGPMFSGKSTELIRRIHRYEI--AGKKVLVFKP 37 (176)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH--TT-EEEEEEE
T ss_pred EEEEECCcCChhHHHHHHHHHHHHh--CCCeEEEEEe
Confidence 4689999999999999988877654 5678888777
No 246
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=95.71 E-value=0.018 Score=62.36 Aligned_cols=52 Identities=29% Similarity=0.445 Sum_probs=38.1
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEe
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVC 444 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ 444 (874)
.+.++|.++++.++.... +.++|.||+||||||++...+..+.. +..+|+.+
T Consensus 63 g~~~~~~~~l~~~~~~~~-GlilisG~tGSGKTT~l~all~~i~~--~~~~iiti 114 (264)
T cd01129 63 GLKPENLEIFRKLLEKPH-GIILVTGPTGSGKTTTLYSALSELNT--PEKNIITV 114 (264)
T ss_pred CCCHHHHHHHHHHHhcCC-CEEEEECCCCCcHHHHHHHHHhhhCC--CCCeEEEE
Confidence 478899999988876432 46899999999999999776655432 34455543
No 247
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=95.70 E-value=0.016 Score=75.45 Aligned_cols=48 Identities=21% Similarity=0.409 Sum_probs=36.7
Q ss_pred EEcCCCCChhHHHHH-HHHHHHHhc----------CCCeEEEecCCHHHHHHHHHHHhc
Q 002849 413 IYGPPGTGKTMTLVE-AILQLYATR----------EDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 413 I~GPPGTGKT~Tlve-~I~~ll~~~----------~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
|.+|.|||||.+..- ++.+++... ++.++|+++|+.+-+..+.++|..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 568999999998765 444555421 246899999999999999988853
No 248
>PRK06851 hypothetical protein; Provisional
Probab=95.66 E-value=0.0083 Score=67.47 Aligned_cols=47 Identities=23% Similarity=0.464 Sum_probs=38.5
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLL 455 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~ 455 (874)
..++|.||||||||+++.+++..+.+.+-.-..+.|+..|.++|.+.
T Consensus 31 ~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvi 77 (367)
T PRK06851 31 RIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVI 77 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEE
Confidence 46899999999999999887777766443446889999999998765
No 249
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.62 E-value=0.055 Score=63.66 Aligned_cols=36 Identities=28% Similarity=0.385 Sum_probs=22.0
Q ss_pred HHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHH
Q 002849 397 CSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 397 ~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
+.+...+.....+ .|++.||||+|||+++...+..+
T Consensus 26 ~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L 62 (486)
T PRK14953 26 RILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVL 62 (486)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 3444445443333 37899999999976654444433
No 250
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=95.59 E-value=0.05 Score=68.54 Aligned_cols=64 Identities=20% Similarity=0.205 Sum_probs=49.3
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+.+.|++||..++..++ +++..|.|+|||.+-.--+ ++ .+...||++|+.+.+..-..+|..
T Consensus 459 ~sFRp~Q~eaI~aiL~GrD---VLVimPTGSGKSLcYQLPA--L~---~~GiTLVISPLiSLmqDQV~~L~~ 522 (1195)
T PLN03137 459 HSFRPNQREIINATMSGYD---VFVLMPTGGGKSLTYQLPA--LI---CPGITLVISPLVSLIQDQIMNLLQ 522 (1195)
T ss_pred CCCCHHHHHHHHHHHcCCC---EEEEcCCCccHHHHHHHHH--HH---cCCcEEEEeCHHHHHHHHHHHHHh
Confidence 5789999999999998754 6999999999997643222 22 245799999999998766666654
No 251
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=95.58 E-value=0.019 Score=58.37 Aligned_cols=44 Identities=30% Similarity=0.508 Sum_probs=32.5
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
-++++||||||||+.++.++..++. .+..++.+.. ..+.++|..
T Consensus 49 ~l~l~G~~G~GKThLa~ai~~~~~~--~g~~v~f~~~-----~~L~~~l~~ 92 (178)
T PF01695_consen 49 NLILYGPPGTGKTHLAVAIANEAIR--KGYSVLFITA-----SDLLDELKQ 92 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH--TT--EEEEEH-----HHHHHHHHC
T ss_pred EEEEEhhHhHHHHHHHHHHHHHhcc--CCcceeEeec-----Cceeccccc
Confidence 4899999999999999988888876 4577777664 346666653
No 252
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=95.57 E-value=0.028 Score=63.63 Aligned_cols=43 Identities=30% Similarity=0.381 Sum_probs=31.0
Q ss_pred CHHHHHHHHHHhc----cCCCCCEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILG----LKGAPPYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 392 N~~Q~~AV~~il~----~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
-++|.+.+...+. ....+.++|.||||||||+++...+.++..
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 4667766666653 223346899999999999998777776654
No 253
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=95.54 E-value=0.046 Score=65.14 Aligned_cols=62 Identities=23% Similarity=0.259 Sum_probs=43.2
Q ss_pred HHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcC----CCeEEEecCCHHHHHHHHHHHhcc
Q 002849 397 CSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATRE----DARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 397 ~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~----~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
+.++.|-.+ +.++|.|--|+||||-+-.-+...=...+ +.-|-|+-|-+.||-.+++|....
T Consensus 263 ~IMEaIn~n---~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~E 328 (1172)
T KOG0926|consen 263 RIMEAINEN---PVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAFE 328 (1172)
T ss_pred HHHHHhhcC---CeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHHH
Confidence 445555443 67899999999999976543322111111 346899999999999999999764
No 254
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.51 E-value=0.037 Score=64.75 Aligned_cols=37 Identities=22% Similarity=0.346 Sum_probs=28.1
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
..+.|.||.|+||||++..++..+...+.+.+|.+++
T Consensus 351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 4578999999999999998887776544445665554
No 255
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=95.47 E-value=0.13 Score=61.41 Aligned_cols=50 Identities=26% Similarity=0.214 Sum_probs=43.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
+++.-|==.|||.+++-.|..++...++.+|+++||..+.++.+.+++..
T Consensus 257 tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~ 306 (738)
T PHA03368 257 TVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGA 306 (738)
T ss_pred eEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHH
Confidence 68888899999999996666677666899999999999999999888876
No 256
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=95.45 E-value=0.047 Score=64.09 Aligned_cols=166 Identities=11% Similarity=0.132 Sum_probs=95.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhhhh
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADHIR 490 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~ 490 (874)
++-.=|=--|||..++-+|.-++....+-+|..+|+-+.++.-+.+.+... +.|+....+. .......
T Consensus 205 TVFLVPRRHGKTWf~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~---------lrrwF~~~~v-i~~k~~t-- 272 (668)
T PHA03372 205 TVFLVPRRHGKTWFIIPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFR---------CRRMFPRKHT-IENKDNV-- 272 (668)
T ss_pred eEEEecccCCceehHHHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHH---------HhhhcCccce-eeecCcE--
Confidence 455558899999999999999998888999999999998888766666431 1111111110 0001111
Q ss_pred hccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHH-hhccccCCcEEEEecCC
Q 002849 491 FCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVP-ISSYCKKDTVVVLAGDP 569 (874)
Q Consensus 491 ~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~-L~~l~~~~~~vVLvGDp 569 (874)
-.+..|. .+..+++++|... ..++...|+.+|||||.-+- |+.+.. |..+..+++++|.+--+
T Consensus 273 ------I~~s~pg----~Kst~~fasc~n~-----NsiRGQ~fnll~VDEA~FI~-~~a~~tilgfm~q~~~KiIfISS~ 336 (668)
T PHA03372 273 ------ISIDHRG----AKSTALFASCYNT-----NSIRGQNFHLLLVDEAHFIK-KDAFNTILGFLAQNTTKIIFISST 336 (668)
T ss_pred ------EEEecCC----CcceeeehhhccC-----ccccCCCCCEEEEehhhccC-HHHHHHhhhhhcccCceEEEEeCC
Confidence 1122221 1233455555433 23445589999999995554 554443 44455666778876444
Q ss_pred CcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeecc-cccCCchhhhccc
Q 002849 570 MQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLV-RNYRSHPQILHLP 625 (874)
Q Consensus 570 ~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~-~nYRshp~I~~~~ 625 (874)
+- ..-..|++-+|.+.. ..+|+ .+|.|.....++.
T Consensus 337 Ns------------g~~sTSfL~~Lk~~~---------~~~lnVVsYvC~~H~~~f~ 372 (668)
T PHA03372 337 NT------------TNDATCFLTKLNNSP---------FDMLNVVSYVCEEHLHSFN 372 (668)
T ss_pred CC------------CCccchHHHhccCch---------hhheeeEEEEchhhhhhhh
Confidence 21 012456776664321 11344 6677766655543
No 257
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=95.45 E-value=0.0035 Score=76.83 Aligned_cols=62 Identities=18% Similarity=0.156 Sum_probs=42.7
Q ss_pred CeEECccccCCCceeeEEEEEeccCCCcCCcccccccccc-CCC-CCceEeccccccccEEEEEc
Q 002849 727 DIKVGSVEQFQGQERQVIIVSTVRSTIKHNDFDRKHCLGF-LSN-PRRFNVAVTRAISLLIIIGN 789 (874)
Q Consensus 727 ~v~V~TVd~fQG~E~dvVIiS~VRs~~~~~~~d~~~~lGF-l~d-~rrlNVAiTRAK~~LiIvGn 789 (874)
.|.+.|+|..+|+|+++|++..+-...-... ......+. +.+ +|.+||||||||..|++...
T Consensus 554 ~V~lmT~H~aKGlEf~~Vfl~g~~eg~~P~~-~~~~~~~~~~eEERRL~YVaiTRA~~~L~~t~~ 617 (655)
T COG0210 554 QVNLMTIHAAKGLEFPYVFLVGLEEGLFPAD-RSLDEGDEPLEEERRLLYVAITRAKKKLYLTYA 617 (655)
T ss_pred ceEEEechhccCCCCCeEEEecccCCCCCCh-hhcccCCCCccHHHHHHHHHHHHHHHhhhhhHH
Confidence 5999999999999999999987644321100 00111111 433 45699999999999998744
No 258
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=95.42 E-value=0.079 Score=58.95 Aligned_cols=50 Identities=24% Similarity=0.393 Sum_probs=34.9
Q ss_pred CCCccEEEEEcCCCCChhhhHHHhhccccC--CcEEEEecC-CCcccceeecc
Q 002849 530 RGHFSHIFLDEAGQASEPESMVPISSYCKK--DTVVVLAGD-PMQLGPVIYSR 579 (874)
Q Consensus 530 ~~~fd~ViIDEAsQ~~epe~li~L~~l~~~--~~~vVLvGD-p~QL~PvI~s~ 579 (874)
.+.+.++|||+|...++...-..|..+-.+ .+.++|+.+ +.+|.|+|.|.
T Consensus 105 ~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SR 157 (325)
T PRK06871 105 QGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSR 157 (325)
T ss_pred cCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhh
Confidence 357899999999666655555555545433 346777766 67999998875
No 259
>PRK09183 transposase/IS protein; Provisional
Probab=95.39 E-value=0.03 Score=60.44 Aligned_cols=55 Identities=15% Similarity=0.230 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
+.+|..|...+...---.....++|.||||||||+.+..+...+.. .+.+++++.
T Consensus 83 ~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~--~G~~v~~~~ 137 (259)
T PRK09183 83 TGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVR--AGIKVRFTT 137 (259)
T ss_pred CCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEe
Confidence 5678877777654311111135889999999999988776555443 457787765
No 260
>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=95.38 E-value=0.028 Score=54.88 Aligned_cols=41 Identities=20% Similarity=0.455 Sum_probs=32.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADH 453 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~ 453 (874)
++|.||||||||+.+...+.++.. .+.++++.+......+.
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~~~~ 42 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIAT--KGGKVVYVDIEEEIEEL 42 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHh--cCCEEEEEECCcchHHH
Confidence 689999999999999888877765 46788888876555443
No 261
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.37 E-value=0.041 Score=63.09 Aligned_cols=130 Identities=18% Similarity=0.154 Sum_probs=80.8
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHH-HHHHHHHHhcC----------CCeEEEecCCHHHHHHHHHH
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLV-EAILQLYATRE----------DARLLVCAPSNSAADHLLEK 457 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlv-e~I~~ll~~~~----------~~rILv~ApSNsAaD~l~~r 457 (874)
...++-|+-+|..+...++ .++.|+-|+|||..-. =++-++++..+ ..++|++|||+..|+.+-++
T Consensus 95 ~~ptpvQk~sip~i~~Grd---l~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~ne 171 (482)
T KOG0335|consen 95 TKPTPVQKYSIPIISGGRD---LMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNE 171 (482)
T ss_pred cCCCcceeeccceeecCCc---eEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHH
Confidence 3568899999999888765 4999999999998643 34444554321 35899999999999999988
Q ss_pred HhcccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcc-cCCCCccEE
Q 002849 458 ILGEKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG-VDRGHFSHI 536 (874)
Q Consensus 458 L~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~-~~~~~fd~V 536 (874)
-.+..... .... +.....+.. .......-..++|+++|......+...+ +......++
T Consensus 172 a~k~~~~s--~~~~-~~~ygg~~~------------------~~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k~~ 230 (482)
T KOG0335|consen 172 ARKFSYLS--GMKS-VVVYGGTDL------------------GAQLRFIKRGCDILVATPGRLKDLIERGKISLDNCKFL 230 (482)
T ss_pred HHhhcccc--ccee-eeeeCCcch------------------hhhhhhhccCccEEEecCchhhhhhhcceeehhhCcEE
Confidence 77531110 0000 000000100 0011122367889999987665443322 223345699
Q ss_pred EEEcCC
Q 002849 537 FLDEAG 542 (874)
Q Consensus 537 iIDEAs 542 (874)
++|||-
T Consensus 231 vLDEAD 236 (482)
T KOG0335|consen 231 VLDEAD 236 (482)
T ss_pred EecchH
Confidence 999993
No 262
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=95.29 E-value=0.038 Score=68.46 Aligned_cols=73 Identities=21% Similarity=0.228 Sum_probs=61.2
Q ss_pred CCCCHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 389 CNLNEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
....+.|..|+..++...... .+++.+|-|.|||.+.+..+...+... ...|++.+-|..++++.+.+|+...
T Consensus 194 ~~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~ 269 (733)
T COG1203 194 HEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEI 269 (733)
T ss_pred chhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhh
Confidence 445789999999999766556 799999999999999887777766652 4679999999999999999999863
No 263
>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=95.28 E-value=0.1 Score=59.95 Aligned_cols=38 Identities=18% Similarity=0.176 Sum_probs=27.6
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEe-cCCHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVC-APSNS 449 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~-ApSNs 449 (874)
.+++.|++|+|||||++.++..+.+ .+.+|+++ +-+..
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~--~G~kV~lV~~D~~R 140 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQR--KGFKPCLVCADTFR 140 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH--CCCCEEEEcCcccc
Confidence 4689999999999999998876554 35565554 44433
No 264
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=95.23 E-value=0.063 Score=67.26 Aligned_cols=128 Identities=20% Similarity=0.220 Sum_probs=81.1
Q ss_pred CCCCHHHHHHHHHHhcc-CCCCC--EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcc-ccc
Q 002849 389 CNLNEEQMCSIEKILGL-KGAPP--YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGE-KAV 464 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~-~~~~~--~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~-~~~ 464 (874)
-.-++.|..||..+... ...-| =||+|--|=|||-+++.++-.... .++.|.|+.||---|..=-+.+.+. .+.
T Consensus 593 yeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~--~GKQVAvLVPTTlLA~QHy~tFkeRF~~f 670 (1139)
T COG1197 593 YEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM--DGKQVAVLVPTTLLAQQHYETFKERFAGF 670 (1139)
T ss_pred CcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc--CCCeEEEEcccHHhHHHHHHHHHHHhcCC
Confidence 45699999999999852 11123 399999999999999988876664 5689999999998887655555431 011
Q ss_pred ccccccEEEecCCCCCCcC--CchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCC
Q 002849 465 EVRENEIFRLNAPSRPYED--VNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAG 542 (874)
Q Consensus 465 ~~~~~~i~Rl~~~~r~~~~--v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAs 542 (874)
-+++.--+|.... ....+... .-.+.+||+.| ..+.+.++.-..--.+||||=+
T Consensus 671 ------PV~I~~LSRF~s~kE~~~il~~l--------------a~G~vDIvIGT----HrLL~kdv~FkdLGLlIIDEEq 726 (1139)
T COG1197 671 ------PVRIEVLSRFRSAKEQKEILKGL--------------AEGKVDIVIGT----HRLLSKDVKFKDLGLLIIDEEQ 726 (1139)
T ss_pred ------CeeEEEecccCCHHHHHHHHHHH--------------hcCCccEEEec----hHhhCCCcEEecCCeEEEechh
Confidence 2233322221110 00000000 11467899999 4455555555567799999983
No 265
>PRK08116 hypothetical protein; Validated
Probab=95.22 E-value=0.064 Score=58.22 Aligned_cols=34 Identities=24% Similarity=0.340 Sum_probs=27.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
+++++|+||||||+.+..++..+.+. +.++++++
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEE
Confidence 58999999999999988777777653 56676665
No 266
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.20 E-value=0.07 Score=64.34 Aligned_cols=36 Identities=22% Similarity=0.287 Sum_probs=24.1
Q ss_pred HHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHH
Q 002849 398 SIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 398 AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.++..+.....+. +|++||||+|||+++...++.+.
T Consensus 27 ~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~ 63 (620)
T PRK14954 27 TIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVN 63 (620)
T ss_pred HHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence 3445454433344 89999999999998766555544
No 267
>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=95.19 E-value=0.096 Score=67.42 Aligned_cols=162 Identities=16% Similarity=0.155 Sum_probs=98.7
Q ss_pred CccEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCC-Cc--cHHHHHHhcCCCCCCCccce
Q 002849 532 HFSHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGM-GK--SYLERLFECEPYCHGNENYV 608 (874)
Q Consensus 532 ~fd~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl-~~--SlfeRL~~~~~~~~~~~~~~ 608 (874)
+-.+|+|||+ |...|..+..|..+.....++.+++|..|- ++.......++ .. ..+.++.... ...+
T Consensus 185 ~~~~i~IDgF-~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~---~~~~~~~~~~LF~~s~~~L~~la~~~------~i~v 254 (1076)
T TIGR02774 185 KNTVLVIDGF-TRFSAEEEALVSLLHGKGVEIIIGAYASQK---AYKSSFSEGNLYQASVKFLHDLAQKY------QTKA 254 (1076)
T ss_pred CCCEEEEccC-CCCCHHHHHHHHHHHHhCCEEEEEEEcCcc---ccccCCCcccchHHHHHHHHHHHHHc------CCCc
Confidence 4579999999 677777777787787777889999998883 32100000000 11 1222232211 1122
Q ss_pred eecccccCCchhhhcccccccccccccccccccccccccccCCCCC-CCCEEEEecCCCccccCCCCCccCHHHHHHHHH
Q 002849 609 TKLVRNYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNK-EFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVE 687 (874)
Q Consensus 609 ~~L~~nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~-~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~ 687 (874)
..+..|||++++|..+.+.++-.... .... +. ..+. +..+.++...+ -..|++.|+.
T Consensus 255 ~~~~~~~R~~~~L~~Le~~~~~~~~~-~~~~--------~~-~~~~~~~~I~i~~a~n------------~~~Eve~va~ 312 (1076)
T TIGR02774 255 EFISSTHESKDSFDKLSRLLEASHDF-SELA--------LD-LDDKDKDNLTIWSCLT------------QKEEVEHVAR 312 (1076)
T ss_pred ccCccccccCHHHHHHHHHHhhcccC-Cccc--------cc-CCCCCCCceEEEEcCC------------HHHHHHHHHH
Confidence 34458899999998887733311000 0000 00 0000 01233333221 2379999999
Q ss_pred HHHHHHHcCCCCCCeEEEEcccHHH-HHHHHHHHHhcCCC
Q 002849 688 IIQKLTSTGNLSEEDIGVITPYRQQ-VLKLNKALESLYMP 726 (874)
Q Consensus 688 ~v~~L~~~~~~~~~dIgIItPY~~Q-v~~Ir~~L~~~~~~ 726 (874)
.|.+|+..| +.++||+|+++-..+ ...|...+.+.++|
T Consensus 313 ~I~~lv~~g-~ry~DIaVl~rd~~~Y~~~i~~iF~~~~IP 351 (1076)
T TIGR02774 313 SIRQKLYEG-YRYKDILVLLGDVDSYQLQLGKIFDQYDIP 351 (1076)
T ss_pred HHHHHHHcC-CChhheEEEcCCHHHHHHHHHHHHhhcCCC
Confidence 999999884 999999999999888 78889999887776
No 268
>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=95.19 E-value=0.016 Score=54.33 Aligned_cols=21 Identities=38% Similarity=0.649 Sum_probs=16.9
Q ss_pred EEEEcCCCCChhHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ 431 (874)
++|.|||||||||++..++..
T Consensus 2 I~I~G~~gsGKST~a~~La~~ 22 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAER 22 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999876655443
No 269
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=95.18 E-value=0.11 Score=57.74 Aligned_cols=49 Identities=18% Similarity=0.295 Sum_probs=32.3
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhccccC-CcEEEEec-CCCcccceeecc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCKK-DTVVVLAG-DPMQLGPVIYSR 579 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~~-~~~vVLvG-Dp~QL~PvI~s~ 579 (874)
+.+.+||||+|...++...-..|..+-.+ .+.+||+. ++.+|.|+|.|.
T Consensus 123 ~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~~~Ll~TI~SR 173 (314)
T PRK07399 123 APRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSPESLLPTIVSR 173 (314)
T ss_pred CCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECChHhCcHHHHhh
Confidence 47899999999555554433333333222 34667665 788999998875
No 270
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=95.16 E-value=0.028 Score=61.67 Aligned_cols=64 Identities=20% Similarity=0.382 Sum_probs=42.6
Q ss_pred HHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 395 QMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 395 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
|.-.+...+.....|-++++||||||||+. +..|..-.+ .+..+.+-++-||+-+..++.-+.+
T Consensus 149 q~gllrs~ieq~~ipSmIlWGppG~GKTtl-Arlia~tsk-~~SyrfvelSAt~a~t~dvR~ife~ 212 (554)
T KOG2028|consen 149 QDGLLRSLIEQNRIPSMILWGPPGTGKTTL-ARLIASTSK-KHSYRFVELSATNAKTNDVRDIFEQ 212 (554)
T ss_pred cchHHHHHHHcCCCCceEEecCCCCchHHH-HHHHHhhcC-CCceEEEEEeccccchHHHHHHHHH
Confidence 455666667666667799999999999974 333333222 1335677777788877777665554
No 271
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.16 E-value=0.043 Score=62.82 Aligned_cols=43 Identities=40% Similarity=0.504 Sum_probs=29.3
Q ss_pred HHHHHHHHHHh----ccCCCCCEEEEcCCCCChhHHHHHHHHHHHHh
Q 002849 393 EEQMCSIEKIL----GLKGAPPYLIYGPPGTGKTMTLVEAILQLYAT 435 (874)
Q Consensus 393 ~~Q~~AV~~il----~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~ 435 (874)
+.|.+.+...+ .....+.++|.||||||||+++...+.++...
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 44555555554 22223458999999999999988777766543
No 272
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=95.14 E-value=0.1 Score=59.97 Aligned_cols=49 Identities=16% Similarity=0.295 Sum_probs=37.6
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecCCHH-HHHHHHHHHh
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAPSNS-AADHLLEKIL 459 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~ApSNs-AaD~l~~rL~ 459 (874)
.+..|+-|||||.+++..+...+... ++.++|++.++.. ..+.+...+.
T Consensus 4 ~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~ 54 (396)
T TIGR01547 4 IIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIE 54 (396)
T ss_pred EEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHH
Confidence 68999999999999987777666554 7789999999877 4444445554
No 273
>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=95.14 E-value=0.048 Score=67.36 Aligned_cols=69 Identities=20% Similarity=0.284 Sum_probs=50.1
Q ss_pred CHHHHHHHHHHhcc-CCCCCEEEEcCCCCChhHHHHHHHHHHHH-hcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 392 NEEQMCSIEKILGL-KGAPPYLIYGPPGTGKTMTLVEAILQLYA-TREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 392 N~~Q~~AV~~il~~-~~~~~~lI~GPPGTGKT~Tlve~I~~ll~-~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
=+.|++.+..+... ......++.+|.|||||..+...++.... .....+|..||.|++-...+.+-|.+
T Consensus 12 y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 12 YPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 47888887776642 12246899999999999666555554443 22336999999999998888877765
No 274
>PRK10436 hypothetical protein; Provisional
Probab=95.06 E-value=0.034 Score=64.75 Aligned_cols=42 Identities=31% Similarity=0.494 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHH
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
.+.+.|.+.++.++... .+.++|.||.|||||||+..++..+
T Consensus 201 G~~~~~~~~l~~~~~~~-~GliLvtGpTGSGKTTtL~a~l~~~ 242 (462)
T PRK10436 201 GMTPAQLAQFRQALQQP-QGLILVTGPTGSGKTVTLYSALQTL 242 (462)
T ss_pred CcCHHHHHHHHHHHHhc-CCeEEEECCCCCChHHHHHHHHHhh
Confidence 57889999999887643 2679999999999999997766654
No 275
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.06 E-value=0.11 Score=62.87 Aligned_cols=41 Identities=22% Similarity=0.401 Sum_probs=25.7
Q ss_pred CHHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.+...+.+...+.....++ ||++||+|+|||++ +.+++..+
T Consensus 22 q~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~-A~~lAk~l 63 (614)
T PRK14971 22 QEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTC-ARIFAKTI 63 (614)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHH-HHHHHHHh
Confidence 3444444555554443444 89999999999994 44444444
No 276
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=95.03 E-value=0.064 Score=60.06 Aligned_cols=45 Identities=29% Similarity=0.330 Sum_probs=31.3
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHhcCC-CeEEEecCCHHHHHHHHH
Q 002849 412 LIYGPPGTGKTMTLVEAILQLYATRED-ARLLVCAPSNSAADHLLE 456 (874)
Q Consensus 412 lI~GPPGTGKT~Tlve~I~~ll~~~~~-~rILv~ApSNsAaD~l~~ 456 (874)
+|.||+|+|||++++..+...+...++ ..|++++.+..|.+.+.+
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~~~~~~~~~~~~~ 46 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIASTYRQARDIFGR 46 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEEESSHHHHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEecCHHHHHHHHHH
Confidence 588999999999998877766665665 678888777777776554
No 277
>PRK14873 primosome assembly protein PriA; Provisional
Probab=95.01 E-value=0.055 Score=65.79 Aligned_cols=106 Identities=14% Similarity=0.112 Sum_probs=70.3
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhhhhh
Q 002849 412 LIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADHIRF 491 (874)
Q Consensus 412 lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~ 491 (874)
+..+.||+|||.+..++|...+. .++.+|++.|.-+.+..+.+|+.+ .+....+..+.+... .-.++
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~--~Gk~vLvLvPEi~lt~q~~~rl~~----~f~~~~v~~lhS~l~-------~~~R~ 230 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLR--AGRGALVVVPDQRDVDRLEAALRA----LLGAGDVAVLSAGLG-------PADRY 230 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHH--cCCeEEEEecchhhHHHHHHHHHH----HcCCCcEEEECCCCC-------HHHHH
Confidence 45566799999999999999987 467899999999999999999986 232234555443211 01111
Q ss_pred ccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCC
Q 002849 492 CFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 492 ~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
..+.. -.-.+++||+.|-+.... +-.....|||||=...
T Consensus 231 ~~w~~--------~~~G~~~IViGtRSAvFa------P~~~LgLIIvdEEhd~ 269 (665)
T PRK14873 231 RRWLA--------VLRGQARVVVGTRSAVFA------PVEDLGLVAIWDDGDD 269 (665)
T ss_pred HHHHH--------HhCCCCcEEEEcceeEEe------ccCCCCEEEEEcCCch
Confidence 11110 012467899999765532 3346689999987443
No 278
>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=95.01 E-value=0.027 Score=54.39 Aligned_cols=22 Identities=50% Similarity=0.744 Sum_probs=16.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
|+++.||||||||+.+-..+..
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~ 22 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAAL 22 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4799999999999876554433
No 279
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=94.98 E-value=0.08 Score=63.83 Aligned_cols=65 Identities=17% Similarity=0.021 Sum_probs=51.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
....+-|..++-.++..+ +.....|+|||.+.+-.+..... .+..++|+|||.--|....+-+..
T Consensus 102 ~~p~~VQ~~~~~~ll~G~-----Iae~~TGeGKTla~~lp~~~~al--~G~~v~VvTptreLA~qdae~~~~ 166 (656)
T PRK12898 102 QRHFDVQLMGGLALLSGR-----LAEMQTGEGKTLTATLPAGTAAL--AGLPVHVITVNDYLAERDAELMRP 166 (656)
T ss_pred CCCChHHHHHHHHHhCCC-----eeeeeCCCCcHHHHHHHHHHHhh--cCCeEEEEcCcHHHHHHHHHHHHH
Confidence 345688999998888652 89999999999988766654433 567999999999999887777654
No 280
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.97 E-value=0.036 Score=59.69 Aligned_cols=34 Identities=29% Similarity=0.451 Sum_probs=26.9
Q ss_pred CCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEE
Q 002849 408 APPYLIYGPPGTGKTMTLVEAILQLYATREDARLL 442 (874)
Q Consensus 408 ~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rIL 442 (874)
.+.+||.||-|||||||++.+|-++-++ ...+||
T Consensus 125 ~GLILVTGpTGSGKSTTlAamId~iN~~-~~~HIl 158 (353)
T COG2805 125 RGLILVTGPTGSGKSTTLAAMIDYINKH-KAKHIL 158 (353)
T ss_pred CceEEEeCCCCCcHHHHHHHHHHHHhcc-CCcceE
Confidence 3789999999999999999988776653 344444
No 281
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=94.97 E-value=0.1 Score=59.43 Aligned_cols=22 Identities=27% Similarity=0.366 Sum_probs=18.5
Q ss_pred CEEEEcCCCCChhHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
.++..||+|||||++..+.-.+
T Consensus 211 Nli~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 211 NLIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred cEEEECCCCCCHHHHHHHHhHH
Confidence 4899999999999988875555
No 282
>PF05729 NACHT: NACHT domain
Probab=94.96 E-value=0.033 Score=54.75 Aligned_cols=27 Identities=33% Similarity=0.436 Sum_probs=23.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATR 436 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~ 436 (874)
+++|.|+||+|||+++...+.++....
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 479999999999999988888777654
No 283
>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=94.95 E-value=0.049 Score=59.19 Aligned_cols=34 Identities=29% Similarity=0.392 Sum_probs=26.7
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
.+++.||||+|||||++.++..+.+ .+.+|++++
T Consensus 74 vi~l~G~~G~GKTTt~akLA~~l~~--~g~~V~li~ 107 (272)
T TIGR00064 74 VILFVGVNGVGKTTTIAKLANKLKK--QGKSVLLAA 107 (272)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHh--cCCEEEEEe
Confidence 4667799999999999998877654 356776665
No 284
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.93 E-value=0.031 Score=63.21 Aligned_cols=38 Identities=18% Similarity=0.301 Sum_probs=29.2
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
..+++.||+|+|||||++.++..+.......+|.+++.
T Consensus 138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~ 175 (374)
T PRK14722 138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT 175 (374)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 46899999999999999998887665333357766654
No 285
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.92 E-value=0.04 Score=56.23 Aligned_cols=51 Identities=27% Similarity=0.430 Sum_probs=37.5
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhc--------CCCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATR--------EDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~--------~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..++|.||||+|||+.+...+..+.... .+.+||++..-+. ...+.+|+..
T Consensus 33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~ 91 (193)
T PF13481_consen 33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRA 91 (193)
T ss_dssp SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHH
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHH
Confidence 3589999999999999999999888521 4579999999887 5567777764
No 286
>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=94.88 E-value=0.061 Score=64.78 Aligned_cols=67 Identities=19% Similarity=0.286 Sum_probs=47.3
Q ss_pred HHHHHHHHHhcc-CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 394 EQMCSIEKILGL-KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 394 ~Q~~AV~~il~~-~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
+|++.+..+... ......+|.+|.|||||....-.+...+....+.+|+|+|||..-++.+.+.+..
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~ 68 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELER 68 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHH
Confidence 355555554432 1224589999999999977666555544433568999999999999999875543
No 287
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=94.85 E-value=0.035 Score=65.27 Aligned_cols=43 Identities=30% Similarity=0.488 Sum_probs=34.2
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHH
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
-.+.++|.+.+..++.... +.++|.||.|||||||+..++..+
T Consensus 224 Lg~~~~~~~~l~~~~~~~~-GlilitGptGSGKTTtL~a~L~~l 266 (486)
T TIGR02533 224 LGMSPELLSRFERLIRRPH-GIILVTGPTGSGKTTTLYAALSRL 266 (486)
T ss_pred cCCCHHHHHHHHHHHhcCC-CEEEEEcCCCCCHHHHHHHHHhcc
Confidence 3578999999998886432 568999999999999997665544
No 288
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=94.83 E-value=0.076 Score=66.21 Aligned_cols=70 Identities=23% Similarity=0.265 Sum_probs=57.9
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc---------CCCeEEEecCCHHHHHHHHHHHh
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR---------EDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~---------~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
..||..|-+.-.+++.... .+++.||.|+|||-+.+-.|++-+..+ .+.+|...||..+.+++++..+.
T Consensus 308 ~sLNrIQS~v~daAl~~~E--nmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfS 385 (1674)
T KOG0951|consen 308 QSLNRIQSKVYDAALRGDE--NMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFS 385 (1674)
T ss_pred hhhhHHHHHHHHHHhcCcC--cEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHH
Confidence 4599999999998887654 489999999999999988888877643 23489999999999999887665
Q ss_pred c
Q 002849 460 G 460 (874)
Q Consensus 460 ~ 460 (874)
+
T Consensus 386 k 386 (1674)
T KOG0951|consen 386 K 386 (1674)
T ss_pred h
Confidence 4
No 289
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=94.83 E-value=0.072 Score=56.34 Aligned_cols=40 Identities=25% Similarity=0.262 Sum_probs=26.5
Q ss_pred HHHHHHHHHH----hccCCCCCEEEEcCCCCChhHHHHHHHHHH
Q 002849 393 EEQMCSIEKI----LGLKGAPPYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 393 ~~Q~~AV~~i----l~~~~~~~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
+.|++++..- +...+...+|++|+.|||||+++-.++..+
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y 76 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY 76 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence 4566665433 233444578999999999998876655443
No 290
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=94.83 E-value=2.3 Score=51.55 Aligned_cols=169 Identities=17% Similarity=0.194 Sum_probs=95.4
Q ss_pred CCCCHHHHHHHHHHhc--cCCCCCEEEEcCCCCChhHHHHHHHHHHHHh-cCCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 389 CNLNEEQMCSIEKILG--LKGAPPYLIYGPPGTGKTMTLVEAILQLYAT-REDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~--~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~-~~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
..|-+.|++-|+.... +...+ -||---=|=|||.-++.-++.+... .-..+.||+||+---..-+.+ +.. .
T Consensus 204 ~~Lf~yQreGV~WL~~L~~q~~G-GILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~Tii~qW~~E-~~~----w 277 (923)
T KOG0387|consen 204 SKLFPYQREGVQWLWELYCQRAG-GILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPATIIHQWMKE-FQT----W 277 (923)
T ss_pred HHhhHHHHHHHHHHHHHHhccCC-CeecccccCccchhHHHHHHHHhhcccccCceEEEccHHHHHHHHHH-HHH----h
Confidence 5788999999998753 22111 1444468999999888877777765 234689999996443333222 221 1
Q ss_pred cccccEEEecCCCCCC-cCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCC
Q 002849 466 VRENEIFRLNAPSRPY-EDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 466 ~~~~~i~Rl~~~~r~~-~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
.+...++-+....... .+........ + .. ..........|+++|...... ....+....++++|.||+-.+
T Consensus 278 ~p~~rv~ilh~t~s~~r~~~~~~~~~~---~-~~---L~r~~~~~~~ilitty~~~r~-~~d~l~~~~W~y~ILDEGH~I 349 (923)
T KOG0387|consen 278 WPPFRVFILHGTGSGARYDASHSSHKK---D-KL---LIRKVATDGGILITTYDGFRI-QGDDLLGILWDYVILDEGHRI 349 (923)
T ss_pred CcceEEEEEecCCcccccccchhhhhh---h-hh---heeeecccCcEEEEehhhhcc-cCcccccccccEEEecCcccc
Confidence 2222222222222110 0000000000 0 00 001122344577777655432 233445567999999999999
Q ss_pred ChhhhHHHhhccc-cCCcEEEEecCCCc
Q 002849 545 SEPESMVPISSYC-KKDTVVVLAGDPMQ 571 (874)
Q Consensus 545 ~epe~li~L~~l~-~~~~~vVLvGDp~Q 571 (874)
-.|.+-+.++..- ....|+||.|=|.|
T Consensus 350 rNpns~islackki~T~~RiILSGTPiQ 377 (923)
T KOG0387|consen 350 RNPNSKISLACKKIRTVHRIILSGTPIQ 377 (923)
T ss_pred cCCccHHHHHHHhccccceEEeeCcccc
Confidence 9998877776331 22458999999999
No 291
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.79 E-value=0.062 Score=61.22 Aligned_cols=149 Identities=20% Similarity=0.176 Sum_probs=76.9
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc----CCCeEEEecCCHHHHHHHHHHHhcccccccc
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR----EDARLLVCAPSNSAADHLLEKILGEKAVEVR 467 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~----~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~ 467 (874)
+|-|..-|--+|..++ ++-.+.-|||||-.-+--|+.-+... +..||||+.||...|-.+..-..+... . .
T Consensus 205 TpIQ~a~IPvallgkD---Ica~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaq-F-t 279 (691)
T KOG0338|consen 205 TPIQVATIPVALLGKD---ICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQ-F-T 279 (691)
T ss_pred CchhhhcccHHhhcch---hhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHh-h-c
Confidence 4445555554444333 24556789999976544444322222 345999999999988776554433100 0 0
Q ss_pred cccE-EEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh--hcccCCCCccEEEEEcCCCC
Q 002849 468 ENEI-FRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY--AEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 468 ~~~i-~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~--~~~~~~~~fd~ViIDEAsQ~ 544 (874)
...+ +-++.. ..+......-...+||++|..-.-... +..+.-....++|+|||-..
T Consensus 280 ~I~~~L~vGGL--------------------~lk~QE~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRM 339 (691)
T KOG0338|consen 280 DITVGLAVGGL--------------------DLKAQEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRM 339 (691)
T ss_pred cceeeeeecCc--------------------cHHHHHHHHhhCCCEEEecchhHHHHhccCCCccccceeEEEechHHHH
Confidence 0000 011110 001111112246789999986432211 22333445678999999655
Q ss_pred Chh---hhHHHhhccccCCcEEEE
Q 002849 545 SEP---ESMVPISSYCKKDTVVVL 565 (874)
Q Consensus 545 ~ep---e~li~L~~l~~~~~~vVL 565 (874)
++- +.+--|..+|.++.+-.|
T Consensus 340 LeegFademnEii~lcpk~RQTmL 363 (691)
T KOG0338|consen 340 LEEGFADEMNEIIRLCPKNRQTML 363 (691)
T ss_pred HHHHHHHHHHHHHHhcccccccee
Confidence 543 334445567776544433
No 292
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.76 E-value=0.073 Score=57.27 Aligned_cols=44 Identities=27% Similarity=0.447 Sum_probs=33.4
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
-+++.||||||||+.++.+...+++ .+.+|++++.+ ++..+|..
T Consensus 107 nl~l~G~~G~GKThLa~Ai~~~l~~--~g~sv~f~~~~-----el~~~Lk~ 150 (254)
T COG1484 107 NLVLLGPPGVGKTHLAIAIGNELLK--AGISVLFITAP-----DLLSKLKA 150 (254)
T ss_pred cEEEECCCCCcHHHHHHHHHHHHHH--cCCeEEEEEHH-----HHHHHHHH
Confidence 4899999999999999988888884 46788776653 44455543
No 293
>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=94.74 E-value=0.18 Score=44.37 Aligned_cols=33 Identities=24% Similarity=0.330 Sum_probs=26.4
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
+++.|.+|+|||++....+..+.+ .+.+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~--~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAK--RGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEC
Confidence 578899999999998887777665 467777766
No 294
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=94.71 E-value=0.054 Score=62.27 Aligned_cols=40 Identities=33% Similarity=0.521 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
..+...+.+...+... ..+++.||||||||+++.. ++..+
T Consensus 179 i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~-la~~l 218 (459)
T PRK11331 179 IPETTIETILKRLTIK--KNIILQGPPGVGKTFVARR-LAYLL 218 (459)
T ss_pred CCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHH-HHHHh
Confidence 3555556666666543 3589999999999987654 44443
No 295
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=94.71 E-value=0.37 Score=55.42 Aligned_cols=285 Identities=16% Similarity=0.106 Sum_probs=146.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHH-HHHHHHHH---------HhcCCCeEEEecCCHHHHHHHHHHH
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTL-VEAILQLY---------ATREDARLLVCAPSNSAADHLLEKI 458 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tl-ve~I~~ll---------~~~~~~rILv~ApSNsAaD~l~~rL 458 (874)
..-++-|+.||-..+..++ .|-.+-.|||||-.- .-++..+. ....+..-+++|||...|..|-+-.
T Consensus 266 ~eptpIqR~aipl~lQ~rD---~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt 342 (673)
T KOG0333|consen 266 KEPTPIQRQAIPLGLQNRD---PIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEET 342 (673)
T ss_pred CCCchHHHhhccchhccCC---eeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHH
Confidence 3458899999997777654 477888999999432 22222222 2234567789999999999988766
Q ss_pred hcccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhh-hhhhcccCCCCccEEE
Q 002849 459 LGEKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSAS-LIYAEGVDRGHFSHIF 537 (874)
Q Consensus 459 ~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~-~l~~~~~~~~~fd~Vi 537 (874)
.+.... +. ..++++....+ +++.. ...-..+.|+++|..-.- .+....+-....++|+
T Consensus 343 ~kf~~~-lg-~r~vsvigg~s--------------~EEq~-----fqls~gceiviatPgrLid~Lenr~lvl~qctyvv 401 (673)
T KOG0333|consen 343 NKFGKP-LG-IRTVSVIGGLS--------------FEEQG-----FQLSMGCEIVIATPGRLIDSLENRYLVLNQCTYVV 401 (673)
T ss_pred HHhccc-cc-ceEEEEecccc--------------hhhhh-----hhhhccceeeecCchHHHHHHHHHHHHhccCceEe
Confidence 553211 11 23333322111 11111 122356788999876432 2223334445789999
Q ss_pred EEcCCCC----ChhhhHHHhhccccCCcEEEEecCCCcccceeecchhhhcCCCccHHHHHHhcCCCCCCCccceeeccc
Q 002849 538 LDEAGQA----SEPESMVPISSYCKKDTVVVLAGDPMQLGPVIYSREAETYGMGKSYLERLFECEPYCHGNENYVTKLVR 613 (874)
Q Consensus 538 IDEAsQ~----~epe~li~L~~l~~~~~~vVLvGDp~QL~PvI~s~~a~~~gl~~SlfeRL~~~~~~~~~~~~~~~~L~~ 613 (874)
.|||... .||+..-.|. |+|.+-.+..... ..--++++....-.+ .-...++++.
T Consensus 402 ldeadrmiDmgfE~dv~~iL~----------------~mPssn~k~~tde----~~~~~~~~~~~~~~k-~yrqT~mfta 460 (673)
T KOG0333|consen 402 LDEADRMIDMGFEPDVQKILE----------------QMPSSNAKPDTDE----KEGEERVRKNFSSSK-KYRQTVMFTA 460 (673)
T ss_pred ccchhhhhcccccHHHHHHHH----------------hCCccccCCCccc----hhhHHHHHhhccccc-ceeEEEEEec
Confidence 9999543 2444443333 3333322211000 001122322211000 0001222222
Q ss_pred ccCCchhhhcccccccccccccccccccccccccccCCCCCCCCEEEEecCCCccccCCCCCccCHHHHHHHHHHHHHHH
Q 002849 614 NYRSHPQILHLPSKLFYEEELIACKDESISCTAYLNFLPNKEFPVLFFGIQGCDEREGSNPSWFNRIEVSKVVEIIQKLT 693 (874)
Q Consensus 614 nYRshp~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~pi~f~~v~g~~~~~~~s~S~~N~~Ea~~V~~~v~~L~ 693 (874)
-|+|.+-.++...+-+-- ++.++..|.... -...-++-..|-+..-. +..++
T Consensus 461 --tm~p~verlar~ylr~pv------------------------~vtig~~gk~~~-rveQ~v~m~~ed~k~kk-L~eil 512 (673)
T KOG0333|consen 461 --TMPPAVERLARSYLRRPV------------------------VVTIGSAGKPTP-RVEQKVEMVSEDEKRKK-LIEIL 512 (673)
T ss_pred --CCChHHHHHHHHHhhCCe------------------------EEEeccCCCCcc-chheEEEEecchHHHHH-HHHHH
Confidence 367777777765442211 122222222110 00001111122223222 22333
Q ss_pred HcCCCCCCeEEEEcccHHHHHHHHHHHHhcCCCCeEECccccCCCceeeEEEEEeccC
Q 002849 694 STGNLSEEDIGVITPYRQQVLKLNKALESLYMPDIKVGSVEQFQGQERQVIIVSTVRS 751 (874)
Q Consensus 694 ~~~~~~~~dIgIItPY~~Qv~~Ir~~L~~~~~~~v~V~TVd~fQG~E~dvVIiS~VRs 751 (874)
+.+ . ..-|-|.+-+.+-++.|.+.|.+.+ +++.|.|.-+|||-.-.+|...|+
T Consensus 513 ~~~-~-~ppiIIFvN~kk~~d~lAk~LeK~g---~~~~tlHg~k~qeQRe~aL~~fr~ 565 (673)
T KOG0333|consen 513 ESN-F-DPPIIIFVNTKKGADALAKILEKAG---YKVTTLHGGKSQEQRENALADFRE 565 (673)
T ss_pred HhC-C-CCCEEEEEechhhHHHHHHHHhhcc---ceEEEeeCCccHHHHHHHHHHHHh
Confidence 332 2 3457788889999999999999865 679999999999866555544444
No 296
>PHA00350 putative assembly protein
Probab=94.70 E-value=0.14 Score=58.36 Aligned_cols=46 Identities=22% Similarity=0.273 Sum_probs=29.0
Q ss_pred CEEEEcCCCCChhHHHHH-HHHHHHHhcCCCeEEEecCCHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVE-AILQLYATREDARLLVCAPSNSAADHLLEKI 458 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve-~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL 458 (874)
.+++.|.||||||..++. .|...++. .|++++--..--.+.+.+++
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk~---GR~V~TNI~Gl~le~i~~~~ 49 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALKD---GRKVITNIPGLNLDVFEKVF 49 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHHC---CCEEEECCCCCCHHHHHhhc
Confidence 479999999999999887 45555553 36555432222334444443
No 297
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.69 E-value=0.11 Score=56.86 Aligned_cols=69 Identities=23% Similarity=0.253 Sum_probs=57.8
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCe-EEEecCCHHHHHHHHHHHhcc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDAR-LLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~r-ILv~ApSNsAaD~l~~rL~~~ 461 (874)
.-++-|...|-.||..+++ +=.+--|||||...+--|.+-+..+|... -||+|||+.-|-.+.+++...
T Consensus 29 ~pTpiQ~~cIpkILeGrdc---ig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~al 98 (442)
T KOG0340|consen 29 KPTPIQQACIPKILEGRDC---IGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIAL 98 (442)
T ss_pred CCCchHhhhhHHHhccccc---ccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHHh
Confidence 4578899999999987664 66777999999998888888777766554 699999999999999999863
No 298
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.69 E-value=0.14 Score=61.74 Aligned_cols=42 Identities=24% Similarity=0.324 Sum_probs=26.7
Q ss_pred CHHHHHHHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++.-.+.+...+.....+ .+|+.||||+|||+++-..+..+.
T Consensus 21 q~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 21 QEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred CHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 344444555555433333 379999999999998766555543
No 299
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.68 E-value=0.1 Score=59.52 Aligned_cols=119 Identities=18% Similarity=0.243 Sum_probs=72.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcC--CCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCchhh
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATRE--DARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVNADH 488 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~--~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~ 488 (874)
++|.+|-|||||..-+--|.|++...+ .-|-+|+-||...+-.+..-+.... ....+ -++..+. ..++..+.
T Consensus 186 IcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~----~~tgL-~V~~~sg-q~sl~~E~ 259 (620)
T KOG0350|consen 186 ICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLN----SGTGL-AVCSLSG-QNSLEDEA 259 (620)
T ss_pred eEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhc----cCCce-EEEeccc-ccchHHHH
Confidence 699999999999888878888887653 3478999999998888877665421 11111 1222111 11122222
Q ss_pred hhhccccchhccCCchhhcccceEEEEechhhhhhh--hcccCCCCccEEEEEcCCCCC
Q 002849 489 IRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY--AEGVDRGHFSHIFLDEAGQAS 545 (874)
Q Consensus 489 ~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~--~~~~~~~~fd~ViIDEAsQ~~ 545 (874)
.+... . ......+|+++|..-.-... ..++.-.+..++|||||-..+
T Consensus 260 ~qL~~-------~---~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEADRll 308 (620)
T KOG0350|consen 260 RQLAS-------D---PPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLL 308 (620)
T ss_pred HHHhc-------C---CCccccceEEcCchHHHHhccCCCCcchhhceEEEechHHHHH
Confidence 22211 1 11236789999986443221 234445578899999995544
No 300
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=94.65 E-value=0.052 Score=57.53 Aligned_cols=48 Identities=13% Similarity=0.214 Sum_probs=35.2
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
..++|.|+||||||+.+...+..+++ ++.+++.++...... .+.+.+.
T Consensus 25 ~~~~i~G~~G~GKTtl~~~~~~~~~~--~g~~~~yi~~e~~~~-~~~~~~~ 72 (230)
T PRK08533 25 SLILIEGDESTGKSILSQRLAYGFLQ--NGYSVSYVSTQLTTT-EFIKQMM 72 (230)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHh--CCCcEEEEeCCCCHH-HHHHHHH
Confidence 36899999999999998887777765 457788888666554 4444443
No 301
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=94.64 E-value=0.043 Score=59.25 Aligned_cols=46 Identities=15% Similarity=0.219 Sum_probs=34.4
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKI 458 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL 458 (874)
.++|.||||||||+...+.+.+.++ .+.++++++.-. ..+.+.+++
T Consensus 38 ~~lI~G~pGtGKT~l~~qf~~~~a~--~Ge~vlyis~Ee-~~~~~~~~l 83 (259)
T TIGR03878 38 VINITGVSDTGKSLMVEQFAVTQAS--RGNPVLFVTVES-PANFVYTSL 83 (259)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHh--CCCcEEEEEecC-CchHHHHHH
Confidence 5899999999999998887777665 367888888764 334444444
No 302
>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=94.62 E-value=0.047 Score=57.46 Aligned_cols=49 Identities=24% Similarity=0.417 Sum_probs=35.6
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.++|.||||||||+...+.+..-++.. +.++++++..... +.+.+++..
T Consensus 21 ~~li~G~~GsGKT~l~~q~l~~~~~~~-ge~vlyvs~ee~~-~~l~~~~~s 69 (226)
T PF06745_consen 21 VVLISGPPGSGKTTLALQFLYNGLKNF-GEKVLYVSFEEPP-EELIENMKS 69 (226)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHHH-T--EEEEESSS-H-HHHHHHHHT
T ss_pred EEEEEeCCCCCcHHHHHHHHHHhhhhc-CCcEEEEEecCCH-HHHHHHHHH
Confidence 589999999999999888777666531 5788888875555 677777765
No 303
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=94.59 E-value=0.045 Score=61.15 Aligned_cols=39 Identities=26% Similarity=0.343 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHhc-----cCCCCCEEEEcCCCCChhHHHHHHHH
Q 002849 392 NEEQMCSIEKILG-----LKGAPPYLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 392 N~~Q~~AV~~il~-----~~~~~~~lI~GPPGTGKT~Tlve~I~ 430 (874)
.++.++.+...+. ....++++|+||||||||+.+...+.
T Consensus 30 ~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~ 73 (328)
T PRK00080 30 QEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIAN 73 (328)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHH
Confidence 3445555544442 22334689999999999997764443
No 304
>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=94.58 E-value=0.062 Score=58.09 Aligned_cols=38 Identities=26% Similarity=0.372 Sum_probs=23.5
Q ss_pred CHHHHHHHHHHhcc-CCCCCEEEEcCCCCChhHHHHHHH
Q 002849 392 NEEQMCSIEKILGL-KGAPPYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 392 N~~Q~~AV~~il~~-~~~~~~lI~GPPGTGKT~Tlve~I 429 (874)
++..++.++.++.. ....|.++.||||||||+.+....
T Consensus 4 t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la 42 (262)
T TIGR02640 4 TDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVA 42 (262)
T ss_pred CHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHH
Confidence 34444444444431 112578999999999998765443
No 305
>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=94.54 E-value=0.062 Score=64.49 Aligned_cols=43 Identities=26% Similarity=0.350 Sum_probs=34.3
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHH
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
-.+.++|.+.+..++.... +.++|.||.|||||||+..++..+
T Consensus 298 lg~~~~~~~~l~~~~~~~~-Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 298 LGFEPDQKALFLEAIHKPQ-GMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred cCCCHHHHHHHHHHHHhcC-CeEEEECCCCCCHHHHHHHHHHhh
Confidence 3578899999998876432 568999999999999997766554
No 306
>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=94.47 E-value=0.045 Score=56.59 Aligned_cols=36 Identities=28% Similarity=0.422 Sum_probs=25.1
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
+.++|.||+||||||++..++..+.. ..+.+|+..-
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~-~~~~~i~t~e 37 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINK-NKTHHILTIE 37 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhh-cCCcEEEEEc
Confidence 45899999999999998766655443 2344555543
No 307
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.47 E-value=0.22 Score=56.68 Aligned_cols=65 Identities=22% Similarity=0.272 Sum_probs=50.3
Q ss_pred HHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 394 EQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 394 ~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
+|+.-...++.+. ..+++.|-.|+|||+-+-..+........ ..|.++-|-..||-.++.|..+.
T Consensus 50 ~~k~~F~~~l~~n--Q~~v~vGetgsGKttQiPq~~~~~~~~~~-~~v~CTQprrvaamsva~RVadE 114 (699)
T KOG0925|consen 50 EQKEEFLKLLLNN--QIIVLVGETGSGKTTQIPQFVLEYELSHL-TGVACTQPRRVAAMSVAQRVADE 114 (699)
T ss_pred HhHHHHHHHHhcC--ceEEEEecCCCCccccCcHHHHHHHHhhc-cceeecCchHHHHHHHHHHHHHH
Confidence 5677777777654 34899999999999998877766555332 56777778889999999999874
No 308
>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=94.42 E-value=0.066 Score=60.69 Aligned_cols=35 Identities=23% Similarity=0.255 Sum_probs=26.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEE
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLV 443 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv 443 (874)
+.++|.||+||||||++..++.++....+..+|+.
T Consensus 150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 56899999999999999887776665434456654
No 309
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=94.40 E-value=0.16 Score=63.75 Aligned_cols=67 Identities=19% Similarity=0.269 Sum_probs=55.7
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
-.|++-|++|+..+-.... .+|.+|-|+|||.+.-.+|.+.+. .+.|+..+||..+-.+..-..+..
T Consensus 118 F~LD~fQ~~a~~~Ler~es---VlV~ApTssGKTvVaeyAi~~al~--~~qrviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 118 FELDPFQQEAIAILERGES---VLVCAPTSSGKTVVAEYAIALALR--DGQRVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred CCcCHHHHHHHHHHhCCCc---EEEEccCCCCcchHHHHHHHHHHH--cCCceEeccchhhhhhhHHHHHHH
Confidence 4789999999988776543 699999999999998888888776 457799999988888877777765
No 310
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=94.39 E-value=0.052 Score=59.39 Aligned_cols=37 Identities=22% Similarity=0.385 Sum_probs=28.0
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+++.||.|+|||||++.++..+.....+.+|.+++.
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 4789999999999999988887765423356665554
No 311
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.38 E-value=0.056 Score=58.29 Aligned_cols=47 Identities=28% Similarity=0.395 Sum_probs=37.9
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEK 457 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~r 457 (874)
..++|.|+||||||+...+.+...++. +.+++.+|..-.+.+.+...
T Consensus 24 ~~~lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~~~~l~~~~ 70 (260)
T COG0467 24 SVVLITGPPGTGKTIFALQFLYEGARE--GEPVLYVSTEESPEELLENA 70 (260)
T ss_pred cEEEEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEEecCCHHHHHHHH
Confidence 358999999999999999988888874 78899999876666555433
No 312
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=94.34 E-value=0.1 Score=59.32 Aligned_cols=69 Identities=23% Similarity=0.291 Sum_probs=52.2
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHH-HHHHHHHHHhc----CCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTL-VEAILQLYATR----EDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tl-ve~I~~ll~~~----~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+++-|...+.-++..++ .+..+--|||||..- +-++..+++.. ++..++|++||..-|-.+..-+.+
T Consensus 103 ~~MT~VQ~~ti~pll~gkD---vl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~ 176 (543)
T KOG0342|consen 103 ETMTPVQQKTIPPLLEGKD---VLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKE 176 (543)
T ss_pred cchhHHHHhhcCccCCCcc---ceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHH
Confidence 4689999999999888764 599999999999763 33444444432 455899999999999888766554
No 313
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=94.33 E-value=0.13 Score=62.71 Aligned_cols=132 Identities=13% Similarity=0.062 Sum_probs=73.0
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHH-HHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccccc
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAIL-QLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENE 470 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~-~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~ 470 (874)
.+-|......... + .+...+.|+|||.+.+-.+. ..+ .+..++|+|||.--|....+.+...... + ...
T Consensus 58 ~~vQlig~~~l~~--G---~Iaem~TGeGKTLva~lpa~l~aL---~G~~V~VvTpt~~LA~qdae~~~~l~~~-L-GLs 127 (745)
T TIGR00963 58 FDVQLIGGIALHK--G---KIAEMKTGEGKTLTATLPAYLNAL---TGKGVHVVTVNDYLAQRDAEWMGQVYRF-L-GLS 127 (745)
T ss_pred cchHHhhhhhhcC--C---ceeeecCCCccHHHHHHHHHHHHH---hCCCEEEEcCCHHHHHHHHHHHHHHhcc-C-CCe
Confidence 3445555443332 2 38999999999987665442 333 3568999999999998888776542110 0 001
Q ss_pred EEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhh-hhhc-------ccCCCCccEEEEEcCC
Q 002849 471 IFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASL-IYAE-------GVDRGHFSHIFLDEAG 542 (874)
Q Consensus 471 i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~-l~~~-------~~~~~~fd~ViIDEAs 542 (874)
+.-+.. .....- ......++|+++|....+. .... .+....+.++|||||-
T Consensus 128 v~~i~g------~~~~~~---------------r~~~y~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaD 186 (745)
T TIGR00963 128 VGLILS------GMSPEE---------------RREAYACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVD 186 (745)
T ss_pred EEEEeC------CCCHHH---------------HHHhcCCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHH
Confidence 111100 011100 1112347899999875521 1111 2234578999999994
Q ss_pred CCChhhhHHHhh
Q 002849 543 QASEPESMVPIS 554 (874)
Q Consensus 543 Q~~epe~li~L~ 554 (874)
....-+.-.||.
T Consensus 187 s~LIDeaRtpLi 198 (745)
T TIGR00963 187 SILIDEARTPLI 198 (745)
T ss_pred HHhHHhhhhHHh
Confidence 444334445554
No 314
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=94.32 E-value=0.14 Score=59.66 Aligned_cols=37 Identities=30% Similarity=0.327 Sum_probs=24.5
Q ss_pred HHHHHhccCCCC-CEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 398 SIEKILGLKGAP-PYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 398 AV~~il~~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
.+...+.....+ .+|+.||||||||+++...+..+..
T Consensus 28 ~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c 65 (451)
T PRK06305 28 VLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNC 65 (451)
T ss_pred HHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 344444433333 4899999999999987666655543
No 315
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=94.32 E-value=0.22 Score=55.32 Aligned_cols=51 Identities=18% Similarity=0.242 Sum_probs=35.0
Q ss_pred CCCccEEEEEcCCCCChhhhHHHhhccccC--CcEEEEec-CCCcccceeecch
Q 002849 530 RGHFSHIFLDEAGQASEPESMVPISSYCKK--DTVVVLAG-DPMQLGPVIYSRE 580 (874)
Q Consensus 530 ~~~fd~ViIDEAsQ~~epe~li~L~~l~~~--~~~vVLvG-Dp~QL~PvI~s~~ 580 (874)
.+.+.++|||+|...++...-..|..+-.+ ++.+||+. ++.+|.|+|.|.-
T Consensus 106 ~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRC 159 (319)
T PRK06090 106 LNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRC 159 (319)
T ss_pred cCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcc
Confidence 357899999999666655555555544433 34677764 5789999998753
No 316
>PRK05973 replicative DNA helicase; Provisional
Probab=94.32 E-value=0.065 Score=56.88 Aligned_cols=49 Identities=14% Similarity=0.198 Sum_probs=39.5
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..++|.|+||+|||+...+.+....+ .+.++++.+.--. .+.+.+|+..
T Consensus 65 sl~LIaG~PG~GKT~lalqfa~~~a~--~Ge~vlyfSlEes-~~~i~~R~~s 113 (237)
T PRK05973 65 DLVLLGARPGHGKTLLGLELAVEAMK--SGRTGVFFTLEYT-EQDVRDRLRA 113 (237)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHHh--cCCeEEEEEEeCC-HHHHHHHHHH
Confidence 36899999999999999988887775 3678888887555 5778888875
No 317
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.24 E-value=0.2 Score=57.57 Aligned_cols=131 Identities=19% Similarity=0.195 Sum_probs=80.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-------CCCeEEEecCCHHHHHHHHHHHhcc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-------EDARLLVCAPSNSAADHLLEKILGE 461 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-------~~~rILv~ApSNsAaD~l~~rL~~~ 461 (874)
..++.-|+++|-.+|+.++ .+|.++-|||||..-+--|.+.+... .+.=-||++||...|-.+-+-+.+.
T Consensus 158 ~~pTsVQkq~IP~lL~grD---~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKL 234 (708)
T KOG0348|consen 158 SAPTSVQKQAIPVLLEGRD---ALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKL 234 (708)
T ss_pred CccchHhhcchhhhhcCcc---eEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHH
Confidence 3568889999999999765 59999999999987666566665533 2335799999999998776555441
Q ss_pred ccccccccc-E---EEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh--hcccCCCCccE
Q 002849 462 KAVEVRENE-I---FRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY--AEGVDRGHFSH 535 (874)
Q Consensus 462 ~~~~~~~~~-i---~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~--~~~~~~~~fd~ 535 (874)
+.+.+ | +-++...+.-+ ....-....|+++|..-..... ...+......+
T Consensus 235 ----l~~~hWIVPg~lmGGEkkKSE--------------------KARLRKGiNILIgTPGRLvDHLknT~~i~~s~LRw 290 (708)
T KOG0348|consen 235 ----LKPFHWIVPGVLMGGEKKKSE--------------------KARLRKGINILIGTPGRLVDHLKNTKSIKFSRLRW 290 (708)
T ss_pred ----hcCceEEeeceeecccccccH--------------------HHHHhcCceEEEcCchHHHHHHhccchheeeeeeE
Confidence 11111 1 11222221100 0111245678888875433211 12233345789
Q ss_pred EEEEcCCCCCh
Q 002849 536 IFLDEAGQASE 546 (874)
Q Consensus 536 ViIDEAsQ~~e 546 (874)
||+|||-..+|
T Consensus 291 lVlDEaDrlle 301 (708)
T KOG0348|consen 291 LVLDEADRLLE 301 (708)
T ss_pred EEecchhHHHh
Confidence 99999966554
No 318
>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=94.22 E-value=0.044 Score=57.21 Aligned_cols=24 Identities=46% Similarity=0.750 Sum_probs=17.4
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.++.+||||+|||| ++..|++-+
T Consensus 51 ~h~lf~GPPG~GKTT-LA~IIA~e~ 74 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTT-LARIIANEL 74 (233)
T ss_dssp -EEEEESSTTSSHHH-HHHHHHHHC
T ss_pred ceEEEECCCccchhH-HHHHHHhcc
Confidence 458999999999986 455555533
No 319
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.16 E-value=0.034 Score=60.20 Aligned_cols=24 Identities=46% Similarity=0.653 Sum_probs=17.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
..++++||||||||+. +.+++|-+
T Consensus 178 RliLlhGPPGTGKTSL-CKaLaQkL 201 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTSL-CKALAQKL 201 (423)
T ss_pred eEEEEeCCCCCChhHH-HHHHHHhh
Confidence 3589999999999974 55555543
No 320
>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=94.14 E-value=0.068 Score=59.17 Aligned_cols=41 Identities=15% Similarity=0.190 Sum_probs=30.7
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHH
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
..++++-.++|...+... .+++|.||||||||+.+...+..
T Consensus 47 y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~ 87 (327)
T TIGR01650 47 YLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAAR 87 (327)
T ss_pred ccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHH
Confidence 356888888888877543 45999999999999876554443
No 321
>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=94.13 E-value=0.065 Score=54.72 Aligned_cols=50 Identities=24% Similarity=0.327 Sum_probs=36.4
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEE
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLV 443 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv 443 (874)
..++++|.+.+...+... ..++|.||+|+||||++.. +..++. +..++..
T Consensus 8 g~~~~~~~~~l~~~v~~g--~~i~I~G~tGSGKTTll~a-L~~~i~--~~~~~i~ 57 (186)
T cd01130 8 GTFSPLQAAYLWLAVEAR--KNILISGGTGSGKTTLLNA-LLAFIP--PDERIIT 57 (186)
T ss_pred CCCCHHHHHHHHHHHhCC--CEEEEECCCCCCHHHHHHH-HHhhcC--CCCCEEE
Confidence 457899999999988764 3589999999999998754 444443 3444443
No 322
>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=94.10 E-value=0.052 Score=55.08 Aligned_cols=35 Identities=29% Similarity=0.408 Sum_probs=25.5
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
|.++|.|..||||||++-+.+. ....+.++.++..
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~---~~~~~~~~~vI~n 35 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK---RNRQGERVAVIVN 35 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH---HHTTTS-EEEEEC
T ss_pred CEEEEEcCCCCCHHHHHHHHHH---HhcCCceeEEEEc
Confidence 4589999999999999887776 3346677777653
No 323
>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=94.08 E-value=0.041 Score=60.24 Aligned_cols=24 Identities=33% Similarity=0.385 Sum_probs=18.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++++.||||||||+++...+..+.
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~ 83 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILH 83 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHH
Confidence 689999999999987654444443
No 324
>CHL00181 cbbX CbbX; Provisional
Probab=94.07 E-value=0.052 Score=59.48 Aligned_cols=24 Identities=38% Similarity=0.519 Sum_probs=18.3
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++++.||||||||+++...+..+.
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~ 84 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILY 84 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHH
Confidence 479999999999987665544443
No 325
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=94.06 E-value=0.15 Score=62.77 Aligned_cols=62 Identities=16% Similarity=0.103 Sum_probs=43.7
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.+-|..+.-..+ .+ .+....-|+|||.+.+-.+.... ..+..++|+|||..-|....+.+..
T Consensus 80 ~~vQl~~~~~l~--~G---~Iaem~TGeGKTL~a~lp~~l~a--l~G~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 80 YDVQLIGALVLH--EG---NIAEMQTGEGKTLTATMPLYLNA--LEGKGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred chHHHHhHHHHc--CC---ceeeecCCCcchHHHHHHHHHHH--HcCCCeEEEeCCHHHHHHHHHHHHH
Confidence 445555544333 23 29999999999998765554222 2578999999999999888877764
No 326
>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=94.05 E-value=0.044 Score=51.54 Aligned_cols=22 Identities=41% Similarity=0.443 Sum_probs=17.7
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~l 432 (874)
++|.|+|||||||++-++...+
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 4799999999999877665554
No 327
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=94.02 E-value=0.24 Score=55.46 Aligned_cols=51 Identities=20% Similarity=0.227 Sum_probs=35.1
Q ss_pred CCCccEEEEEcCCCCChhhhHHHhhccccC--CcEEEEecC-CCcccceeecch
Q 002849 530 RGHFSHIFLDEAGQASEPESMVPISSYCKK--DTVVVLAGD-PMQLGPVIYSRE 580 (874)
Q Consensus 530 ~~~fd~ViIDEAsQ~~epe~li~L~~l~~~--~~~vVLvGD-p~QL~PvI~s~~ 580 (874)
.+.+.++|||+|...++...-..|..+-.+ ++-+||+-+ +.+|.|+|.|.-
T Consensus 106 ~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRC 159 (334)
T PRK07993 106 LGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRC 159 (334)
T ss_pred cCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcc
Confidence 357899999999655555555555544433 346677665 688999998753
No 328
>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=94.00 E-value=0.07 Score=55.15 Aligned_cols=39 Identities=36% Similarity=0.490 Sum_probs=25.5
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.+.-++|+.-+.... ..+++.||||||||+. +.++..++
T Consensus 8 Qe~aKrAL~iAAaG~--h~lLl~GppGtGKTml-A~~l~~lL 46 (206)
T PF01078_consen 8 QEEAKRALEIAAAGG--HHLLLIGPPGTGKTML-ARRLPSLL 46 (206)
T ss_dssp THHHHHHHHHHHHCC----EEEES-CCCTHHHH-HHHHHHCS
T ss_pred cHHHHHHHHHHHcCC--CCeEEECCCCCCHHHH-HHHHHHhC
Confidence 455677777666543 3589999999999975 45555554
No 329
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=93.98 E-value=0.3 Score=54.76 Aligned_cols=50 Identities=24% Similarity=0.226 Sum_probs=34.2
Q ss_pred CCCccEEEEEcCCCCChhhhHHHhhccccC--CcEEEEecC-CCcccceeecc
Q 002849 530 RGHFSHIFLDEAGQASEPESMVPISSYCKK--DTVVVLAGD-PMQLGPVIYSR 579 (874)
Q Consensus 530 ~~~fd~ViIDEAsQ~~epe~li~L~~l~~~--~~~vVLvGD-p~QL~PvI~s~ 579 (874)
.+.+.++|||+|-..++...-..|..+-.+ ++.+||+.. +.+|.|+|.|.
T Consensus 130 ~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SR 182 (342)
T PRK06964 130 RGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSR 182 (342)
T ss_pred cCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhc
Confidence 357899999999666655555555544333 345666665 58899999875
No 330
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=93.94 E-value=0.069 Score=59.36 Aligned_cols=34 Identities=29% Similarity=0.407 Sum_probs=26.4
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
.+++.||+|+|||||++.++..+.. .+.+|++++
T Consensus 116 vi~lvGpnGsGKTTt~~kLA~~l~~--~g~~V~Li~ 149 (318)
T PRK10416 116 VILVVGVNGVGKTTTIGKLAHKYKA--QGKKVLLAA 149 (318)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHh--cCCeEEEEe
Confidence 4678999999999999988876654 356777654
No 331
>PRK06835 DNA replication protein DnaC; Validated
Probab=93.94 E-value=0.074 Score=59.34 Aligned_cols=36 Identities=25% Similarity=0.329 Sum_probs=28.5
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
..++++||||||||+.+..++..++. .+.+|+.++.
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~--~g~~V~y~t~ 219 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLD--RGKSVIYRTA 219 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH--CCCeEEEEEH
Confidence 46899999999999988877777765 4567777664
No 332
>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=93.92 E-value=0.14 Score=64.61 Aligned_cols=63 Identities=25% Similarity=0.317 Sum_probs=45.7
Q ss_pred CCHHHHHH---HHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHH
Q 002849 391 LNEEQMCS---IEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEK 457 (874)
Q Consensus 391 LN~~Q~~A---V~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~r 457 (874)
..+.|.+. |...+... ...+|.+|.|||||..-.-.+..... .+.+|+|.|+|..-.+.+..+
T Consensus 246 ~r~~Q~~~~~~i~~~~~~~--~~~~~eA~TG~GKT~ayLlp~~~~~~--~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 246 YRPEQLKLAELVLDQLTHS--EKSLIEAPTGTGKTLGYLLPALYYAI--TEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred cCHHHHHHHHHHHHHhccC--CcEEEECCCCCchhHHHHHHHHHHhc--CCCeEEEEeCcHHHHHHHHHH
Confidence 45789874 44445432 45899999999999876555544433 467999999999988887654
No 333
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=93.90 E-value=0.11 Score=49.25 Aligned_cols=49 Identities=24% Similarity=0.251 Sum_probs=31.7
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHhcCCC-eEEE--e---cCCHHHHHHHHHHHhc
Q 002849 412 LIYGPPGTGKTMTLVEAILQLYATREDA-RLLV--C---APSNSAADHLLEKILG 460 (874)
Q Consensus 412 lI~GPPGTGKT~Tlve~I~~ll~~~~~~-rILv--~---ApSNsAaD~l~~rL~~ 460 (874)
-.+||||||||.+.--++..+++.+-.+ -|.. . -|.+.-++...+.|..
T Consensus 57 SfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~ 111 (127)
T PF06309_consen 57 SFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKS 111 (127)
T ss_pred EeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHH
Confidence 3899999999999877777777754222 1221 1 1355666666666654
No 334
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=93.89 E-value=0.5 Score=57.69 Aligned_cols=166 Identities=19% Similarity=0.195 Sum_probs=91.7
Q ss_pred CCCCHHHHHHHHHHhcc---C----CCCCEEEEcCCCCChhHHHHHHHHHHHHhcCC-----CeEEEecCCHHHHHHHHH
Q 002849 389 CNLNEEQMCSIEKILGL---K----GAPPYLIYGPPGTGKTMTLVEAILQLYATRED-----ARLLVCAPSNSAADHLLE 456 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~---~----~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~-----~rILv~ApSNsAaD~l~~ 456 (874)
..|-|.|++.++.+..+ . +..=.++.=-||+|||.-.+..+-.+++..|. .+.||+||+ +-+.+=.+
T Consensus 237 ~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~-sLv~nWkk 315 (776)
T KOG0390|consen 237 KILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPS-SLVNNWKK 315 (776)
T ss_pred hhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccH-HHHHHHHH
Confidence 56899999999887543 1 11224666679999999999999999999999 999999995 33333333
Q ss_pred HHhcccccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEE
Q 002849 457 KILGEKAVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHI 536 (874)
Q Consensus 457 rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~V 536 (874)
.+.+-.+. .....+.+...... .++.... +.... .......|.+...-++. .....+....++++
T Consensus 316 EF~KWl~~--~~i~~l~~~~~~~~------~w~~~~s----il~~~--~~~~~~~vli~sye~~~-~~~~~il~~~~glL 380 (776)
T KOG0390|consen 316 EFGKWLGN--HRINPLDFYSTKKS------SWIKLKS----ILFLG--YKQFTTPVLIISYETAS-DYCRKILLIRPGLL 380 (776)
T ss_pred HHHHhccc--cccceeeeecccch------hhhhhHH----HHHhh--hhheeEEEEeccHHHHH-HHHHHHhcCCCCeE
Confidence 33321000 11222333222221 0000000 00000 00011122222222222 22234455689999
Q ss_pred EEEcCCCCChhh--hHHHhhccccCCcEEEEecCCCc
Q 002849 537 FLDEAGQASEPE--SMVPISSYCKKDTVVVLAGDPMQ 571 (874)
Q Consensus 537 iIDEAsQ~~epe--~li~L~~l~~~~~~vVLvGDp~Q 571 (874)
|.||+-..-.-+ ++.+|..+-. ..||+|-|=|.|
T Consensus 381 VcDEGHrlkN~~s~~~kaL~~l~t-~rRVLLSGTp~Q 416 (776)
T KOG0390|consen 381 VCDEGHRLKNSDSLTLKALSSLKT-PRRVLLTGTPIQ 416 (776)
T ss_pred EECCCCCccchhhHHHHHHHhcCC-CceEEeeCCccc
Confidence 999995544333 3445554432 358999999999
No 335
>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=93.87 E-value=0.1 Score=54.85 Aligned_cols=48 Identities=17% Similarity=0.212 Sum_probs=38.6
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.++|.|+||+|||+.....+...++ .+.++++++... ..+.+.+++..
T Consensus 18 ~~li~G~~G~GKt~~~~~~~~~~~~--~g~~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 18 VIVVIGEYGTGKTTFSLQFLYQGLK--NGEKAMYISLEE-REERILGYAKS 65 (224)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHh--CCCeEEEEECCC-CHHHHHHHHHH
Confidence 5899999999999988887776665 368898888866 56788888765
No 336
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=93.81 E-value=0.04 Score=53.14 Aligned_cols=18 Identities=33% Similarity=0.741 Sum_probs=15.0
Q ss_pred EEEEcCCCCChhHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~ 428 (874)
+++.|||||||||.+...
T Consensus 2 ii~~G~pgsGKSt~a~~l 19 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRL 19 (143)
T ss_dssp EEEEESTTSSHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 689999999999975543
No 337
>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=93.80 E-value=0.13 Score=54.73 Aligned_cols=51 Identities=27% Similarity=0.369 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 393 EEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
+.-.+.++.+....+..+ +=|.||||.||+|.+-+.+..+.+. +.+|-|+|
T Consensus 13 ~~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~--g~~VaVlA 64 (266)
T PF03308_consen 13 PEARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRER--GKRVAVLA 64 (266)
T ss_dssp HHHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHT--T--EEEEE
T ss_pred HHHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhc--CCceEEEE
Confidence 344556666665433333 4599999999999998888888764 45555544
No 338
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=93.77 E-value=0.32 Score=56.40 Aligned_cols=131 Identities=19% Similarity=0.205 Sum_probs=85.1
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHH-HHHHHHhcCCCeEEEecC----CHHHHHHHHHHHhcccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEA-ILQLYATREDARLLVCAP----SNSAADHLLEKILGEKA 463 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~-I~~ll~~~~~~rILv~Ap----SNsAaD~l~~rL~~~~~ 463 (874)
..|-|-|..||++-|-... -.+|..+-+||||.+.--+ |..++. .+.+.|.+.| .|.--+.+.+|+.+
T Consensus 215 ~eLlPVQ~laVe~GLLeG~--nllVVSaTasGKTLIgElAGi~~~l~--~g~KmlfLvPLVALANQKy~dF~~rYs~--- 287 (830)
T COG1202 215 EELLPVQVLAVEAGLLEGE--NLLVVSATASGKTLIGELAGIPRLLS--GGKKMLFLVPLVALANQKYEDFKERYSK--- 287 (830)
T ss_pred ceecchhhhhhhhccccCC--ceEEEeccCCCcchHHHhhCcHHHHh--CCCeEEEEehhHHhhcchHHHHHHHhhc---
Confidence 5688999999999875422 2588888999999753211 223332 4788998888 45555677888854
Q ss_pred cccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCC
Q 002849 464 VEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQ 543 (874)
Q Consensus 464 ~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ 543 (874)
+.-..-+|++...-...+-+ + ....-.+|+||+.|.-+...+...+-..+..-+|+|||.-.
T Consensus 288 --LglkvairVG~srIk~~~~p--v--------------~~~t~~dADIIVGTYEGiD~lLRtg~~lgdiGtVVIDEiHt 349 (830)
T COG1202 288 --LGLKVAIRVGMSRIKTREEP--V--------------VVDTSPDADIIVGTYEGIDYLLRTGKDLGDIGTVVIDEIHT 349 (830)
T ss_pred --ccceEEEEechhhhcccCCc--c--------------ccCCCCCCcEEEeechhHHHHHHcCCcccccceEEeeeeee
Confidence 22233466665321110000 0 01122578999999999888777776778899999999944
Q ss_pred C
Q 002849 544 A 544 (874)
Q Consensus 544 ~ 544 (874)
.
T Consensus 350 L 350 (830)
T COG1202 350 L 350 (830)
T ss_pred c
Confidence 3
No 339
>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=93.70 E-value=0.098 Score=55.63 Aligned_cols=48 Identities=17% Similarity=0.168 Sum_probs=36.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.++|.||||||||+.....+...++ .+.++++++..- ..+.+.+++..
T Consensus 23 ~~lI~G~pGsGKT~la~~~l~~~~~--~ge~~lyvs~ee-~~~~i~~~~~~ 70 (237)
T TIGR03877 23 VVLLSGGPGTGKSIFSQQFLWNGLQ--MGEPGIYVALEE-HPVQVRRNMAQ 70 (237)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHH--cCCcEEEEEeeC-CHHHHHHHHHH
Confidence 5899999999999988877766554 467888888754 55567777654
No 340
>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=93.69 E-value=0.1 Score=56.49 Aligned_cols=50 Identities=22% Similarity=0.270 Sum_probs=38.9
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..++|.||||+|||+.+...+.++... .+.++++.+.-. ..+.+..|+..
T Consensus 31 ~~~~i~g~~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~-~~~~~~~r~~~ 80 (271)
T cd01122 31 ELIILTAGTGVGKTTFLREYALDLITQ-HGVRVGTISLEE-PVVRTARRLLG 80 (271)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHHh-cCceEEEEEccc-CHHHHHHHHHH
Confidence 368999999999999999888877653 267899998766 44566777654
No 341
>PRK04328 hypothetical protein; Provisional
Probab=93.68 E-value=0.1 Score=56.01 Aligned_cols=49 Identities=16% Similarity=0.167 Sum_probs=36.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..++|.||||||||+...+.+..-++ .+.++++++......+ +.+++..
T Consensus 24 s~ili~G~pGsGKT~l~~~fl~~~~~--~ge~~lyis~ee~~~~-i~~~~~~ 72 (249)
T PRK04328 24 NVVLLSGGPGTGKSIFSQQFLWNGLQ--MGEPGVYVALEEHPVQ-VRRNMRQ 72 (249)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHh--cCCcEEEEEeeCCHHH-HHHHHHH
Confidence 35899999999999988887777655 4678888887665554 6666554
No 342
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=93.62 E-value=0.12 Score=57.32 Aligned_cols=47 Identities=21% Similarity=0.263 Sum_probs=34.8
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKI 458 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL 458 (874)
.+.|.||||||||+...+.+....+ .+.+++++..-+..-...++++
T Consensus 57 iteI~G~~GsGKTtLaL~~~~~~~~--~g~~v~yId~E~~~~~~~a~~l 103 (321)
T TIGR02012 57 IIEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDPVYARKL 103 (321)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEEcccchhHHHHHHHc
Confidence 6899999999999999988888776 3567777766555444444443
No 343
>PRK06921 hypothetical protein; Provisional
Probab=93.61 E-value=0.09 Score=56.98 Aligned_cols=37 Identities=27% Similarity=0.368 Sum_probs=28.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
..++++||||||||+.+..++..+.+. .+..++.++.
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~~~-~g~~v~y~~~ 154 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELMRK-KGVPVLYFPF 154 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHhhh-cCceEEEEEH
Confidence 468999999999999988777777653 2567777664
No 344
>PHA02533 17 large terminase protein; Provisional
Probab=93.59 E-value=1.1 Score=53.51 Aligned_cols=68 Identities=15% Similarity=0.068 Sum_probs=54.2
Q ss_pred CCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 390 NLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.|++.|+..+..+... ...+|.=|=..|||++++..++......++.+|+++|++...|..+.+++..
T Consensus 59 ~L~p~Q~~i~~~~~~~---R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~ 126 (534)
T PHA02533 59 QMRDYQKDMLKIMHKN---RFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQ 126 (534)
T ss_pred CCcHHHHHHHHHHhcC---eEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 5899999999876432 2357888899999999987665544445778999999999999999988864
No 345
>PRK08939 primosomal protein DnaI; Reviewed
Probab=93.57 E-value=0.14 Score=56.61 Aligned_cols=36 Identities=19% Similarity=0.215 Sum_probs=28.0
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
..+++.||||||||+.+..++.++.. .+..++++..
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l~~--~g~~v~~~~~ 192 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANELAK--KGVSSTLLHF 192 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH--cCCCEEEEEH
Confidence 35899999999999999988888775 3556665544
No 346
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=93.56 E-value=0.094 Score=54.79 Aligned_cols=35 Identities=26% Similarity=0.481 Sum_probs=28.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.++|.|+||||||+.+.+.+..... .+.++++.+.
T Consensus 21 i~~i~G~~GsGKT~l~~~~a~~~~~--~g~~v~yi~~ 55 (218)
T cd01394 21 VTQVYGPPGTGKTNIAIQLAVETAG--QGKKVAYIDT 55 (218)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEEC
Confidence 5899999999999999988887765 3567777643
No 347
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=93.53 E-value=0.11 Score=54.99 Aligned_cols=48 Identities=21% Similarity=0.284 Sum_probs=37.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
.++|.|+||||||+.+...+.+.+.. .+.++++++.-..+. .+.+|+.
T Consensus 15 l~lI~G~~G~GKT~~~~~~~~~~~~~-~g~~vly~s~E~~~~-~~~~r~~ 62 (242)
T cd00984 15 LIIIAARPSMGKTAFALNIAENIAKK-QGKPVLFFSLEMSKE-QLLQRLL 62 (242)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHHh-CCCceEEEeCCCCHH-HHHHHHH
Confidence 68999999999999999988887764 368999999866555 4555554
No 348
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=93.49 E-value=0.16 Score=55.01 Aligned_cols=48 Identities=23% Similarity=0.230 Sum_probs=33.6
Q ss_pred HHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 396 MCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 396 ~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
++++..+....+.++ +=|.|+||.||+|.+-..+..+.. .+.||-|+|
T Consensus 38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~--~G~rVaVlA 86 (323)
T COG1703 38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRE--RGHRVAVLA 86 (323)
T ss_pred HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHH--CCcEEEEEE
Confidence 355555554444453 459999999999998888888865 456665554
No 349
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=93.47 E-value=0.12 Score=53.47 Aligned_cols=37 Identities=24% Similarity=0.390 Sum_probs=29.3
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSN 448 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSN 448 (874)
.+.|.||||||||+...+.+...... +.+++.++..+
T Consensus 14 i~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~ 50 (209)
T TIGR02237 14 ITQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG 50 (209)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC
Confidence 58999999999999998887777653 56777776654
No 350
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=93.47 E-value=0.51 Score=51.60 Aligned_cols=49 Identities=18% Similarity=0.255 Sum_probs=32.5
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhcccc--CCcEEEEecCC-Ccccceeecc
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCK--KDTVVVLAGDP-MQLGPVIYSR 579 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~--~~~~vVLvGDp-~QL~PvI~s~ 579 (874)
+.+.++|||+|...++...-..|..+-. .++.+||+.+. .+|.|+|.|.
T Consensus 94 ~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SR 145 (290)
T PRK05917 94 SPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSR 145 (290)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhc
Confidence 5799999999955554444444443333 24567777775 7888888764
No 351
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=93.41 E-value=0.096 Score=60.00 Aligned_cols=19 Identities=53% Similarity=0.943 Sum_probs=15.4
Q ss_pred CEEEEcCCCCChhHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~ 428 (874)
-+++.||||||||+++...
T Consensus 167 gvLL~GppGtGKT~lAkai 185 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAV 185 (389)
T ss_pred ceEEECCCCCChHHHHHHH
Confidence 3899999999999865443
No 352
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=93.41 E-value=0.18 Score=57.23 Aligned_cols=69 Identities=26% Similarity=0.394 Sum_probs=45.6
Q ss_pred CHHHHHHHHHHhc----cCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCC-eEEEecCCHHHHHHHHHHHhc
Q 002849 392 NEEQMCSIEKILG----LKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDA-RLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 392 N~~Q~~AV~~il~----~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~-rILv~ApSNsAaD~l~~rL~~ 460 (874)
=++|...+..++. +..+.-.+|.||||||||.|+-..+.++....+.. -+-|=|..+..-..+..++..
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence 4667777666653 22222389999999999999988887776644433 355555566666666666654
No 353
>PHA00729 NTP-binding motif containing protein
Probab=93.39 E-value=0.065 Score=56.28 Aligned_cols=23 Identities=26% Similarity=0.499 Sum_probs=18.5
Q ss_pred CEEEEcCCCCChhHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
-++|.|+||||||+.+..++..+
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDV 41 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 47999999999999776655544
No 354
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=93.39 E-value=0.17 Score=58.42 Aligned_cols=133 Identities=20% Similarity=0.219 Sum_probs=82.7
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHH-HHHhc----CCCeEEEecCCHHHHHHHHHHHhcccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQ-LYATR----EDARLLVCAPSNSAADHLLEKILGEKA 463 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~-ll~~~----~~~rILv~ApSNsAaD~l~~rL~~~~~ 463 (874)
..+++-|++.|-.+|..++ +|=.+--|||||...+--+++ |+... .+--.||++||...|-.+.+-|.+.+.
T Consensus 90 v~~teiQ~~~Ip~aL~G~D---vlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvgk 166 (758)
T KOG0343|consen 90 VKMTEIQRDTIPMALQGHD---VLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVGK 166 (758)
T ss_pred ccHHHHHHhhcchhccCcc---cccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHhh
Confidence 4578999999999998754 366667899999775544444 33322 355799999999999999888876321
Q ss_pred cc-cccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhc--ccCCCCccEEEEEc
Q 002849 464 VE-VRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAE--GVDRGHFSHIFLDE 540 (874)
Q Consensus 464 ~~-~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~--~~~~~~fd~ViIDE 540 (874)
.+ +..+- -++.. ++. -..+.+.+..|++||..-.-..+.. .+.......+|+||
T Consensus 167 ~h~fSaGL--iiGG~-----~~k----------------~E~eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDE 223 (758)
T KOG0343|consen 167 HHDFSAGL--IIGGK-----DVK----------------FELERISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDE 223 (758)
T ss_pred ccccccce--eecCc-----hhH----------------HHHHhhhcCCeEEechHHHHHHhhhcCCCCCCcceEEEecc
Confidence 11 00000 01110 000 0134457788999998644322222 23344567899999
Q ss_pred CCCCChh
Q 002849 541 AGQASEP 547 (874)
Q Consensus 541 AsQ~~ep 547 (874)
|-.+.+.
T Consensus 224 ADR~LDM 230 (758)
T KOG0343|consen 224 ADRMLDM 230 (758)
T ss_pred HHHHHHH
Confidence 9666553
No 355
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=93.31 E-value=0.32 Score=54.25 Aligned_cols=24 Identities=33% Similarity=0.344 Sum_probs=19.3
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
-+++.||+|+|||+.+...+..++
T Consensus 23 A~Lf~G~~G~GK~~la~~~a~~ll 46 (325)
T PRK08699 23 AWLFAGKKGIGKTAFARFAAQALL 46 (325)
T ss_pred EEEeECCCCCCHHHHHHHHHHHHc
Confidence 388999999999988776665554
No 356
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=93.24 E-value=0.18 Score=58.17 Aligned_cols=64 Identities=23% Similarity=0.326 Sum_probs=51.2
Q ss_pred CHHHHHHHHHHhcc--CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 392 NEEQMCSIEKILGL--KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 392 N~~Q~~AV~~il~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.-.|-+||..+... .+...-.+.|.-|||||.|++..|.++ +..-||+||+...|..|..-+..
T Consensus 14 aGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~-----~rPtLV~AhNKTLAaQLy~Efk~ 79 (663)
T COG0556 14 AGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV-----QRPTLVLAHNKTLAAQLYSEFKE 79 (663)
T ss_pred CCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh-----CCCeEEEecchhHHHHHHHHHHH
Confidence 34688888888753 223346899999999999999988764 35689999999999999988876
No 357
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.20 E-value=0.18 Score=57.66 Aligned_cols=50 Identities=18% Similarity=0.302 Sum_probs=33.3
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC-C-HHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP-S-NSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap-S-NsAaD~l~~rL~~ 460 (874)
.+++.||+|+|||||++..+...... .+.+|++++. + ..|+.....+..+
T Consensus 225 vi~lvGptGvGKTTtaaKLA~~~~~~-~G~~V~Lit~Dt~R~aA~eQLk~yAe 276 (432)
T PRK12724 225 VVFFVGPTGSGKTTSIAKLAAKYFLH-MGKSVSLYTTDNYRIAAIEQLKRYAD 276 (432)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHh-cCCeEEEecccchhhhHHHHHHHHHH
Confidence 47899999999999999988765432 4567766654 2 2444444444443
No 358
>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=93.19 E-value=0.11 Score=60.03 Aligned_cols=39 Identities=23% Similarity=0.274 Sum_probs=28.1
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEE-ecCCHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLV-CAPSNS 449 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv-~ApSNs 449 (874)
.+++.|+||+|||||++..+..+... .+.+|++ .+-+..
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~-~g~kV~lV~~D~~R 140 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKK-QGKKVLLVACDLYR 140 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHh-CCCeEEEEeccccc
Confidence 47899999999999999988886532 3456554 444443
No 359
>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=93.15 E-value=0.088 Score=57.02 Aligned_cols=49 Identities=29% Similarity=0.375 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 393 EEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 393 ~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
+...+.+...+... ..++|.||+||||||++..++..+-. ...+|+++-
T Consensus 114 ~~~~~~l~~~v~~~--~~ili~G~tGSGKTT~l~all~~i~~--~~~~iv~iE 162 (270)
T PF00437_consen 114 EEIAEFLRSAVRGR--GNILISGPTGSGKTTLLNALLEEIPP--EDERIVTIE 162 (270)
T ss_dssp HHHHHHHHHCHHTT--EEEEEEESTTSSHHHHHHHHHHHCHT--TTSEEEEEE
T ss_pred HHHHHHHhhccccc--eEEEEECCCccccchHHHHHhhhccc--cccceEEec
Confidence 44444555443333 45899999999999999765543322 125666544
No 360
>PRK12608 transcription termination factor Rho; Provisional
Probab=93.12 E-value=0.14 Score=57.73 Aligned_cols=63 Identities=21% Similarity=0.292 Sum_probs=42.0
Q ss_pred HHHHHHhc-cCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCC--eEEEecCCHHHHHHHHHHHhc
Q 002849 397 CSIEKILG-LKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDA--RLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 397 ~AV~~il~-~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~--rILv~ApSNsAaD~l~~rL~~ 460 (874)
++|..++- .++ .-.+|+||||||||+.+...+..+..++++. .++++.....-+.++.+.+..
T Consensus 122 RvID~l~PiGkG-QR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~ 187 (380)
T PRK12608 122 RVVDLVAPIGKG-QRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKG 187 (380)
T ss_pred hhhhheeecCCC-ceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhh
Confidence 46655542 121 2369999999999999988777776654443 355566666666777777653
No 361
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=93.10 E-value=0.15 Score=62.94 Aligned_cols=47 Identities=11% Similarity=-0.002 Sum_probs=36.3
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 412 LIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 412 lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
+...+.|+|||.+.+-.+..... .+..++|+|||.--|....+.+..
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~al--~G~~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNAI--SGRGVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred cccccCCCCchHHHHHHHHHHHh--cCCCEEEEcCCHHHHHHHHHHHHH
Confidence 78889999999987655543222 456799999999988888877764
No 362
>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=93.08 E-value=0.15 Score=43.10 Aligned_cols=22 Identities=32% Similarity=0.374 Sum_probs=16.8
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~l 432 (874)
+.|.|+||+|||+.+......+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999998766555444
No 363
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=93.08 E-value=0.073 Score=52.45 Aligned_cols=21 Identities=38% Similarity=0.455 Sum_probs=16.4
Q ss_pred EEEEcCCCCChhHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ 431 (874)
+.|.|||||||||+...++.+
T Consensus 3 ItIsG~pGsG~TTva~~lAe~ 23 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEH 23 (179)
T ss_pred EEeccCCCCChhHHHHHHHHH
Confidence 579999999999876654443
No 364
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=93.07 E-value=0.13 Score=54.15 Aligned_cols=36 Identities=25% Similarity=0.465 Sum_probs=29.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPS 447 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApS 447 (874)
.++|.||||||||+.+.+.+...++. +.++++++.-
T Consensus 25 i~~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~e 60 (225)
T PRK09361 25 ITQIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDTE 60 (225)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEECC
Confidence 58999999999999999888877763 5677776654
No 365
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=93.07 E-value=1 Score=55.05 Aligned_cols=70 Identities=21% Similarity=0.241 Sum_probs=51.5
Q ss_pred CCCHHHHHHHHHHh---ccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 390 NLNEEQMCSIEKIL---GLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 390 ~LN~~Q~~AV~~il---~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.+++.|.+|++... ..+. ...+|.+.=|=|||..+=-.+..+.......+|.|+|||-.|++.+.+-+.+
T Consensus 211 ~~T~dQ~~~l~~~~~l~~~~~-~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~ 283 (758)
T COG1444 211 CLTEDQAEALEILERLLDAPK-RALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGK 283 (758)
T ss_pred hcChhHHHHHHHHHHHHcCCC-ceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHHH
Confidence 56788888766553 3332 3689999999999998765553333322246999999999999999888765
No 366
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=93.01 E-value=0.12 Score=52.11 Aligned_cols=45 Identities=18% Similarity=0.198 Sum_probs=34.2
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
++|.||||||||+.....+.. .+.+++.++-....-+++.+|+..
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHHHHHHHHH
Confidence 699999999999986655433 345777777776667778888865
No 367
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=93.00 E-value=0.16 Score=53.69 Aligned_cols=49 Identities=20% Similarity=0.322 Sum_probs=37.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..++|.|+||||||+.....+...++ .+.++++++..+.. +.+.+++..
T Consensus 26 ~~~~i~G~~GsGKt~l~~~~~~~~~~--~g~~~~y~~~e~~~-~~~~~~~~~ 74 (234)
T PRK06067 26 SLILIEGDHGTGKSVLSQQFVYGALK--QGKKVYVITTENTS-KSYLKQMES 74 (234)
T ss_pred cEEEEECCCCCChHHHHHHHHHHHHh--CCCEEEEEEcCCCH-HHHHHHHHH
Confidence 35899999999999988877766655 46899999987654 566666654
No 368
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=92.98 E-value=0.12 Score=56.79 Aligned_cols=40 Identities=30% Similarity=0.336 Sum_probs=29.3
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec-CCHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA-PSNSAA 451 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A-pSNsAa 451 (874)
.+++.|.-|+||||||..++.++.+ .+.+|++.| -|=+|+
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~~--~g~~VllaA~DTFRAa 181 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLKQ--QGKSVLLAAGDTFRAA 181 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHHH--CCCeEEEEecchHHHH
Confidence 4689999999999999998877765 456665544 444443
No 369
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=92.96 E-value=0.16 Score=57.38 Aligned_cols=26 Identities=31% Similarity=0.410 Sum_probs=21.6
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
+.++|.||.|||||||+..++..+..
T Consensus 135 glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 135 GIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 57999999999999999776665554
No 370
>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=92.93 E-value=0.09 Score=48.62 Aligned_cols=23 Identities=43% Similarity=0.716 Sum_probs=19.1
Q ss_pred EEEcCCCCChhHHHHHHHHHHHH
Q 002849 412 LIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 412 lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
.|+||||+|||+.+-.++..++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~ 24 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLK 24 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH
Confidence 68999999999988776666664
No 371
>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=92.90 E-value=0.082 Score=53.49 Aligned_cols=18 Identities=28% Similarity=0.589 Sum_probs=15.0
Q ss_pred EEEEcCCCCChhHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~ 428 (874)
++|.|||||||||....+
T Consensus 2 i~i~G~pGsGKst~a~~l 19 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKI 19 (183)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 689999999999875543
No 372
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=92.84 E-value=0.09 Score=52.91 Aligned_cols=24 Identities=46% Similarity=0.697 Sum_probs=18.4
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
++|.|+||+||||.+...+..+-+
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~ 25 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKK 25 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHHHHhhc
Confidence 689999999999988776655543
No 373
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.79 E-value=0.13 Score=60.16 Aligned_cols=37 Identities=19% Similarity=0.342 Sum_probs=27.8
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
..+.+.||.|+|||||++.++..+.......+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 3589999999999999999887765443344665554
No 374
>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=92.76 E-value=0.14 Score=60.19 Aligned_cols=22 Identities=41% Similarity=0.726 Sum_probs=16.8
Q ss_pred CEEEEcCCCCChhHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
-++++||||||||+++...+.+
T Consensus 218 GILLyGPPGTGKT~LAKAlA~e 239 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANS 239 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHh
Confidence 4899999999999865444433
No 375
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=92.75 E-value=0.14 Score=62.84 Aligned_cols=42 Identities=33% Similarity=0.455 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHhc----cCCCC-CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILG----LKGAP-PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~----~~~~~-~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
=++|.+.|..++. ..+.. .++|.|+||||||.|+...+.++.
T Consensus 760 REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 760 REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence 3566666666653 22222 246999999999999888776654
No 376
>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=92.74 E-value=0.15 Score=57.50 Aligned_cols=35 Identities=26% Similarity=0.427 Sum_probs=25.2
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEe
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVC 444 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ 444 (874)
+.++|.||+|+|||||+...+..+.. ..+.+|+.+
T Consensus 123 g~ili~G~tGSGKTT~l~al~~~i~~-~~~~~i~ti 157 (343)
T TIGR01420 123 GLILVTGPTGSGKSTTLASMIDYINK-NAAGHIITI 157 (343)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhhCc-CCCCEEEEE
Confidence 56899999999999999776655432 234566654
No 377
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.74 E-value=0.14 Score=58.85 Aligned_cols=42 Identities=21% Similarity=0.234 Sum_probs=27.5
Q ss_pred CHHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
++.-.+.+...+.....+. +|++||||+|||+++-..+..+.
T Consensus 21 q~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~ 63 (397)
T PRK14955 21 QEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVN 63 (397)
T ss_pred hHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhc
Confidence 3444455566665444444 88999999999987665554443
No 378
>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=92.72 E-value=0.093 Score=53.14 Aligned_cols=22 Identities=27% Similarity=0.412 Sum_probs=17.6
Q ss_pred CCEEEEcCCCCChhHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~ 430 (874)
+.++|.|||||||||.+..++.
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~ 25 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVE 25 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 5689999999999987655443
No 379
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=92.69 E-value=0.16 Score=52.90 Aligned_cols=39 Identities=23% Similarity=0.288 Sum_probs=28.1
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhc----CCCeEEEecCCHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATR----EDARLLVCAPSNSA 450 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~----~~~rILv~ApSNsA 450 (874)
++|.||||+||||.+-+++.- +... .+.++.++--+|.-
T Consensus 140 tLiigpP~~GKTTlLRdiaR~-~s~g~~~~l~kkv~IiDersEI 182 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARL-LSDGINQFLPKKVGIIDERSEI 182 (308)
T ss_pred eEEecCCCCChHHHHHHHHHH-hhccccccCCceEEEEeccchh
Confidence 799999999999988876554 4333 56677776655543
No 380
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=92.69 E-value=0.18 Score=55.96 Aligned_cols=47 Identities=21% Similarity=0.270 Sum_probs=34.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKI 458 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL 458 (874)
.+.|.||||||||+.+.+.+....+ .+.+++++..-+..-...++++
T Consensus 57 iteI~Gp~GsGKTtLal~~~~~~~~--~g~~~vyId~E~~~~~~~a~~l 103 (325)
T cd00983 57 IIEIYGPESSGKTTLALHAIAEAQK--LGGTVAFIDAEHALDPVYAKKL 103 (325)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH--cCCCEEEECccccHHHHHHHHc
Confidence 6899999999999999988887765 3567777776554443333333
No 381
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=92.68 E-value=0.27 Score=55.30 Aligned_cols=128 Identities=19% Similarity=0.158 Sum_probs=74.4
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-------CCCeEEEecCCHHHHHHHHHHHhccccc
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-------EDARLLVCAPSNSAADHLLEKILGEKAV 464 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-------~~~rILv~ApSNsAaD~l~~rL~~~~~~ 464 (874)
|--|..||--+|.+++ ++..+--|||||-+-+--+.|.+-.. .+-.-+|++||...|..+..-+.+...
T Consensus 43 TlIQs~aIplaLEgKD---vvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~~- 118 (569)
T KOG0346|consen 43 TLIQSSAIPLALEGKD---VVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLVE- 118 (569)
T ss_pred chhhhcccchhhcCcc---eeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHHH-
Confidence 5568889988898764 58999999999987554444443221 234678899999988876555443100
Q ss_pred ccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhccc--CCCCccEEEEEcC
Q 002849 465 EVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGV--DRGHFSHIFLDEA 541 (874)
Q Consensus 465 ~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~--~~~~fd~ViIDEA 541 (874)
... ..+|....+. ++.+...+ ...+...+||++|....-.....+. ...+..+++||||
T Consensus 119 -~c~-k~lr~~nl~s---~~sdsv~~-------------~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEA 179 (569)
T KOG0346|consen 119 -YCS-KDLRAINLAS---SMSDSVNS-------------VALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEA 179 (569)
T ss_pred -HHH-Hhhhhhhhhc---ccchHHHH-------------HHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEechh
Confidence 000 0111111000 01111111 1223567899999876544333332 3457889999999
No 382
>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=92.67 E-value=0.12 Score=54.97 Aligned_cols=34 Identities=24% Similarity=0.413 Sum_probs=27.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
++|.|++|||||+.+..++..+-+. -..|.++|+
T Consensus 16 ~viIG~sGSGKT~li~~lL~~~~~~--f~~I~l~t~ 49 (241)
T PF04665_consen 16 MVIIGKSGSGKTTLIKSLLYYLRHK--FDHIFLITP 49 (241)
T ss_pred EEEECCCCCCHHHHHHHHHHhhccc--CCEEEEEec
Confidence 6899999999999998887665543 267777777
No 383
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=92.67 E-value=0.11 Score=59.13 Aligned_cols=19 Identities=53% Similarity=0.957 Sum_probs=15.5
Q ss_pred EEEEcCCCCChhHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I 429 (874)
+++.||||||||+++...+
T Consensus 159 vLL~GppGtGKT~lakaia 177 (364)
T TIGR01242 159 VLLYGPPGTGKTLLAKAVA 177 (364)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 7999999999998655443
No 384
>PRK06851 hypothetical protein; Provisional
Probab=92.65 E-value=0.063 Score=60.48 Aligned_cols=39 Identities=26% Similarity=0.390 Sum_probs=27.1
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSN 448 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSN 448 (874)
.++|.|+|||||||.+...+..+.+.+-.--+.-|+.-+
T Consensus 216 ~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dP 254 (367)
T PRK06851 216 RYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDP 254 (367)
T ss_pred EEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCC
Confidence 489999999999999888777776643222333444433
No 385
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=92.51 E-value=0.27 Score=58.99 Aligned_cols=161 Identities=18% Similarity=0.196 Sum_probs=92.1
Q ss_pred CCCCHHHHHHHHHHhc--cCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILG--LKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~--~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..|-+.|.--|...+- ..+. --|+---=|=|||--++.-.+.|.+.+.+..-||+.||- ..++-.+-+.+ ..
T Consensus 398 i~LkdYQlvGvNWL~Llyk~~l-~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsS-TleNWlrEf~k----wC 471 (941)
T KOG0389|consen 398 IQLKDYQLVGVNWLLLLYKKKL-NGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSS-TLENWLREFAK----WC 471 (941)
T ss_pred CcccchhhhhHHHHHHHHHccc-cceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecch-hHHHHHHHHHH----hC
Confidence 4578888887766542 1111 124444689999998888777777777777889999974 45555555554 23
Q ss_pred ccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhh--hhhcccCCCCccEEEEEcCCCC
Q 002849 467 RENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASL--IYAEGVDRGHFSHIFLDEAGQA 544 (874)
Q Consensus 467 ~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~--l~~~~~~~~~fd~ViIDEAsQ~ 544 (874)
+.-.+.-+..+.... .++. +.+. ..-..++|+++|..-+.. -....+...+|++||.||+-..
T Consensus 472 Psl~Ve~YyGSq~ER----~~lR------~~i~-----~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmL 536 (941)
T KOG0389|consen 472 PSLKVEPYYGSQDER----RELR------ERIK-----KNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHML 536 (941)
T ss_pred CceEEEeccCcHHHH----HHHH------HHHh-----ccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhh
Confidence 332332222211000 0000 0000 011278899999875542 2223455678999999999443
Q ss_pred Chh--hhHHHhhccccCCcEEEEecCCCc
Q 002849 545 SEP--ESMVPISSYCKKDTVVVLAGDPMQ 571 (874)
Q Consensus 545 ~ep--e~li~L~~l~~~~~~vVLvGDp~Q 571 (874)
-.. +-+.-|..+. .+-|+.|.|=|-|
T Consensus 537 KN~~SeRy~~LM~I~-An~RlLLTGTPLQ 564 (941)
T KOG0389|consen 537 KNRTSERYKHLMSIN-ANFRLLLTGTPLQ 564 (941)
T ss_pred hccchHHHHHhcccc-ccceEEeeCCccc
Confidence 222 2233333232 3458999999999
No 386
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.38 E-value=1.1 Score=48.52 Aligned_cols=46 Identities=22% Similarity=0.353 Sum_probs=30.3
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC-CH--HHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP-SN--SAADHLLE 456 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap-SN--sAaD~l~~ 456 (874)
..+.+.||+|+|||+++..+...+.. .+.++.+++. +. .++..+..
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l~~--~~~~v~~i~~D~~ri~~~~ql~~ 124 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQFHG--KKKTVGFITTDHSRIGTVQQLQD 124 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHHHH--cCCeEEEEecCCCCHHHHHHHHH
Confidence 35799999999999998877766543 3455655544 33 24444443
No 387
>PRK08118 topology modulation protein; Reviewed
Probab=92.35 E-value=0.11 Score=52.21 Aligned_cols=16 Identities=25% Similarity=0.499 Sum_probs=13.6
Q ss_pred EEEEcCCCCChhHHHH
Q 002849 411 YLIYGPPGTGKTMTLV 426 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlv 426 (874)
++|.||||+||||.+.
T Consensus 4 I~I~G~~GsGKSTlak 19 (167)
T PRK08118 4 IILIGSGGSGKSTLAR 19 (167)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6899999999997543
No 388
>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=92.34 E-value=0.18 Score=59.51 Aligned_cols=61 Identities=21% Similarity=0.295 Sum_probs=42.3
Q ss_pred HHHHHHhcc--CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 397 CSIEKILGL--KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 397 ~AV~~il~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+...+.. .....++|.||||||||+.+...+...++ .+.+++++++-. ..+.+.+|...
T Consensus 250 ~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~--~ge~~~y~s~eE-s~~~i~~~~~~ 312 (484)
T TIGR02655 250 VRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACA--NKERAILFAYEE-SRAQLLRNAYS 312 (484)
T ss_pred HhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEEeeC-CHHHHHHHHHH
Confidence 334455543 11135899999999999999888887776 467899999744 44566666654
No 389
>PHA02244 ATPase-like protein
Probab=92.34 E-value=0.19 Score=56.39 Aligned_cols=31 Identities=26% Similarity=0.425 Sum_probs=21.2
Q ss_pred HHHHHHhccCCCCCEEEEcCCCCChhHHHHHHH
Q 002849 397 CSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 397 ~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I 429 (874)
..+..++... .|++|.||||||||+.+..+.
T Consensus 110 ~ri~r~l~~~--~PVLL~GppGtGKTtLA~aLA 140 (383)
T PHA02244 110 ADIAKIVNAN--IPVFLKGGAGSGKNHIAEQIA 140 (383)
T ss_pred HHHHHHHhcC--CCEEEECCCCCCHHHHHHHHH
Confidence 3444445432 479999999999998665433
No 390
>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=92.29 E-value=0.23 Score=52.28 Aligned_cols=48 Identities=17% Similarity=0.261 Sum_probs=33.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
..++|.|+||||||+.+...+...++ ++.++++.+.-.. ++.+.++..
T Consensus 21 ~~~~i~G~~G~GKT~l~~~~~~~~~~--~g~~~~~is~e~~-~~~i~~~~~ 68 (229)
T TIGR03881 21 FFVAVTGEPGTGKTIFCLHFAYKGLR--DGDPVIYVTTEES-RESIIRQAA 68 (229)
T ss_pred eEEEEECCCCCChHHHHHHHHHHHHh--cCCeEEEEEccCC-HHHHHHHHH
Confidence 35899999999999998887766664 4567777766333 355555543
No 391
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.27 E-value=0.28 Score=57.06 Aligned_cols=135 Identities=25% Similarity=0.323 Sum_probs=80.0
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc------CCCeEEEecCCHHHHHHHHHHHhcccccc
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR------EDARLLVCAPSNSAADHLLEKILGEKAVE 465 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~------~~~rILv~ApSNsAaD~l~~rL~~~~~~~ 465 (874)
.+.|++|+-..+..++ .+-++|-|+|||..-.-=|.+-++.. .+-+.+|++|+..-|..+.....+..
T Consensus 160 t~iq~~aipvfl~~r~---~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~--- 233 (593)
T KOG0344|consen 160 TPIQKQAIPVFLEKRD---VLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYS--- 233 (593)
T ss_pred Ccccchhhhhhhcccc---eEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcC---
Confidence 6778899988887644 69999999999654322222222211 24589999999999988887776521
Q ss_pred cccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcc---cCCCCccEEEEEcCC
Q 002849 466 VRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEG---VDRGHFSHIFLDEAG 542 (874)
Q Consensus 466 ~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~---~~~~~fd~ViIDEAs 542 (874)
.....-+|....+.. ..+. ..+.......++++++|..........+ +.-.+..++++|||.
T Consensus 234 ~~~~t~~~a~~~~~~--~~~~-------------qk~a~~~~~k~dili~TP~ri~~~~~~~~~~idl~~V~~lV~dEaD 298 (593)
T KOG0344|consen 234 IDEGTSLRAAQFSKP--AYPS-------------QKPAFLSDEKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEAD 298 (593)
T ss_pred CCCCCchhhhhcccc--cchh-------------hccchhHHHHHHHHhcCHHHHHHHhcCCCccchhheeeeEeechHH
Confidence 112222222111110 0000 0011122246777888877654433332 233478899999999
Q ss_pred CCChh
Q 002849 543 QASEP 547 (874)
Q Consensus 543 Q~~ep 547 (874)
.+.+|
T Consensus 299 ~lfe~ 303 (593)
T KOG0344|consen 299 LLFEP 303 (593)
T ss_pred hhhCh
Confidence 99999
No 392
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=92.23 E-value=0.21 Score=55.92 Aligned_cols=44 Identities=25% Similarity=0.176 Sum_probs=28.4
Q ss_pred HHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEE
Q 002849 395 QMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLV 443 (874)
Q Consensus 395 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv 443 (874)
..+.+..++..+ ..++|.||+||||||++..++.. + .+..||+.
T Consensus 149 ~~~~L~~~v~~~--~nili~G~tgSGKTTll~aL~~~-i--p~~~ri~t 192 (332)
T PRK13900 149 IKEFLEHAVISK--KNIIISGGTSTGKTTFTNAALRE-I--PAIERLIT 192 (332)
T ss_pred HHHHHHHHHHcC--CcEEEECCCCCCHHHHHHHHHhh-C--CCCCeEEE
Confidence 445555555544 34899999999999998654433 2 23456654
No 393
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=92.19 E-value=0.16 Score=60.13 Aligned_cols=23 Identities=35% Similarity=0.466 Sum_probs=18.1
Q ss_pred CCEEEEcCCCCChhHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
...++.||||||||+|+-.++..
T Consensus 46 ~iLlLtGP~G~GKtttv~~La~e 68 (519)
T PF03215_consen 46 RILLLTGPSGCGKTTTVKVLAKE 68 (519)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 46899999999999987554443
No 394
>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=92.19 E-value=0.25 Score=59.26 Aligned_cols=44 Identities=25% Similarity=0.410 Sum_probs=36.3
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.|+|.|-+|+|||+.|..+. + .-.-||+.-|..||.++-.+|..
T Consensus 61 ~ylITGtAGaGKStsIq~L~-~------~ldCviTGaT~vAaQNls~~L~~ 104 (818)
T PF02689_consen 61 VYLITGTAGAGKSTSIQTLA-E------NLDCVITGATVVAAQNLSSKLSR 104 (818)
T ss_pred EEEEeccCCCCccchHHHHH-h------hhCeEEecchhhhHhHHHHHhcc
Confidence 48999999999999765322 2 24689999999999999999984
No 395
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=92.12 E-value=0.17 Score=57.14 Aligned_cols=38 Identities=21% Similarity=0.376 Sum_probs=30.3
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
..+.+.||-|-|||||++.++++........+|-++|-
T Consensus 204 ~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITt 241 (407)
T COG1419 204 RVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITT 241 (407)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEe
Confidence 56899999999999999999988774445667766554
No 396
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=92.11 E-value=0.4 Score=60.34 Aligned_cols=119 Identities=24% Similarity=0.364 Sum_probs=0.0
Q ss_pred HHHHHHHH----------hccCCCCC--EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccc
Q 002849 395 QMCSIEKI----------LGLKGAPP--YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEK 462 (874)
Q Consensus 395 Q~~AV~~i----------l~~~~~~~--~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~ 462 (874)
|..||..+ +...+.|. +++.||||+|||.++..++..++. ....+...-.+.-.-..-..+|..
T Consensus 571 Q~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~--~~~~~~~~dmse~~~~~~~~~l~g-- 646 (852)
T TIGR03345 571 QDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYG--GEQNLITINMSEFQEAHTVSRLKG-- 646 (852)
T ss_pred hHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhC--CCcceEEEeHHHhhhhhhhccccC--
Q ss_pred ccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCC
Q 002849 463 AVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAG 542 (874)
Q Consensus 463 ~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAs 542 (874)
-++.+..|.. +......+....+++|++||.
T Consensus 647 ---------------------~~~gyvg~~~---------------------------~g~L~~~v~~~p~svvllDEi- 677 (852)
T TIGR03345 647 ---------------------SPPGYVGYGE---------------------------GGVLTEAVRRKPYSVVLLDEV- 677 (852)
T ss_pred ---------------------CCCCcccccc---------------------------cchHHHHHHhCCCcEEEEech-
Q ss_pred CCChhhhHHHhhccccCC------------cEEEEe
Q 002849 543 QASEPESMVPISSYCKKD------------TVVVLA 566 (874)
Q Consensus 543 Q~~epe~li~L~~l~~~~------------~~vVLv 566 (874)
.-..|+.+-.|..+...+ .+.+++
T Consensus 678 eka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI 713 (852)
T TIGR03345 678 EKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVIL 713 (852)
T ss_pred hhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEE
No 397
>PRK10865 protein disaggregation chaperone; Provisional
Probab=92.07 E-value=0.34 Score=61.12 Aligned_cols=99 Identities=20% Similarity=0.282 Sum_probs=0.0
Q ss_pred CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCCc
Q 002849 406 KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDVN 485 (874)
Q Consensus 406 ~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v~ 485 (874)
++.+++++.||||||||+++..++..+.. ....++.+..+.-.-.....+|.. .+
T Consensus 596 ~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~--~~~~~i~id~se~~~~~~~~~LiG-----------------------~~ 650 (857)
T PRK10865 596 RPIGSFLFLGPTGVGKTELCKALANFMFD--SDDAMVRIDMSEFMEKHSVSRLVG-----------------------AP 650 (857)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHHhhc--CCCcEEEEEhHHhhhhhhHHHHhC-----------------------CC
Q ss_pred hhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHhhcc
Q 002849 486 ADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPISSY 556 (874)
Q Consensus 486 ~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l 556 (874)
+.+..+.. +......+....+++|++||+..+.....-..+..+
T Consensus 651 pgy~g~~~---------------------------~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~il 694 (857)
T PRK10865 651 PGYVGYEE---------------------------GGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVL 694 (857)
T ss_pred Ccccccch---------------------------hHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHH
No 398
>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=91.89 E-value=0.24 Score=58.64 Aligned_cols=20 Identities=45% Similarity=0.735 Sum_probs=16.1
Q ss_pred CEEEEcCCCCChhHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I 429 (874)
-+++.||||||||+++...+
T Consensus 90 giLL~GppGtGKT~la~alA 109 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVA 109 (495)
T ss_pred cEEEECCCCCCHHHHHHHHH
Confidence 38999999999998765443
No 399
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=91.83 E-value=0.22 Score=55.06 Aligned_cols=53 Identities=21% Similarity=0.266 Sum_probs=40.8
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
..+++.|.+.+..++.... -+||.|+-||||||++-.....+- +..||+.+=-
T Consensus 156 gt~~~~~a~~L~~av~~r~--NILisGGTGSGKTTlLNal~~~i~---~~eRvItiED 208 (355)
T COG4962 156 GTMIRRAAKFLRRAVGIRC--NILISGGTGSGKTTLLNALSGFID---SDERVITIED 208 (355)
T ss_pred CCcCHHHHHHHHHHHhhce--eEEEeCCCCCCHHHHHHHHHhcCC---CcccEEEEee
Confidence 5789999999999988653 389999999999998876554332 4568887654
No 400
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=91.80 E-value=0.27 Score=53.62 Aligned_cols=51 Identities=20% Similarity=0.229 Sum_probs=34.3
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
|....+..+..+...+...+-|.|+||+||||.+..++..+.. ..++.++.
T Consensus 88 n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~---~~~~~VI~ 138 (290)
T PRK10463 88 NNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKD---SVPCAVIE 138 (290)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhcc---CCCEEEEC
Confidence 5555666666666555455679999999999988776665432 23555553
No 401
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=91.78 E-value=0.14 Score=58.58 Aligned_cols=34 Identities=35% Similarity=0.475 Sum_probs=23.2
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHH
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVE 427 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve 427 (874)
.++=++|+.-+....+ -.++.||||||||.++..
T Consensus 184 Q~~AKrAleiAAAGgH--nLl~~GpPGtGKTmla~R 217 (490)
T COG0606 184 QEQAKRALEIAAAGGH--NLLLVGPPGTGKTMLASR 217 (490)
T ss_pred cHHHHHHHHHHHhcCC--cEEEecCCCCchHHhhhh
Confidence 4445666665554322 389999999999986543
No 402
>PRK14531 adenylate kinase; Provisional
Probab=91.78 E-value=0.14 Score=52.09 Aligned_cols=19 Identities=37% Similarity=0.686 Sum_probs=15.3
Q ss_pred EEEEcCCCCChhHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I 429 (874)
++|.|||||||||....++
T Consensus 5 i~i~G~pGsGKsT~~~~la 23 (183)
T PRK14531 5 LLFLGPPGAGKGTQAARLC 23 (183)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 7899999999998754433
No 403
>PRK03839 putative kinase; Provisional
Probab=91.73 E-value=0.14 Score=51.78 Aligned_cols=18 Identities=39% Similarity=0.464 Sum_probs=14.6
Q ss_pred EEEEcCCCCChhHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~ 428 (874)
++|.|+|||||||....+
T Consensus 3 I~l~G~pGsGKsT~~~~L 20 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLL 20 (180)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 689999999999865443
No 404
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=91.71 E-value=0.48 Score=57.87 Aligned_cols=65 Identities=26% Similarity=0.325 Sum_probs=51.5
Q ss_pred CCHHHHHHHHHHhcc--CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 391 LNEEQMCSIEKILGL--KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 391 LN~~Q~~AV~~il~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..-.|..|+..+... .+....++.|..|||||.|++..+.+ .+..+||+||+...|..+.+-|..
T Consensus 10 ~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~-----~~~p~Lvi~~n~~~A~ql~~el~~ 76 (655)
T TIGR00631 10 PAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQ-----VNRPTLVIAHNKTLAAQLYNEFKE 76 (655)
T ss_pred CChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHH-----hCCCEEEEECCHHHHHHHHHHHHH
Confidence 357888898887653 22224679999999999999886654 246799999999999999999976
No 405
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.69 E-value=0.86 Score=53.95 Aligned_cols=51 Identities=25% Similarity=0.385 Sum_probs=37.0
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCCHHHHHHHHHHHhccc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPSNSAADHLLEKILGEK 462 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApSNsAaD~l~~rL~~~~ 462 (874)
..++|.|--|+||||-+..- |+..+ .+.-|-++-|-..||-.+++|+....
T Consensus 372 ~vvvivgETGSGKTTQl~Qy---L~edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM 424 (1042)
T KOG0924|consen 372 QVVVIVGETGSGKTTQLAQY---LYEDGYADNGMIGCTQPRRVAAISVAKRVAEEM 424 (1042)
T ss_pred cEEEEEecCCCCchhhhHHH---HHhcccccCCeeeecCchHHHHHHHHHHHHHHh
Confidence 45899999999999976643 33322 23346666678889999999998743
No 406
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=91.65 E-value=0.26 Score=52.93 Aligned_cols=24 Identities=42% Similarity=0.725 Sum_probs=18.5
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.+++++||||.|||| ++.+|+.-+
T Consensus 53 DHvLl~GPPGlGKTT-LA~IIA~Em 76 (332)
T COG2255 53 DHVLLFGPPGLGKTT-LAHIIANEL 76 (332)
T ss_pred CeEEeeCCCCCcHHH-HHHHHHHHh
Confidence 468999999999996 556665544
No 407
>PRK14532 adenylate kinase; Provisional
Probab=91.62 E-value=0.13 Score=52.33 Aligned_cols=19 Identities=26% Similarity=0.721 Sum_probs=15.2
Q ss_pred EEEEcCCCCChhHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I 429 (874)
++|.|||||||||....++
T Consensus 3 i~~~G~pGsGKsT~a~~la 21 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLV 21 (188)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6899999999998755433
No 408
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.62 E-value=0.23 Score=55.99 Aligned_cols=46 Identities=24% Similarity=0.270 Sum_probs=31.3
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEE-EecCCHH--HHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLL-VCAPSNS--AADHLLE 456 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rIL-v~ApSNs--AaD~l~~ 456 (874)
..+++.||.|+|||||++.++.++... +.+|. +++-+-. |++.+..
T Consensus 207 ~ii~lvGptGvGKTTt~akLA~~l~~~--g~~V~lItaDtyR~gAveQLk~ 255 (407)
T PRK12726 207 RIISLIGQTGVGKTTTLVKLGWQLLKQ--NRTVGFITTDTFRSGAVEQFQG 255 (407)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCCccCccHHHHHHH
Confidence 357899999999999999988776553 45665 4444432 3444443
No 409
>PRK09354 recA recombinase A; Provisional
Probab=91.62 E-value=0.3 Score=54.69 Aligned_cols=47 Identities=21% Similarity=0.265 Sum_probs=34.7
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKI 458 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL 458 (874)
.+.|.||||||||+...+.+....+ .+.+++.+..-++.-...++++
T Consensus 62 IteI~G~~GsGKTtLal~~~~~~~~--~G~~~~yId~E~s~~~~~a~~l 108 (349)
T PRK09354 62 IVEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDPVYAKKL 108 (349)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEECCccchHHHHHHHc
Confidence 6899999999999999988887765 3567777776555544444443
No 410
>KOG3125 consensus Thymidine kinase [Nucleotide transport and metabolism]
Probab=91.59 E-value=0.74 Score=46.61 Aligned_cols=36 Identities=28% Similarity=0.303 Sum_probs=29.6
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
...+|.||==+|||+.+..++.+... .+.++|++-+
T Consensus 28 ~i~vI~gPMfSGKTt~LLrr~r~~~~--~grrv~liK~ 63 (234)
T KOG3125|consen 28 TIHVILGPMFSGKTTELLRRIRREII--AGRRVLLIKY 63 (234)
T ss_pred eEEEEeccccCcchHHHHHHHHHHHh--cCceEEEEEe
Confidence 35799999999999999999987665 4578888765
No 411
>PRK13768 GTPase; Provisional
Probab=91.59 E-value=0.22 Score=53.64 Aligned_cols=33 Identities=18% Similarity=0.191 Sum_probs=26.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
++|.||+|+||||++...+..+.. .+.+++++.
T Consensus 5 i~v~G~~G~GKTt~~~~~~~~l~~--~g~~v~~i~ 37 (253)
T PRK13768 5 VFFLGTAGSGKTTLTKALSDWLEE--QGYDVAIVN 37 (253)
T ss_pred EEEECCCCccHHHHHHHHHHHHHh--cCCceEEEE
Confidence 689999999999998877766654 456777764
No 412
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=91.57 E-value=0.14 Score=52.16 Aligned_cols=18 Identities=39% Similarity=0.744 Sum_probs=14.6
Q ss_pred EEEEcCCCCChhHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~ 428 (874)
++|.|||||||||....+
T Consensus 2 I~i~G~pGsGKst~a~~L 19 (194)
T cd01428 2 ILLLGPPGSGKGTQAERL 19 (194)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 689999999999765443
No 413
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=91.57 E-value=0.12 Score=51.42 Aligned_cols=20 Identities=35% Similarity=0.448 Sum_probs=14.1
Q ss_pred EEEEcCCCCChhHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~ 430 (874)
++|.|+|||||||++..+..
T Consensus 2 I~i~G~~stGKTTL~~~L~~ 21 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAA 21 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999987655443
No 414
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=91.56 E-value=0.23 Score=55.84 Aligned_cols=47 Identities=23% Similarity=0.304 Sum_probs=30.3
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEE
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLV 443 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv 443 (874)
+.+..+.+..++..+ ..++|.||+||||||++..++.. + .+..||+.
T Consensus 148 ~~~~~~~l~~~v~~~--~nilI~G~tGSGKTTll~aLl~~-i--~~~~rivt 194 (344)
T PRK13851 148 NGDLEAFLHACVVGR--LTMLLCGPTGSGKTTMSKTLISA-I--PPQERLIT 194 (344)
T ss_pred cHHHHHHHHHHHHcC--CeEEEECCCCccHHHHHHHHHcc-c--CCCCCEEE
Confidence 445555566655544 34899999999999988654433 2 23456654
No 415
>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=91.54 E-value=0.24 Score=58.51 Aligned_cols=50 Identities=16% Similarity=0.214 Sum_probs=36.3
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..++|.||||||||+...+.+.+-++. .+.+.|.++.- ...+.+.+...+
T Consensus 22 ~~~Li~G~pGsGKT~la~qfl~~g~~~-~ge~~lyvs~e-E~~~~l~~~~~~ 71 (484)
T TIGR02655 22 RSTLVSGTSGTGKTLFSIQFLYNGIIH-FDEPGVFVTFE-ESPQDIIKNARS 71 (484)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHh-CCCCEEEEEEe-cCHHHHHHHHHH
Confidence 358999999999999888776654442 35788888886 444566666554
No 416
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=91.53 E-value=0.12 Score=57.00 Aligned_cols=40 Identities=40% Similarity=0.815 Sum_probs=24.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
+|++||||||||.. +.+++. ..+...+ ..+.-++.+++..
T Consensus 188 VLLYGPPGTGKTLL-AkAVA~----~T~AtFI-----rvvgSElVqKYiG 227 (406)
T COG1222 188 VLLYGPPGTGKTLL-AKAVAN----QTDATFI-----RVVGSELVQKYIG 227 (406)
T ss_pred eEeeCCCCCcHHHH-HHHHHh----ccCceEE-----EeccHHHHHHHhc
Confidence 79999999999964 333332 2233322 3344466766654
No 417
>PF12846 AAA_10: AAA-like domain
Probab=91.48 E-value=0.31 Score=52.92 Aligned_cols=42 Identities=31% Similarity=0.497 Sum_probs=34.4
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAAD 452 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD 452 (874)
+.++|.|++|+|||+++...+.+++. .+.++++.=+...-.+
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~--~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIR--RGPRVVIFDPKGDYSP 43 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHH--cCCCEEEEcCCchHHH
Confidence 45899999999999999988888886 4578888877765555
No 418
>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=91.46 E-value=0.15 Score=49.84 Aligned_cols=19 Identities=21% Similarity=0.350 Sum_probs=15.6
Q ss_pred EEEEcCCCCChhHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I 429 (874)
++|.|+||+||||+...+.
T Consensus 2 i~l~G~~GsGKST~a~~l~ 20 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALA 20 (150)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 6899999999998765543
No 419
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=91.45 E-value=0.25 Score=57.18 Aligned_cols=17 Identities=53% Similarity=1.060 Sum_probs=14.5
Q ss_pred EEEEcCCCCChhHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVE 427 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve 427 (874)
++++||||||||+++-.
T Consensus 220 VLL~GPPGTGKT~LAra 236 (438)
T PTZ00361 220 VILYGPPGTGKTLLAKA 236 (438)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 79999999999987544
No 420
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=91.43 E-value=0.46 Score=58.20 Aligned_cols=67 Identities=24% Similarity=0.300 Sum_probs=53.2
Q ss_pred CCCCHHHHHHHHHHhcc--CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 389 CNLNEEQMCSIEKILGL--KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..++..|..++..++.. .+....+|.|.+|||||.+++..+.. .+..+|+++|+...|+.+.+.|..
T Consensus 11 ~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~-----~~r~vLIVt~~~~~A~~l~~dL~~ 79 (652)
T PRK05298 11 YKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIAR-----LQRPTLVLAHNKTLAAQLYSEFKE 79 (652)
T ss_pred CCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHH-----hCCCEEEEECCHHHHHHHHHHHHH
Confidence 46799999999988754 22124679999999999998764433 246899999999999999999976
No 421
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=91.38 E-value=0.16 Score=49.41 Aligned_cols=19 Identities=42% Similarity=0.725 Sum_probs=15.9
Q ss_pred CCEEEEcCCCCChhHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVE 427 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve 427 (874)
|-+||.|-|||||||+...
T Consensus 8 PNILvtGTPG~GKstl~~~ 26 (176)
T KOG3347|consen 8 PNILVTGTPGTGKSTLAER 26 (176)
T ss_pred CCEEEeCCCCCCchhHHHH
Confidence 5689999999999987543
No 422
>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=91.29 E-value=0.42 Score=51.88 Aligned_cols=38 Identities=18% Similarity=0.128 Sum_probs=27.9
Q ss_pred HHHHHHHHHhcc--CCCCCEEEEcCCCCChhHHHHHHHHH
Q 002849 394 EQMCSIEKILGL--KGAPPYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 394 ~Q~~AV~~il~~--~~~~~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
.+.+.|...|.. .+...+.|+|++|+|||+.+.+.+..
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~ 42 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARD 42 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCH
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccc
Confidence 455666666654 34456899999999999988776655
No 423
>PTZ00301 uridine kinase; Provisional
Probab=91.29 E-value=0.29 Score=51.13 Aligned_cols=25 Identities=28% Similarity=0.349 Sum_probs=18.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
.+-|.|||||||||....++.++..
T Consensus 5 iIgIaG~SgSGKTTla~~l~~~l~~ 29 (210)
T PTZ00301 5 VIGISGASGSGKSSLSTNIVSELMA 29 (210)
T ss_pred EEEEECCCcCCHHHHHHHHHHHHHh
Confidence 4679999999999877655555544
No 424
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=91.27 E-value=0.13 Score=51.00 Aligned_cols=19 Identities=21% Similarity=0.503 Sum_probs=14.4
Q ss_pred EEEEcCCCCChhHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I 429 (874)
++|.|||||||||++..+.
T Consensus 1 i~l~G~~GsGKSTla~~l~ 19 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALA 19 (163)
T ss_pred CEEECCCCCCHHHHHHHHH
Confidence 3688999999997655433
No 425
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=91.24 E-value=0.52 Score=57.84 Aligned_cols=70 Identities=27% Similarity=0.371 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHhcc-CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 390 NLNEEQMCSIEKILGL-KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 390 ~LN~~Q~~AV~~il~~-~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..-+.|++.+..+... .+....+|.+|-|||||......+...... .+.+|.++|.|+..-+.+.++...
T Consensus 15 ~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~-~~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 15 EPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYARE-EGKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHH-cCCcEEEECCCHHHHHHHHHhhcc
Confidence 4467787776555432 112348999999999998876665554443 458999999999999999988865
No 426
>PRK02496 adk adenylate kinase; Provisional
Probab=91.23 E-value=0.17 Score=51.35 Aligned_cols=19 Identities=37% Similarity=0.688 Sum_probs=15.2
Q ss_pred EEEEcCCCCChhHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I 429 (874)
++|.||||+||||.+..++
T Consensus 4 i~i~G~pGsGKst~a~~la 22 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLA 22 (184)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6899999999998655433
No 427
>PRK00131 aroK shikimate kinase; Reviewed
Probab=91.22 E-value=0.17 Score=50.36 Aligned_cols=22 Identities=18% Similarity=0.126 Sum_probs=17.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
.++|.|+||||||++...+...
T Consensus 6 ~i~l~G~~GsGKstla~~La~~ 27 (175)
T PRK00131 6 NIVLIGFMGAGKSTIGRLLAKR 27 (175)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 5789999999999876654443
No 428
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=91.22 E-value=0.3 Score=51.95 Aligned_cols=50 Identities=18% Similarity=0.309 Sum_probs=37.3
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHH----------hcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYA----------TREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~----------~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..+|.||||||||+.+...+..+.. ...+.+||+.+--+.+ +.+.+|+..
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~ 62 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEA 62 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHH
Confidence 3699999999999999888877643 1245688888865544 477888865
No 429
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.20 E-value=0.72 Score=52.72 Aligned_cols=43 Identities=26% Similarity=0.359 Sum_probs=32.5
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCC---HHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPS---NSAADHLL 455 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApS---NsAaD~l~ 455 (874)
+.+.|.-|-||+|.|+.++..|++ .+-||||.|.. --|+..|.
T Consensus 381 i~fvGVNGVGKSTNLAKIayWLlq--NkfrVLIAACDTFRsGAvEQLr 426 (587)
T KOG0781|consen 381 ISFVGVNGVGKSTNLAKIAYWLLQ--NKFRVLIAACDTFRSGAVEQLR 426 (587)
T ss_pred EEEEeecCccccchHHHHHHHHHh--CCceEEEEeccchhhhHHHHHH
Confidence 357899999999999999888887 35789887752 23555553
No 430
>PRK13531 regulatory ATPase RavA; Provisional
Probab=91.17 E-value=0.22 Score=57.86 Aligned_cols=19 Identities=26% Similarity=0.632 Sum_probs=16.0
Q ss_pred CCEEEEcCCCCChhHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVE 427 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve 427 (874)
.+++|.||||||||+.+..
T Consensus 40 ~hVLL~GpPGTGKT~LAra 58 (498)
T PRK13531 40 ESVFLLGPPGIAKSLIARR 58 (498)
T ss_pred CCEEEECCCChhHHHHHHH
Confidence 5699999999999986543
No 431
>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=91.16 E-value=0.28 Score=55.00 Aligned_cols=25 Identities=24% Similarity=0.404 Sum_probs=18.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
.++++.||||||||+.+ ++++..+.
T Consensus 79 ~il~L~GPPGsGKStla-~~La~~l~ 103 (361)
T smart00763 79 QILYLLGPVGGGKSSLV-ECLKRGLE 103 (361)
T ss_pred cEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 46899999999999754 45555544
No 432
>PRK14528 adenylate kinase; Provisional
Probab=91.13 E-value=0.18 Score=51.56 Aligned_cols=17 Identities=35% Similarity=0.675 Sum_probs=14.6
Q ss_pred EEEEcCCCCChhHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVE 427 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve 427 (874)
++|.||||+||||....
T Consensus 4 i~i~G~pGsGKtt~a~~ 20 (186)
T PRK14528 4 IIFMGPPGAGKGTQAKI 20 (186)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999987544
No 433
>PRK12678 transcription termination factor Rho; Provisional
Probab=90.98 E-value=0.26 Score=58.08 Aligned_cols=30 Identities=27% Similarity=0.371 Sum_probs=24.6
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCe
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDAR 440 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~r 440 (874)
.+|+||||||||+++..++.++..+++...
T Consensus 419 ~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~ 448 (672)
T PRK12678 419 GLIVSPPKAGKTTILQNIANAITTNNPECH 448 (672)
T ss_pred eEEeCCCCCCHHHHHHHHHHHHhhcCCCeE
Confidence 699999999999999887777776555544
No 434
>PRK14530 adenylate kinase; Provisional
Probab=90.95 E-value=0.18 Score=52.62 Aligned_cols=20 Identities=30% Similarity=0.514 Sum_probs=15.8
Q ss_pred CEEEEcCCCCChhHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I 429 (874)
-++|.|||||||||....++
T Consensus 5 ~I~i~G~pGsGKsT~~~~La 24 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLA 24 (215)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 47899999999998655433
No 435
>PRK14527 adenylate kinase; Provisional
Probab=90.92 E-value=0.2 Score=51.29 Aligned_cols=21 Identities=29% Similarity=0.520 Sum_probs=16.5
Q ss_pred CCEEEEcCCCCChhHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I 429 (874)
..++|.||||+||||....++
T Consensus 7 ~~i~i~G~pGsGKsT~a~~La 27 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERLA 27 (191)
T ss_pred cEEEEECCCCCCHHHHHHHHH
Confidence 458999999999998765443
No 436
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=90.89 E-value=0.35 Score=51.23 Aligned_cols=38 Identities=18% Similarity=0.267 Sum_probs=27.0
Q ss_pred ccEEEEEcCCCCChhhhHHHhhccccC----C--cEEEEecCCCc
Q 002849 533 FSHIFLDEAGQASEPESMVPISSYCKK----D--TVVVLAGDPMQ 571 (874)
Q Consensus 533 fd~ViIDEAsQ~~epe~li~L~~l~~~----~--~~vVLvGDp~Q 571 (874)
.-+++|||| ++...+.+-.|..+... . -++||+|-|+=
T Consensus 132 ~v~l~vdEa-h~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L 175 (269)
T COG3267 132 PVVLMVDEA-HDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKL 175 (269)
T ss_pred CeEEeehhH-hhhChhHHHHHHHHHhhcccccCceeeeecCCccc
Confidence 368999999 77777778877765432 1 25888887754
No 437
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=90.87 E-value=0.69 Score=52.62 Aligned_cols=48 Identities=29% Similarity=0.319 Sum_probs=31.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEE-EecCCHH-HHHHHHHHHhc
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLL-VCAPSNS-AADHLLEKILG 460 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rIL-v~ApSNs-AaD~l~~rL~~ 460 (874)
++..|-=|+|||||...++.++-+ .+.++| |+|-+-. ||-+=++.|..
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk--~~~kvllVaaD~~RpAA~eQL~~La~ 152 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKK--KGKKVLLVAADTYRPAAIEQLKQLAE 152 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHH--cCCceEEEecccCChHHHHHHHHHHH
Confidence 577899999999999988887776 445554 4444432 33333334443
No 438
>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=90.87 E-value=0.17 Score=49.61 Aligned_cols=17 Identities=41% Similarity=0.735 Sum_probs=13.3
Q ss_pred EEcCCCCChhHHHHHHH
Q 002849 413 IYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 413 I~GPPGTGKT~Tlve~I 429 (874)
|.|||||||||....++
T Consensus 1 i~G~PgsGK~t~~~~la 17 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLA 17 (151)
T ss_dssp EEESTTSSHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHH
Confidence 68999999998655433
No 439
>PRK00279 adk adenylate kinase; Reviewed
Probab=90.85 E-value=0.19 Score=52.52 Aligned_cols=18 Identities=33% Similarity=0.650 Sum_probs=14.7
Q ss_pred EEEEcCCCCChhHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~ 428 (874)
++|.||||+||||....+
T Consensus 3 I~v~G~pGsGKsT~a~~l 20 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFI 20 (215)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 689999999999865443
No 440
>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=90.82 E-value=0.31 Score=53.75 Aligned_cols=35 Identities=29% Similarity=0.338 Sum_probs=26.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
..+.|.||||+||||++...+..+.. .+.++.+++
T Consensus 35 ~~i~i~G~~G~GKttl~~~l~~~~~~--~~~~v~~i~ 69 (300)
T TIGR00750 35 HRVGITGTPGAGKSTLLEALGMELRR--RGLKVAVIA 69 (300)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEe
Confidence 35789999999999998887766554 356777655
No 441
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=90.81 E-value=0.22 Score=51.02 Aligned_cols=26 Identities=35% Similarity=0.479 Sum_probs=20.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
+.+++.|+||+||||..-++++.|-+
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~ 27 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQ 27 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHH
Confidence 45789999999999988776665543
No 442
>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=90.81 E-value=0.36 Score=47.45 Aligned_cols=34 Identities=35% Similarity=0.383 Sum_probs=25.9
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
+.+.|++|+|||+++...+..+.. .+.+++++..
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~--~g~~v~ii~~ 35 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRA--RGKRVAVLAI 35 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHH--CCCEEEEEEe
Confidence 578899999999998887766654 3567777654
No 443
>PRK08233 hypothetical protein; Provisional
Probab=90.79 E-value=0.17 Score=50.95 Aligned_cols=20 Identities=25% Similarity=0.129 Sum_probs=15.5
Q ss_pred CEEEEcCCCCChhHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I 429 (874)
.+.|.|+|||||||....++
T Consensus 5 iI~I~G~~GsGKtTla~~L~ 24 (182)
T PRK08233 5 IITIAAVSGGGKTTLTERLT 24 (182)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 46789999999998764433
No 444
>PRK06547 hypothetical protein; Provisional
Probab=90.76 E-value=0.28 Score=49.57 Aligned_cols=22 Identities=32% Similarity=0.282 Sum_probs=16.5
Q ss_pred CCEEEEcCCCCChhHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~ 430 (874)
..++|.|++||||||+...++.
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~ 37 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAA 37 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 3567889999999987654443
No 445
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=90.61 E-value=0.41 Score=48.80 Aligned_cols=43 Identities=28% Similarity=0.428 Sum_probs=30.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC---CHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP---SNSAADHLLE 456 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap---SNsAaD~l~~ 456 (874)
+-|-||||+|||+.+-..+..+... .++.|++- |+.-++.+.+
T Consensus 16 i~v~Gp~GSGKTaLie~~~~~L~~~---~~~aVI~~Di~t~~Da~~l~~ 61 (202)
T COG0378 16 IGVGGPPGSGKTALIEKTLRALKDE---YKIAVITGDIYTKEDADRLRK 61 (202)
T ss_pred EEecCCCCcCHHHHHHHHHHHHHhh---CCeEEEeceeechhhHHHHHh
Confidence 5688999999999888877776653 56777664 5555544443
No 446
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=90.60 E-value=0.51 Score=52.72 Aligned_cols=35 Identities=26% Similarity=0.315 Sum_probs=25.7
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+-|.||||+||||.+...+..+.. .+.+|.|++-
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~--~g~~v~vi~~ 92 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIE--QGHKVAVLAV 92 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEEe
Confidence 4679999999999987776666553 3566666654
No 447
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=90.59 E-value=0.18 Score=57.91 Aligned_cols=18 Identities=61% Similarity=1.021 Sum_probs=15.1
Q ss_pred CEEEEcCCCCChhHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVE 427 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve 427 (874)
-+++.||||||||+++-.
T Consensus 181 gvLL~GppGTGKT~LAka 198 (398)
T PTZ00454 181 GVLLYGPPGTGKTMLAKA 198 (398)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 489999999999987543
No 448
>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=90.54 E-value=0.12 Score=49.28 Aligned_cols=39 Identities=15% Similarity=0.216 Sum_probs=24.2
Q ss_pred cEEEEEcCCCCChhhhHHHhhccccCCcEEEEecCCCcccc
Q 002849 534 SHIFLDEAGQASEPESMVPISSYCKKDTVVVLAGDPMQLGP 574 (874)
Q Consensus 534 d~ViIDEAsQ~~epe~li~L~~l~~~~~~vVLvGDp~QL~P 574 (874)
.++++||...+..-..-..|..+.. .++-+-|....||.
T Consensus 64 ~ill~DEiNrappktQsAlLeam~E--r~Vt~~g~~~~lp~ 102 (131)
T PF07726_consen 64 NILLADEINRAPPKTQSALLEAMEE--RQVTIDGQTYPLPD 102 (131)
T ss_dssp SEEEEETGGGS-HHHHHHHHHHHHH--SEEEETTEEEE--S
T ss_pred ceeeecccccCCHHHHHHHHHHHHc--CeEEeCCEEEECCC
Confidence 5899999977775544444443433 36777788888776
No 449
>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=90.54 E-value=0.35 Score=50.90 Aligned_cols=35 Identities=17% Similarity=0.201 Sum_probs=22.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecC
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAP 446 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~Ap 446 (874)
+-|.||+|+||||++. .+..++... .+.+|.+++.
T Consensus 2 igI~G~sGSGKTTla~-~L~~~l~~~~~~~~v~vi~~ 37 (220)
T cd02025 2 IGIAGSVAVGKSTTAR-VLQALLSRWPDHPNVELITT 37 (220)
T ss_pred EEeeCCCCCCHHHHHH-HHHHHHhhcCCCCcEEEEec
Confidence 4688999999999865 444555421 2345555444
No 450
>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=90.51 E-value=0.2 Score=52.16 Aligned_cols=18 Identities=33% Similarity=0.728 Sum_probs=14.7
Q ss_pred EEEEcCCCCChhHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~ 428 (874)
++|.|||||||||....+
T Consensus 2 I~i~G~pGsGKsT~a~~L 19 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRI 19 (210)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 589999999999865443
No 451
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=90.47 E-value=0.61 Score=57.99 Aligned_cols=110 Identities=20% Similarity=0.269 Sum_probs=0.0
Q ss_pred HHHHHHHHhcc------------CCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccc
Q 002849 395 QMCSIEKILGL------------KGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEK 462 (874)
Q Consensus 395 Q~~AV~~il~~------------~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~ 462 (874)
|..|++.+... +..+.+++.||||||||.++...+..+ ...+..+..+.-.-..-..++..
T Consensus 459 Q~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~~~~lig-- 531 (731)
T TIGR02639 459 QDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHTVSRLIG-- 531 (731)
T ss_pred cHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhcccHHHHhc--
Q ss_pred ccccccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCC
Q 002849 463 AVEVRENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAG 542 (874)
Q Consensus 463 ~~~~~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAs 542 (874)
-++....+.. +......+....+.+|++||+
T Consensus 532 ---------------------~~~gyvg~~~---------------------------~~~l~~~~~~~p~~VvllDEi- 562 (731)
T TIGR02639 532 ---------------------APPGYVGFEQ---------------------------GGLLTEAVRKHPHCVLLLDEI- 562 (731)
T ss_pred ---------------------CCCCCcccch---------------------------hhHHHHHHHhCCCeEEEEech-
Q ss_pred CCChhhhHHHhhccccCC
Q 002849 543 QASEPESMVPISSYCKKD 560 (874)
Q Consensus 543 Q~~epe~li~L~~l~~~~ 560 (874)
.-..|+..-.|..+...+
T Consensus 563 eka~~~~~~~Ll~~ld~g 580 (731)
T TIGR02639 563 EKAHPDIYNILLQVMDYA 580 (731)
T ss_pred hhcCHHHHHHHHHhhccC
No 452
>PRK05439 pantothenate kinase; Provisional
Probab=90.47 E-value=0.51 Score=52.14 Aligned_cols=35 Identities=20% Similarity=0.230 Sum_probs=23.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecC
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAP 446 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~Ap 446 (874)
+.|.||||+||||++. .+..++... .+.++.+++.
T Consensus 89 IgIaG~~gsGKSTla~-~L~~~l~~~~~~~~v~vi~~ 124 (311)
T PRK05439 89 IGIAGSVAVGKSTTAR-LLQALLSRWPEHPKVELVTT 124 (311)
T ss_pred EEEECCCCCCHHHHHH-HHHHHHHhhCCCCceEEEec
Confidence 5699999999998765 455555432 3456666553
No 453
>PLN02200 adenylate kinase family protein
Probab=90.40 E-value=0.22 Score=52.96 Aligned_cols=20 Identities=25% Similarity=0.492 Sum_probs=15.7
Q ss_pred CEEEEcCCCCChhHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I 429 (874)
.++|.|||||||||....++
T Consensus 45 ii~I~G~PGSGKsT~a~~La 64 (234)
T PLN02200 45 ITFVLGGPGSGKGTQCEKIV 64 (234)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 36899999999998755443
No 454
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=90.39 E-value=0.21 Score=54.38 Aligned_cols=22 Identities=41% Similarity=0.685 Sum_probs=18.2
Q ss_pred CCEEEEcCCCCChhHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~ 430 (874)
.|+++.||+|||||.++...+.
T Consensus 34 ~pvLl~G~~GtGKT~li~~~l~ 55 (272)
T PF12775_consen 34 RPVLLVGPSGTGKTSLIQNFLS 55 (272)
T ss_dssp EEEEEESSTTSSHHHHHHHHHH
T ss_pred CcEEEECCCCCchhHHHHhhhc
Confidence 4799999999999998766543
No 455
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=90.36 E-value=0.23 Score=51.80 Aligned_cols=23 Identities=30% Similarity=0.580 Sum_probs=17.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~ 434 (874)
-+|.||||+||||-...+- +++.
T Consensus 5 qvVIGPPgSGKsTYc~g~~-~fls 27 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMS-QFLS 27 (290)
T ss_pred eEEEcCCCCCccchhhhHH-HHHH
Confidence 4899999999998766544 4444
No 456
>PRK07261 topology modulation protein; Provisional
Probab=90.33 E-value=0.23 Score=50.09 Aligned_cols=18 Identities=28% Similarity=0.364 Sum_probs=15.1
Q ss_pred EEEEcCCCCChhHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~ 428 (874)
++|.|+||+||||.+..+
T Consensus 3 i~i~G~~GsGKSTla~~l 20 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKL 20 (171)
T ss_pred EEEEcCCCCCHHHHHHHH
Confidence 689999999999876553
No 457
>PRK04040 adenylate kinase; Provisional
Probab=90.32 E-value=0.23 Score=50.97 Aligned_cols=22 Identities=36% Similarity=0.572 Sum_probs=16.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
.++|.|+|||||||.+..+...
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~ 25 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEK 25 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHH
Confidence 3689999999999876554443
No 458
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=90.31 E-value=0.22 Score=51.78 Aligned_cols=38 Identities=34% Similarity=0.553 Sum_probs=25.8
Q ss_pred HHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHH
Q 002849 395 QMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 395 Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
..+.+...+.......++|.||.|+|||+.+.+.+..+
T Consensus 7 el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 7 ELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp HHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred HHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 34455556654333568999999999999877666554
No 459
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.31 E-value=5.9 Score=44.86 Aligned_cols=84 Identities=14% Similarity=0.182 Sum_probs=54.0
Q ss_pred CCCCeEEEEcccHHHHHHHHHHHHhcCCCCeEE----------CccccCCCceeeEEEEEeccCCCcC-Ccccccccccc
Q 002849 698 LSEEDIGVITPYRQQVLKLNKALESLYMPDIKV----------GSVEQFQGQERQVIIVSTVRSTIKH-NDFDRKHCLGF 766 (874)
Q Consensus 698 ~~~~dIgIItPY~~Qv~~Ir~~L~~~~~~~v~V----------~TVd~fQG~E~dvVIiS~VRs~~~~-~~~d~~~~lGF 766 (874)
+.++.-+|-++....++.++..|+..+...-.+ ..+..|-|+-.-+.+++-|-...-. .-.|..-++.|
T Consensus 259 ~~~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvinyd~ 338 (529)
T KOG0337|consen 259 IKDKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVINYDF 338 (529)
T ss_pred ccccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCccccccccccC
Confidence 456677788999999999999999876543222 2455788888888888766443110 01123344556
Q ss_pred CCCCCceEecccccc
Q 002849 767 LSNPRRFNVAVTRAI 781 (874)
Q Consensus 767 l~d~rrlNVAiTRAK 781 (874)
-.+++.|-+=+.|..
T Consensus 339 p~~~klFvhRVgr~a 353 (529)
T KOG0337|consen 339 PPDDKLFVHRVGRVA 353 (529)
T ss_pred CCCCceEEEEecchh
Confidence 666677766666644
No 460
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=90.28 E-value=0.2 Score=49.98 Aligned_cols=15 Identities=47% Similarity=0.696 Sum_probs=13.2
Q ss_pred EEEEcCCCCChhHHH
Q 002849 411 YLIYGPPGTGKTMTL 425 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tl 425 (874)
.+|.|.|||||||+.
T Consensus 3 I~ITGTPGvGKTT~~ 17 (180)
T COG1936 3 IAITGTPGVGKTTVC 17 (180)
T ss_pred EEEeCCCCCchHHHH
Confidence 689999999999864
No 461
>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=90.24 E-value=0.26 Score=47.57 Aligned_cols=21 Identities=29% Similarity=0.387 Sum_probs=16.9
Q ss_pred EEEEcCCCCChhHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ 431 (874)
++|.|+|||||||....+...
T Consensus 2 I~i~G~~GsGKst~a~~la~~ 22 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKK 22 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999986665544
No 462
>PRK06762 hypothetical protein; Provisional
Probab=90.22 E-value=0.25 Score=49.22 Aligned_cols=20 Identities=30% Similarity=0.385 Sum_probs=15.6
Q ss_pred CEEEEcCCCCChhHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I 429 (874)
.++|.|+|||||||....+.
T Consensus 4 li~i~G~~GsGKST~A~~L~ 23 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAKQLQ 23 (166)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 47899999999998654433
No 463
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=90.21 E-value=0.3 Score=49.28 Aligned_cols=46 Identities=20% Similarity=0.214 Sum_probs=31.2
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
.++|.||||||||+.....+.. .+.+++.++.....-+++.+|+..
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~-----~~~~~~~iat~~~~~~e~~~ri~~ 48 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQ-----SGLQVLYIATAQPFDDEMAARIAH 48 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHH-----cCCCcEeCcCCCCChHHHHHHHHH
Confidence 3799999999999875544322 123556666555556678888865
No 464
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=90.18 E-value=0.41 Score=54.62 Aligned_cols=130 Identities=18% Similarity=0.233 Sum_probs=88.6
Q ss_pred CCCCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhccccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRE 468 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~ 468 (874)
..+-+.|...+....++....--+|.=|=|.|||.+-+.++..+ .++.||++-|+.+++.-........ .+.+
T Consensus 301 t~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~ti-----kK~clvLcts~VSVeQWkqQfk~ws--ti~d 373 (776)
T KOG1123|consen 301 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACTI-----KKSCLVLCTSAVSVEQWKQQFKQWS--TIQD 373 (776)
T ss_pred cccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeeee-----cccEEEEecCccCHHHHHHHHHhhc--ccCc
Confidence 35778999999999976443445888899999998877766543 4689999999999999988876421 2445
Q ss_pred ccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhh---------hcccCCCCccEEEEE
Q 002849 469 NEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIY---------AEGVDRGHFSHIFLD 539 (874)
Q Consensus 469 ~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~---------~~~~~~~~fd~ViID 539 (874)
..+.|+.+..+.. .-..+.|+++|.+..+.-. ...+....+..+++|
T Consensus 374 ~~i~rFTsd~Ke~------------------------~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllD 429 (776)
T KOG1123|consen 374 DQICRFTSDAKER------------------------FPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLD 429 (776)
T ss_pred cceEEeecccccc------------------------CCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEee
Confidence 5666665543311 1145678888887543211 122345578999999
Q ss_pred cCCCCChhhhH
Q 002849 540 EAGQASEPESM 550 (874)
Q Consensus 540 EAsQ~~epe~l 550 (874)
|. ....+.++
T Consensus 430 EV-HvvPA~MF 439 (776)
T KOG1123|consen 430 EV-HVVPAKMF 439 (776)
T ss_pred hh-ccchHHHH
Confidence 99 66554443
No 465
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=90.17 E-value=0.43 Score=53.33 Aligned_cols=45 Identities=29% Similarity=0.420 Sum_probs=29.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLE 456 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~ 456 (874)
.+.++.||||||||+.+ +.+++.+. .+-..+-|++.-.+.|.+-.
T Consensus 44 ~~vll~G~PG~gKT~la-~~lA~~l~--~~~~~i~~t~~l~p~d~~G~ 88 (329)
T COG0714 44 GHVLLEGPPGVGKTLLA-RALARALG--LPFVRIQCTPDLLPSDLLGT 88 (329)
T ss_pred CCEEEECCCCccHHHHH-HHHHHHhC--CCeEEEecCCCCCHHHhcCc
Confidence 56999999999999754 44555443 34455566666666655443
No 466
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=90.16 E-value=0.41 Score=56.93 Aligned_cols=49 Identities=24% Similarity=0.268 Sum_probs=38.6
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhc
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
..++|.|+||||||+.+...+...++ .+.+++++++... .+.+.+++..
T Consensus 274 ~~~li~G~~G~GKT~l~~~~~~~~~~--~g~~~~yis~e~~-~~~i~~~~~~ 322 (509)
T PRK09302 274 SIILVSGATGTGKTLLASKFAEAACR--RGERCLLFAFEES-RAQLIRNARS 322 (509)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHh--CCCcEEEEEecCC-HHHHHHHHHH
Confidence 35899999999999999888877765 4678999988765 5566666654
No 467
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=90.16 E-value=0.49 Score=46.93 Aligned_cols=35 Identities=26% Similarity=0.324 Sum_probs=27.5
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCC
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPS 447 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApS 447 (874)
+.|.|++||||||++..++..+.. .+.+|.++-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~--~G~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKA--RGYRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEecc
Confidence 578899999999998887776653 35788887665
No 468
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=90.13 E-value=0.33 Score=50.85 Aligned_cols=40 Identities=15% Similarity=0.208 Sum_probs=28.6
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhc----CCCeEEEecCCH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATR----EDARLLVCAPSN 448 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~----~~~rILv~ApSN 448 (874)
..+.|.||||+|||+.+...+....... .+.+++.++..+
T Consensus 20 ~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 20 RITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred cEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 3689999999999999988877765422 125666666544
No 469
>PRK11823 DNA repair protein RadA; Provisional
Probab=90.12 E-value=0.47 Score=55.37 Aligned_cols=47 Identities=28% Similarity=0.379 Sum_probs=35.7
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
.++|.|+||+|||+.+...+..+.+ .+.++|.++...+ .+.+..|..
T Consensus 82 ~~lI~G~pG~GKTtL~lq~a~~~a~--~g~~vlYvs~Ees-~~qi~~ra~ 128 (446)
T PRK11823 82 VVLIGGDPGIGKSTLLLQVAARLAA--AGGKVLYVSGEES-ASQIKLRAE 128 (446)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEEcccc-HHHHHHHHH
Confidence 5899999999999999888877664 3578888887554 445655543
No 470
>COG3911 Predicted ATPase [General function prediction only]
Probab=90.06 E-value=0.25 Score=48.05 Aligned_cols=20 Identities=35% Similarity=0.670 Sum_probs=17.1
Q ss_pred CEEEEcCCCCChhHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I 429 (874)
.+++.|+||.||||.|.++.
T Consensus 11 ~fIltGgpGaGKTtLL~aLa 30 (183)
T COG3911 11 RFILTGGPGAGKTTLLAALA 30 (183)
T ss_pred EEEEeCCCCCcHHHHHHHHH
Confidence 58999999999999877644
No 471
>PLN02165 adenylate isopentenyltransferase
Probab=90.03 E-value=0.21 Score=55.46 Aligned_cols=22 Identities=27% Similarity=0.398 Sum_probs=18.0
Q ss_pred CCEEEEcCCCCChhHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~ 430 (874)
..++|.||+|||||+++..++.
T Consensus 44 ~iivIiGPTGSGKStLA~~LA~ 65 (334)
T PLN02165 44 KVVVIMGATGSGKSRLSVDLAT 65 (334)
T ss_pred CEEEEECCCCCcHHHHHHHHHH
Confidence 4689999999999998776443
No 472
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=90.00 E-value=0.88 Score=54.67 Aligned_cols=161 Identities=19% Similarity=0.221 Sum_probs=92.8
Q ss_pred CCCCHHHHHHHHHHhccCCCCC-EEEEcCCCCChhHHHHHHHHHHHH-hcCCCeEEEecCCHHHHHHHHHHHhccccccc
Q 002849 389 CNLNEEQMCSIEKILGLKGAPP-YLIYGPPGTGKTMTLVEAILQLYA-TREDARLLVCAPSNSAADHLLEKILGEKAVEV 466 (874)
Q Consensus 389 ~~LN~~Q~~AV~~il~~~~~~~-~lI~GPPGTGKT~Tlve~I~~ll~-~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~ 466 (874)
..|-+.|.+-+...++.-..+. .|+---=|=|||.--+..+.++.. .+-+...||++| -+..++-...+.+ ..
T Consensus 166 g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P-~StL~NW~~Ef~r----f~ 240 (971)
T KOG0385|consen 166 GELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAP-KSTLDNWMNEFKR----FT 240 (971)
T ss_pred CccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEee-HhhHHHHHHHHHH----hC
Confidence 4577788888777664211122 355556899999876666666554 234678999999 5666676666665 23
Q ss_pred ccccEEEecCCCCCCcCCchhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCCh
Q 002849 467 RENEIFRLNAPSRPYEDVNADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASE 546 (874)
Q Consensus 467 ~~~~i~Rl~~~~r~~~~v~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~e 546 (874)
+....+.+...... +.+... .++.. ...+|+++|.-.+-. ....+....+.++|||||...-.
T Consensus 241 P~l~~~~~~Gdk~e---------R~~~~r-~~~~~------~~fdV~iTsYEi~i~-dk~~lk~~~W~ylvIDEaHRiKN 303 (971)
T KOG0385|consen 241 PSLNVVVYHGDKEE---------RAALRR-DIMLP------GRFDVCITSYEIAIK-DKSFLKKFNWRYLVIDEAHRIKN 303 (971)
T ss_pred CCcceEEEeCCHHH---------HHHHHH-Hhhcc------CCCceEeehHHHHHh-hHHHHhcCCceEEEechhhhhcc
Confidence 33334433321100 000000 01110 256777777654432 22334556789999999987776
Q ss_pred hhhHHH-hhccccCCcEEEEecCCCc
Q 002849 547 PESMVP-ISSYCKKDTVVVLAGDPMQ 571 (874)
Q Consensus 547 pe~li~-L~~l~~~~~~vVLvGDp~Q 571 (874)
..++.. +........++.|.|-|-|
T Consensus 304 ~~s~L~~~lr~f~~~nrLLlTGTPLQ 329 (971)
T KOG0385|consen 304 EKSKLSKILREFKTDNRLLLTGTPLQ 329 (971)
T ss_pred hhhHHHHHHHHhcccceeEeeCCccc
Confidence 655432 1112223458999999999
No 473
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.98 E-value=0.4 Score=58.03 Aligned_cols=41 Identities=24% Similarity=0.362 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHHhccC-----CCCCEEEEcCCCCChhHHHHHHHHH
Q 002849 391 LNEEQMCSIEKILGLK-----GAPPYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~-----~~~~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
.++.+.+.|...+... ....++|.||||||||+++-.++..
T Consensus 88 ~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~ 133 (637)
T TIGR00602 88 VHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE 133 (637)
T ss_pred CcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 4666777777666431 1124899999999999987654443
No 474
>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=89.97 E-value=0.48 Score=53.87 Aligned_cols=47 Identities=23% Similarity=0.357 Sum_probs=35.4
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
.++|.|+||+|||+.+...+..+.+ .+.++|+++...+ .+.+..|..
T Consensus 84 lvLI~G~pG~GKStLllq~a~~~a~--~g~~VlYvs~EEs-~~qi~~Ra~ 130 (372)
T cd01121 84 VILIGGDPGIGKSTLLLQVAARLAK--RGGKVLYVSGEES-PEQIKLRAD 130 (372)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHh--cCCeEEEEECCcC-HHHHHHHHH
Confidence 5899999999999999888877765 3468998887544 345555543
No 475
>CHL00095 clpC Clp protease ATP binding subunit
Probab=89.97 E-value=0.44 Score=60.01 Aligned_cols=22 Identities=32% Similarity=0.475 Sum_probs=17.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~l 432 (874)
+++.||+|+|||+++..++..+
T Consensus 542 ~lf~Gp~GvGKt~lA~~LA~~l 563 (821)
T CHL00095 542 FLFSGPTGVGKTELTKALASYF 563 (821)
T ss_pred EEEECCCCCcHHHHHHHHHHHh
Confidence 7899999999998765544443
No 476
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=89.94 E-value=0.54 Score=59.42 Aligned_cols=100 Identities=19% Similarity=0.269 Sum_probs=0.0
Q ss_pred cCCCCCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHhcccccccccccEEEecCCCCCCcCC
Q 002849 405 LKGAPPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKILGEKAVEVRENEIFRLNAPSRPYEDV 484 (874)
Q Consensus 405 ~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~~~~~~~~~~~~i~Rl~~~~r~~~~v 484 (874)
.+..+.+++.||+|||||+++..+...+.. ....++.+-.+.-.-.....++.. .
T Consensus 592 ~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~--~~~~~i~~d~s~~~~~~~~~~l~g-----------------------~ 646 (852)
T TIGR03346 592 NRPIGSFLFLGPTGVGKTELAKALAEFLFD--DEDAMVRIDMSEYMEKHSVARLIG-----------------------A 646 (852)
T ss_pred CCCCeEEEEEcCCCCCHHHHHHHHHHHhcC--CCCcEEEEechhhcccchHHHhcC-----------------------C
Q ss_pred chhhhhhccccchhccCCchhhcccceEEEEechhhhhhhhcccCCCCccEEEEEcCCCCChhhhHHHhhcc
Q 002849 485 NADHIRFCFFDEQIFKCPPLAALVCYRIIISTYMSASLIYAEGVDRGHFSHIFLDEAGQASEPESMVPISSY 556 (874)
Q Consensus 485 ~~~~~~~~~~~~~~~~~~~~~~L~~~~VI~~T~~sa~~l~~~~~~~~~fd~ViIDEAsQ~~epe~li~L~~l 556 (874)
++.+..|.. +......+....+.+|++||...+.....-..+..+
T Consensus 647 ~~g~~g~~~---------------------------~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l 691 (852)
T TIGR03346 647 PPGYVGYEE---------------------------GGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVL 691 (852)
T ss_pred CCCccCccc---------------------------ccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHH
No 477
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=89.92 E-value=0.38 Score=54.46 Aligned_cols=48 Identities=21% Similarity=0.310 Sum_probs=28.4
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC--CHHHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP--SNSAADHLLEKI 458 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap--SNsAaD~l~~rL 458 (874)
.+|.||||+|||+.+...+..+...+++..+.|+.- -..-+..+.+.+
T Consensus 172 ~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsI 221 (416)
T PRK09376 172 GLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSV 221 (416)
T ss_pred EEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHh
Confidence 699999999999876665555555444444333322 112444454444
No 478
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=89.89 E-value=0.41 Score=53.57 Aligned_cols=24 Identities=38% Similarity=0.624 Sum_probs=18.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHH
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
+.+|+.||||||||+. +.++..++
T Consensus 30 ~~vLl~G~pG~gKT~l-ar~la~ll 53 (334)
T PRK13407 30 GGVLVFGDRGTGKSTA-VRALAALL 53 (334)
T ss_pred CcEEEEcCCCCCHHHH-HHHHHHHC
Confidence 4599999999999975 45565655
No 479
>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=89.86 E-value=0.46 Score=55.51 Aligned_cols=48 Identities=25% Similarity=0.382 Sum_probs=35.7
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecCCHHHHHHHHHHHh
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAPSNSAADHLLEKIL 459 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ApSNsAaD~l~~rL~ 459 (874)
..++|.|+||+|||+.+...+..+.+. +.++|+++.-.+. +.+..|..
T Consensus 95 svilI~G~pGsGKTTL~lq~a~~~a~~--g~kvlYvs~EEs~-~qi~~ra~ 142 (454)
T TIGR00416 95 SLILIGGDPGIGKSTLLLQVACQLAKN--QMKVLYVSGEESL-QQIKMRAI 142 (454)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEECcCCH-HHHHHHHH
Confidence 358999999999999999888777653 4688888875543 45555544
No 480
>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=89.85 E-value=0.36 Score=49.87 Aligned_cols=39 Identities=36% Similarity=0.583 Sum_probs=27.4
Q ss_pred CCEEEEcCCCCChhHHHHHHHHHHHHhc--CCCeEEEecCC
Q 002849 409 PPYLIYGPPGTGKTMTLVEAILQLYATR--EDARLLVCAPS 447 (874)
Q Consensus 409 ~~~lI~GPPGTGKT~Tlve~I~~ll~~~--~~~rILv~ApS 447 (874)
+.++|.|++|||||+++..++.+++... ...++.++-+.
T Consensus 39 ~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k 79 (205)
T PF01580_consen 39 PHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPK 79 (205)
T ss_dssp -SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT
T ss_pred ceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCC
Confidence 4589999999999999999999988743 33466666664
No 481
>PTZ00088 adenylate kinase 1; Provisional
Probab=89.84 E-value=0.26 Score=52.14 Aligned_cols=17 Identities=29% Similarity=0.593 Sum_probs=14.4
Q ss_pred EEEEcCCCCChhHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVE 427 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve 427 (874)
++|.||||+||||....
T Consensus 9 Ivl~G~PGsGK~T~a~~ 25 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEI 25 (229)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 79999999999976544
No 482
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=89.79 E-value=0.27 Score=49.92 Aligned_cols=20 Identities=40% Similarity=0.665 Sum_probs=15.6
Q ss_pred EEEEcCCCCChhHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~ 430 (874)
++|.||||+||||-...+..
T Consensus 3 iiilG~pGaGK~T~A~~La~ 22 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAK 22 (178)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 68999999999986554433
No 483
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=89.77 E-value=0.38 Score=59.00 Aligned_cols=37 Identities=24% Similarity=0.326 Sum_probs=27.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+.+.||.|+|||||++.++..+.......+|.+++.
T Consensus 187 Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~ 223 (767)
T PRK14723 187 VLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTT 223 (767)
T ss_pred EEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecC
Confidence 5899999999999999988877654333457755544
No 484
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.57 E-value=0.31 Score=48.14 Aligned_cols=22 Identities=36% Similarity=0.600 Sum_probs=16.9
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~l 432 (874)
+.|.|+||+||||.+...+-.+
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L 29 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKL 29 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHH
Confidence 6899999999998766544333
No 485
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=89.56 E-value=0.41 Score=51.22 Aligned_cols=32 Identities=22% Similarity=0.395 Sum_probs=22.1
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEe
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYATREDARLLVC 444 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~ 444 (874)
+++.|+|||||||.+..+...+-. .+.++.++
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~--~~~~v~~i 33 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSE--KNIDVIIL 33 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH--cCCceEEE
Confidence 689999999999987766655433 23444444
No 486
>PRK06696 uridine kinase; Validated
Probab=89.53 E-value=0.8 Score=48.18 Aligned_cols=34 Identities=18% Similarity=0.157 Sum_probs=21.9
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEec
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCA 445 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~A 445 (874)
.+.|.|++||||||.... ++..+.. .+..+++++
T Consensus 24 iI~I~G~sgsGKSTlA~~-L~~~l~~-~g~~v~~~~ 57 (223)
T PRK06696 24 RVAIDGITASGKTTFADE-LAEEIKK-RGRPVIRAS 57 (223)
T ss_pred EEEEECCCCCCHHHHHHH-HHHHHHH-cCCeEEEec
Confidence 467999999999987654 4444432 234555444
No 487
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=89.47 E-value=0.24 Score=52.35 Aligned_cols=16 Identities=69% Similarity=1.159 Sum_probs=14.0
Q ss_pred EEEEcCCCCChhHHHH
Q 002849 411 YLIYGPPGTGKTMTLV 426 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlv 426 (874)
+|.+||||||||.++-
T Consensus 154 VLFyGppGTGKTm~Ak 169 (368)
T COG1223 154 VLFYGPPGTGKTMMAK 169 (368)
T ss_pred eEEECCCCccHHHHHH
Confidence 7999999999998644
No 488
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=89.37 E-value=0.29 Score=49.41 Aligned_cols=19 Identities=37% Similarity=0.518 Sum_probs=15.8
Q ss_pred CEEEEcCCCCChhHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEA 428 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~ 428 (874)
.++|.||+|+||||++-.+
T Consensus 3 ~~~i~G~sGsGKttl~~~l 21 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYA 21 (179)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 4789999999999887643
No 489
>PRK13947 shikimate kinase; Provisional
Probab=89.37 E-value=0.31 Score=48.69 Aligned_cols=20 Identities=30% Similarity=0.280 Sum_probs=15.7
Q ss_pred EEEEcCCCCChhHHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAIL 430 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~ 430 (874)
++|.|+||||||++...++.
T Consensus 4 I~l~G~~GsGKst~a~~La~ 23 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVAT 23 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 78999999999987654433
No 490
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=89.36 E-value=0.22 Score=55.23 Aligned_cols=67 Identities=21% Similarity=0.250 Sum_probs=51.3
Q ss_pred CCHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-CCCeEEEecCCHHHHHHHHHHHhc
Q 002849 391 LNEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-EDARLLVCAPSNSAADHLLEKILG 460 (874)
Q Consensus 391 LN~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-~~~rILv~ApSNsAaD~l~~rL~~ 460 (874)
-+.-|++||.-++.. ..+.++...|||||.+-.-.+++.+... ....+|++|||+.-|..+.+....
T Consensus 49 PSaIQqraI~p~i~G---~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~~ 116 (397)
T KOG0327|consen 49 PSAIQQRAILPCIKG---HDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRA 116 (397)
T ss_pred chHHHhccccccccC---CceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHHh
Confidence 367799999888876 3479999999999999666666655322 335789999999888888866554
No 491
>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=89.36 E-value=0.33 Score=47.32 Aligned_cols=19 Identities=26% Similarity=0.224 Sum_probs=15.5
Q ss_pred EEEEcCCCCChhHHHHHHH
Q 002849 411 YLIYGPPGTGKTMTLVEAI 429 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I 429 (874)
++|.|+||||||+....+.
T Consensus 2 i~l~G~~GsGKstla~~la 20 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLA 20 (154)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 6899999999998765543
No 492
>CHL00195 ycf46 Ycf46; Provisional
Probab=89.36 E-value=0.27 Score=57.75 Aligned_cols=21 Identities=43% Similarity=0.627 Sum_probs=16.4
Q ss_pred CEEEEcCCCCChhHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQ 431 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ 431 (874)
.+++.||||||||.++ .+++.
T Consensus 261 GILL~GPpGTGKTllA-kaiA~ 281 (489)
T CHL00195 261 GLLLVGIQGTGKSLTA-KAIAN 281 (489)
T ss_pred eEEEECCCCCcHHHHH-HHHHH
Confidence 4899999999999765 44444
No 493
>PRK05541 adenylylsulfate kinase; Provisional
Probab=89.34 E-value=0.42 Score=48.13 Aligned_cols=24 Identities=29% Similarity=0.259 Sum_probs=18.5
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHH
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLY 433 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll 433 (874)
.+++.|+|||||||.+..+...+.
T Consensus 9 ~I~i~G~~GsGKst~a~~l~~~l~ 32 (176)
T PRK05541 9 VIWITGLAGSGKTTIAKALYERLK 32 (176)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHH
Confidence 578999999999987765555543
No 494
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=89.33 E-value=0.39 Score=57.16 Aligned_cols=39 Identities=28% Similarity=0.330 Sum_probs=28.2
Q ss_pred CCccEEEEEcCCCCChhhhHHHhhcccc---CCcEEEEecCC
Q 002849 531 GHFSHIFLDEAGQASEPESMVPISSYCK---KDTVVVLAGDP 569 (874)
Q Consensus 531 ~~fd~ViIDEAsQ~~epe~li~L~~l~~---~~~~vVLvGDp 569 (874)
.++++||+|||.-+.+++.-..+..+.. ++..+|-||-.
T Consensus 532 ~kP~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~Hr 573 (604)
T COG4178 532 HKPKWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGHR 573 (604)
T ss_pred cCCCEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEeccc
Confidence 3789999999999999987776654432 34567766644
No 495
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=89.30 E-value=0.42 Score=46.57 Aligned_cols=35 Identities=26% Similarity=0.312 Sum_probs=25.6
Q ss_pred CEEEEcCCCCChhHHHHHHHHHHHHhcCCCeEEEecC
Q 002849 410 PYLIYGPPGTGKTMTLVEAILQLYATREDARLLVCAP 446 (874)
Q Consensus 410 ~~lI~GPPGTGKT~Tlve~I~~ll~~~~~~rILv~Ap 446 (874)
.+.|.|+.||||||.+..++..+.+ .+.++.++-+
T Consensus 2 vv~VvG~~~sGKTTl~~~Li~~l~~--~g~~v~~ik~ 36 (140)
T PF03205_consen 2 VVQVVGPKNSGKTTLIRKLINELKR--RGYRVAVIKH 36 (140)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH--TT--EEEEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhH--cCCceEEEEE
Confidence 3689999999999999888888775 3566664433
No 496
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=89.22 E-value=0.48 Score=54.65 Aligned_cols=26 Identities=35% Similarity=0.862 Sum_probs=20.6
Q ss_pred CCEE--EEcCCCCChhHHHHHHHHHHHH
Q 002849 409 PPYL--IYGPPGTGKTMTLVEAILQLYA 434 (874)
Q Consensus 409 ~~~l--I~GPPGTGKT~Tlve~I~~ll~ 434 (874)
||++ |.|||||||||.+..++..+-+
T Consensus 68 PPfIvavvGPpGtGKsTLirSlVrr~tk 95 (1077)
T COG5192 68 PPFIVAVVGPPGTGKSTLIRSLVRRFTK 95 (1077)
T ss_pred CCeEEEeecCCCCChhHHHHHHHHHHHH
Confidence 4443 7999999999998888876654
No 497
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=89.16 E-value=0.3 Score=56.25 Aligned_cols=24 Identities=46% Similarity=0.868 Sum_probs=17.5
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHh
Q 002849 411 YLIYGPPGTGKTMTLVEAILQLYAT 435 (874)
Q Consensus 411 ~lI~GPPGTGKT~Tlve~I~~ll~~ 435 (874)
+|++||||||||..+ ..|-.++..
T Consensus 259 iLLyGPPGTGKTLiA-RqIGkMLNA 282 (744)
T KOG0741|consen 259 ILLYGPPGTGKTLIA-RQIGKMLNA 282 (744)
T ss_pred EEEECCCCCChhHHH-HHHHHHhcC
Confidence 799999999999754 445555543
No 498
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=89.16 E-value=0.38 Score=57.37 Aligned_cols=38 Identities=32% Similarity=0.545 Sum_probs=24.2
Q ss_pred HHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHH
Q 002849 394 EQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQL 432 (874)
Q Consensus 394 ~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~l 432 (874)
...+++...+......|++|.||||||||+. +.++.+.
T Consensus 72 ~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~l-Ar~i~~~ 109 (531)
T TIGR02902 72 EGIKALKAALCGPNPQHVIIYGPPGVGKTAA-ARLVLEE 109 (531)
T ss_pred HHHHHHHHHHhCCCCceEEEECCCCCCHHHH-HHHHHHH
Confidence 3445555444433346799999999999975 4444443
No 499
>PRK01184 hypothetical protein; Provisional
Probab=89.13 E-value=0.29 Score=49.66 Aligned_cols=14 Identities=36% Similarity=0.508 Sum_probs=12.8
Q ss_pred EEEEcCCCCChhHH
Q 002849 411 YLIYGPPGTGKTMT 424 (874)
Q Consensus 411 ~lI~GPPGTGKT~T 424 (874)
++|.|||||||||+
T Consensus 4 i~l~G~~GsGKsT~ 17 (184)
T PRK01184 4 IGVVGMPGSGKGEF 17 (184)
T ss_pred EEEECCCCCCHHHH
Confidence 68999999999995
No 500
>CHL00095 clpC Clp protease ATP binding subunit
Probab=89.08 E-value=0.53 Score=59.25 Aligned_cols=55 Identities=22% Similarity=0.327 Sum_probs=35.0
Q ss_pred CHHHHHHHHHHhccCCCCCEEEEcCCCCChhHHHHHHHHHHHHhc-----CCCeEEEecC
Q 002849 392 NEEQMCSIEKILGLKGAPPYLIYGPPGTGKTMTLVEAILQLYATR-----EDARLLVCAP 446 (874)
Q Consensus 392 N~~Q~~AV~~il~~~~~~~~lI~GPPGTGKT~Tlve~I~~ll~~~-----~~~rILv~Ap 446 (874)
.+++.+.+..+|..+.....++.||||+|||+++-..+..+.... .+.+|+.+..
T Consensus 184 r~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~ 243 (821)
T CHL00095 184 REKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDI 243 (821)
T ss_pred cHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeH
Confidence 456667777777655444579999999999987644444443211 2356665543
Done!