Query 012305
Match_columns 466
No_of_seqs 386 out of 2312
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 01:14:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012305.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012305hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0742 AAA+-type ATPase [Post 100.0 1E-102 3E-107 772.7 34.1 456 1-463 1-460 (630)
2 PF12037 DUF3523: Domain of un 100.0 6.4E-66 1.4E-70 496.1 19.2 259 60-318 18-276 (276)
3 KOG0742 AAA+-type ATPase [Post 99.8 5.5E-19 1.2E-23 177.2 17.1 218 6-235 1-229 (630)
4 COG1222 RPT1 ATP-dependent 26S 99.8 4.7E-19 1E-23 175.9 7.7 117 348-465 141-263 (406)
5 COG1223 Predicted ATPase (AAA+ 99.8 3.2E-19 6.9E-24 170.2 4.4 110 352-462 115-226 (368)
6 COG2204 AtoC Response regulato 99.8 4.8E-19 1E-23 184.4 4.8 195 231-461 44-250 (464)
7 KOG0733 Nuclear AAA ATPase (VC 99.7 5.6E-18 1.2E-22 177.0 6.3 110 354-464 186-300 (802)
8 KOG0734 AAA+-type ATPase conta 99.7 9E-18 2E-22 173.2 6.7 110 354-464 300-414 (752)
9 KOG0738 AAA+-type ATPase [Post 99.7 7.9E-18 1.7E-22 168.3 5.3 112 352-464 206-322 (491)
10 KOG0733 Nuclear AAA ATPase (VC 99.7 1.8E-17 3.9E-22 173.3 5.2 113 352-465 505-623 (802)
11 KOG0730 AAA+-type ATPase [Post 99.7 2.1E-17 4.6E-22 174.7 4.9 112 352-464 428-545 (693)
12 KOG0727 26S proteasome regulat 99.7 2.3E-16 4.9E-21 150.2 8.6 117 348-465 145-267 (408)
13 KOG0736 Peroxisome assembly fa 99.6 8.4E-17 1.8E-21 172.0 5.7 117 347-464 661-782 (953)
14 KOG0731 AAA+-type ATPase conta 99.6 7.8E-17 1.7E-21 174.9 5.2 113 350-463 303-420 (774)
15 KOG0739 AAA+-type ATPase [Post 99.6 9.4E-17 2E-21 155.9 4.7 112 352-464 127-243 (439)
16 PF05496 RuvB_N: Holliday junc 99.6 2.8E-16 6.2E-21 149.1 4.1 101 354-465 20-120 (233)
17 PRK10865 protein disaggregatio 99.6 7.4E-15 1.6E-19 166.1 11.2 254 155-464 413-688 (857)
18 KOG0729 26S proteasome regulat 99.6 2.8E-15 6.2E-20 143.7 5.3 114 350-464 169-288 (435)
19 TIGR01241 FtsH_fam ATP-depende 99.5 2.7E-15 5.9E-20 160.7 4.9 112 352-464 49-165 (495)
20 KOG0726 26S proteasome regulat 99.5 5.9E-15 1.3E-19 143.0 6.5 116 349-465 176-297 (440)
21 COG0465 HflB ATP-dependent Zn 99.5 3.8E-15 8.1E-20 159.2 5.6 111 352-463 144-259 (596)
22 COG0542 clpA ATP-binding subun 99.5 7.9E-15 1.7E-19 160.5 7.7 138 300-465 456-612 (786)
23 COG0464 SpoVK ATPases of the A 99.5 6E-15 1.3E-19 158.0 6.5 113 351-464 235-353 (494)
24 CHL00195 ycf46 Ycf46; Provisio 99.5 6.7E-15 1.5E-19 156.3 5.8 110 352-462 222-334 (489)
25 PF12037 DUF3523: Domain of un 99.5 6.7E-14 1.4E-18 135.9 11.3 157 61-227 14-174 (276)
26 KOG0737 AAA+-type ATPase [Post 99.5 1.2E-14 2.5E-19 145.5 6.0 112 351-463 85-203 (386)
27 PLN00020 ribulose bisphosphate 99.5 1.4E-14 3E-19 146.4 6.5 81 383-463 144-229 (413)
28 CHL00176 ftsH cell division pr 99.5 1.3E-14 2.7E-19 158.7 6.2 111 352-463 177-292 (638)
29 KOG0652 26S proteasome regulat 99.5 3.1E-14 6.8E-19 136.2 7.6 116 349-465 162-283 (424)
30 PRK03992 proteasome-activating 99.5 1.4E-14 3E-19 150.7 5.7 111 352-463 125-241 (389)
31 PTZ00454 26S protease regulato 99.5 1.3E-14 2.8E-19 150.9 5.2 112 351-463 138-255 (398)
32 COG2256 MGS1 ATPase related to 99.5 1E-14 2.2E-19 147.4 3.1 102 354-466 20-124 (436)
33 TIGR01243 CDC48 AAA family ATP 99.5 3.6E-14 7.7E-19 158.8 6.3 110 353-463 448-563 (733)
34 KOG0735 AAA+-type ATPase [Post 99.5 2.1E-14 4.5E-19 152.7 3.8 111 353-464 662-778 (952)
35 KOG0728 26S proteasome regulat 99.4 1.8E-13 4E-18 130.3 8.2 106 358-464 146-258 (404)
36 PTZ00361 26 proteosome regulat 99.4 6.3E-14 1.4E-18 146.9 5.4 112 351-463 176-293 (438)
37 TIGR03346 chaperone_ClpB ATP-d 99.4 4.3E-13 9.3E-18 152.1 11.8 137 300-464 530-685 (852)
38 COG2255 RuvB Holliday junction 99.4 9.6E-14 2.1E-18 134.6 4.2 99 354-463 22-120 (332)
39 TIGR03689 pup_AAA proteasome A 99.4 1.8E-13 4E-18 145.4 6.3 112 352-463 176-306 (512)
40 TIGR01242 26Sp45 26S proteasom 99.4 2E-13 4.3E-18 140.9 4.9 112 351-463 115-232 (364)
41 KOG0651 26S proteasome regulat 99.4 1.7E-13 3.7E-18 134.1 3.9 110 353-463 127-242 (388)
42 PF00004 AAA: ATPase family as 99.4 3.4E-13 7.4E-18 117.4 5.1 73 390-462 1-74 (132)
43 TIGR02881 spore_V_K stage V sp 99.4 2.8E-13 6.2E-18 133.4 5.0 100 357-460 5-119 (261)
44 TIGR03345 VI_ClpV1 type VI sec 99.4 2.8E-12 6.2E-17 144.9 12.6 136 300-463 531-685 (852)
45 TIGR01243 CDC48 AAA family ATP 99.3 1.1E-12 2.4E-17 146.9 6.2 111 353-464 173-289 (733)
46 KOG0740 AAA+-type ATPase [Post 99.3 3.1E-12 6.8E-17 132.0 5.7 111 353-464 148-263 (428)
47 PRK11034 clpA ATP-dependent Cl 99.3 2.5E-12 5.4E-17 143.1 4.4 136 301-464 424-575 (758)
48 CHL00181 cbbX CbbX; Provisiona 99.3 2.6E-12 5.7E-17 128.3 3.6 99 358-460 23-136 (287)
49 KOG2028 ATPase related to the 99.3 3.1E-12 6.8E-17 127.6 4.0 104 352-466 132-242 (554)
50 COG3604 FhlA Transcriptional r 99.3 4.8E-12 1E-16 131.0 5.4 104 352-461 217-332 (550)
51 KOG0741 AAA+-type ATPase [Post 99.2 6E-12 1.3E-16 130.5 5.5 113 352-465 213-343 (744)
52 COG3829 RocR Transcriptional r 99.2 3.7E-12 8.1E-17 133.4 4.0 104 351-460 238-354 (560)
53 PRK00080 ruvB Holliday junctio 99.2 3.7E-12 8.1E-17 129.6 3.9 98 354-462 21-118 (328)
54 TIGR02880 cbbX_cfxQ probable R 99.2 5.8E-12 1.3E-16 125.7 5.2 98 359-460 23-135 (284)
55 CHL00206 ycf2 Ycf2; Provisiona 99.2 5.1E-12 1.1E-16 146.9 4.7 77 385-462 1628-1748(2281)
56 PRK10733 hflB ATP-dependent me 99.2 4.9E-12 1.1E-16 139.4 4.2 110 354-464 148-262 (644)
57 TIGR00635 ruvB Holliday juncti 99.2 6.3E-12 1.4E-16 126.2 3.9 96 356-462 2-97 (305)
58 KOG0989 Replication factor C, 99.2 4.7E-12 1E-16 124.2 2.7 103 354-464 32-147 (346)
59 PRK05342 clpX ATP-dependent pr 99.2 2.9E-11 6.3E-16 126.3 7.5 102 360-461 73-188 (412)
60 PF00158 Sigma54_activat: Sigm 99.2 5.9E-12 1.3E-16 116.1 1.7 94 360-463 1-110 (168)
61 PRK13342 recombination factor 99.2 8.8E-12 1.9E-16 130.8 2.9 96 354-463 8-109 (413)
62 TIGR02639 ClpA ATP-dependent C 99.2 1.7E-11 3.6E-16 137.3 5.1 103 358-464 454-571 (731)
63 TIGR00763 lon ATP-dependent pr 99.2 3.5E-10 7.5E-15 127.5 15.6 101 358-462 320-430 (775)
64 PRK04195 replication factor C 99.2 3.3E-11 7.2E-16 128.8 6.4 98 354-460 10-112 (482)
65 KOG1051 Chaperone HSP104 and r 99.2 1.8E-11 3.9E-16 136.0 4.2 203 197-464 461-678 (898)
66 KOG0743 AAA+-type ATPase [Post 99.1 6.2E-11 1.4E-15 121.9 7.4 101 352-460 195-300 (457)
67 KOG0730 AAA+-type ATPase [Post 99.1 4.1E-11 8.9E-16 127.6 5.5 107 358-464 184-296 (693)
68 PRK14962 DNA polymerase III su 99.1 3.8E-11 8.2E-16 127.5 4.7 96 354-461 10-132 (472)
69 CHL00095 clpC Clp protease ATP 99.1 3.5E-11 7.6E-16 136.3 3.8 137 300-464 474-629 (821)
70 PRK14956 DNA polymerase III su 99.1 4.5E-11 9.7E-16 125.9 4.3 104 354-464 14-139 (484)
71 KOG0991 Replication factor C, 99.1 4.4E-11 9.6E-16 113.2 3.7 98 356-463 25-130 (333)
72 PRK14958 DNA polymerase III su 99.1 5.2E-11 1.1E-15 127.7 4.6 104 354-464 12-137 (509)
73 PLN03025 replication factor C 99.1 5.3E-11 1.1E-15 120.7 3.6 101 354-464 9-117 (319)
74 PRK12323 DNA polymerase III su 99.1 6.7E-11 1.5E-15 127.7 4.4 104 354-464 12-142 (700)
75 KOG0732 AAA+-type ATPase conta 99.1 1.5E-10 3.3E-15 129.5 7.2 110 353-463 260-380 (1080)
76 TIGR00382 clpX endopeptidase C 99.1 2E-10 4.4E-15 119.6 6.7 104 359-462 78-197 (413)
77 PRK14960 DNA polymerase III su 99.1 1E-10 2.2E-15 126.6 4.6 103 354-463 11-135 (702)
78 PRK13341 recombination factor 99.1 8.8E-11 1.9E-15 130.3 4.2 99 354-463 24-126 (725)
79 PRK07994 DNA polymerase III su 99.0 1.2E-10 2.7E-15 127.0 4.6 105 354-465 12-138 (647)
80 PRK14949 DNA polymerase III su 99.0 1.5E-10 3.2E-15 128.7 4.9 104 354-464 12-137 (944)
81 PHA02544 44 clamp loader, smal 99.0 3.5E-10 7.6E-15 114.1 7.1 95 354-458 17-112 (316)
82 PRK07003 DNA polymerase III su 99.0 1.3E-10 2.8E-15 127.1 4.1 104 354-464 12-137 (830)
83 PRK15424 propionate catabolism 99.0 1E-10 2.2E-15 125.8 3.2 100 354-463 215-339 (538)
84 KOG2004 Mitochondrial ATP-depe 99.0 1.6E-09 3.5E-14 116.2 12.1 98 359-460 412-519 (906)
85 COG1219 ClpX ATP-dependent pro 99.0 3.4E-10 7.4E-15 111.6 5.9 105 360-464 63-180 (408)
86 TIGR02639 ClpA ATP-dependent C 99.0 2.9E-10 6.3E-15 127.4 6.2 99 354-461 178-289 (731)
87 PRK14964 DNA polymerase III su 99.0 2.2E-10 4.7E-15 121.7 4.7 98 354-463 9-133 (491)
88 PRK14951 DNA polymerase III su 99.0 2.3E-10 5.1E-15 124.5 4.9 104 354-464 12-142 (618)
89 TIGR00390 hslU ATP-dependent p 99.0 5.2E-10 1.1E-14 115.6 7.0 64 360-423 14-83 (441)
90 TIGR02329 propionate_PrpR prop 99.0 1.4E-10 3.1E-15 124.7 2.7 102 352-463 206-324 (526)
91 PRK05201 hslU ATP-dependent pr 99.0 6E-10 1.3E-14 115.2 6.9 83 359-441 16-107 (443)
92 KOG0744 AAA+-type ATPase [Post 99.0 2E-10 4.4E-15 113.3 2.8 108 356-463 140-267 (423)
93 TIGR02915 PEP_resp_reg putativ 99.0 9.6E-11 2.1E-15 123.8 0.4 164 275-463 71-250 (445)
94 PRK14961 DNA polymerase III su 99.0 4.2E-10 9E-15 116.2 4.9 101 354-461 12-134 (363)
95 PRK14957 DNA polymerase III su 99.0 4E-10 8.7E-15 121.2 4.7 104 354-464 12-137 (546)
96 PRK06645 DNA polymerase III su 99.0 4.7E-10 1E-14 119.9 4.9 102 353-461 16-143 (507)
97 PRK14969 DNA polymerase III su 99.0 4.4E-10 9.6E-15 121.2 4.7 103 354-463 12-136 (527)
98 COG0466 Lon ATP-dependent Lon 99.0 1.4E-09 3E-14 117.1 8.1 99 359-461 324-432 (782)
99 PRK10865 protein disaggregatio 98.9 9.3E-10 2E-14 124.9 7.1 101 354-462 174-287 (857)
100 PRK10820 DNA-binding transcrip 98.9 3.8E-10 8.2E-15 121.8 3.3 102 352-463 198-315 (520)
101 PRK08691 DNA polymerase III su 98.9 5.4E-10 1.2E-14 121.9 4.5 101 354-461 12-134 (709)
102 PRK14959 DNA polymerase III su 98.9 5.6E-10 1.2E-14 121.0 4.6 100 354-462 12-135 (624)
103 PRK14963 DNA polymerase III su 98.9 5E-10 1.1E-14 120.0 4.1 96 354-461 10-131 (504)
104 TIGR03345 VI_ClpV1 type VI sec 98.9 1.3E-09 2.9E-14 123.5 7.7 100 354-461 183-295 (852)
105 PRK07764 DNA polymerase III su 98.9 6.3E-10 1.4E-14 125.0 4.6 105 354-465 11-139 (824)
106 PRK14952 DNA polymerase III su 98.9 8E-10 1.7E-14 119.9 5.0 104 354-464 9-136 (584)
107 TIGR02974 phageshock_pspF psp 98.9 4E-10 8.7E-15 114.8 2.6 94 360-463 1-110 (329)
108 TIGR01817 nifA Nif-specific re 98.9 3.8E-10 8.1E-15 122.3 2.5 101 353-463 191-307 (534)
109 CHL00095 clpC Clp protease ATP 98.9 1.1E-09 2.3E-14 124.3 6.2 99 355-462 176-287 (821)
110 PRK11608 pspF phage shock prot 98.9 5.4E-10 1.2E-14 113.7 2.9 98 356-463 4-117 (326)
111 PRK14965 DNA polymerase III su 98.9 1.1E-09 2.3E-14 119.5 5.0 104 354-464 12-137 (576)
112 COG1221 PspF Transcriptional r 98.9 4E-10 8.7E-15 116.1 1.2 101 353-463 73-190 (403)
113 PRK07940 DNA polymerase III su 98.9 1.5E-09 3.3E-14 112.9 5.4 109 356-464 3-135 (394)
114 PRK14955 DNA polymerase III su 98.9 1.4E-09 3.1E-14 113.6 5.2 53 354-413 12-64 (397)
115 PRK05563 DNA polymerase III su 98.9 1.3E-09 2.9E-14 118.2 5.0 101 354-461 12-134 (559)
116 PRK05896 DNA polymerase III su 98.9 1.4E-09 3E-14 117.5 4.9 101 354-461 12-134 (605)
117 PF07724 AAA_2: AAA domain (Cd 98.9 2.6E-10 5.6E-15 105.5 -0.7 74 386-460 2-82 (171)
118 TIGR02928 orc1/cdc6 family rep 98.9 3E-09 6.5E-14 109.4 6.9 106 352-461 9-144 (365)
119 PRK10923 glnG nitrogen regulat 98.9 5.3E-10 1.2E-14 118.9 1.2 188 233-462 45-248 (469)
120 TIGR03346 chaperone_ClpB ATP-d 98.9 2.7E-09 5.8E-14 121.4 6.8 99 354-460 169-280 (852)
121 smart00382 AAA ATPases associa 98.9 2.4E-09 5.3E-14 92.2 5.0 74 388-462 3-94 (148)
122 PRK12402 replication factor C 98.9 1.3E-09 2.9E-14 110.5 3.6 62 354-423 11-77 (337)
123 PRK05022 anaerobic nitric oxid 98.8 1.2E-09 2.7E-14 117.5 3.3 98 356-463 185-298 (509)
124 PRK11361 acetoacetate metaboli 98.8 4.1E-10 8.9E-15 119.2 -0.6 165 275-463 74-254 (457)
125 PRK06893 DNA replication initi 98.8 3E-09 6.5E-14 102.9 5.4 96 350-461 8-106 (229)
126 PRK15429 formate hydrogenlyase 98.8 2.2E-09 4.7E-14 119.7 4.7 100 354-463 372-487 (686)
127 PRK06305 DNA polymerase III su 98.8 2.5E-09 5.5E-14 113.3 5.0 52 354-412 13-64 (451)
128 PRK14970 DNA polymerase III su 98.8 2.9E-09 6.2E-14 110.0 5.0 100 354-460 13-122 (367)
129 PRK11388 DNA-binding transcrip 98.8 1.9E-09 4.2E-14 119.2 3.9 100 354-463 321-433 (638)
130 TIGR03420 DnaA_homol_Hda DnaA 98.8 3.2E-09 7E-14 101.6 4.6 92 352-461 9-105 (226)
131 PRK14953 DNA polymerase III su 98.8 2.9E-09 6.4E-14 113.6 4.7 102 354-462 12-135 (486)
132 PRK00411 cdc6 cell division co 98.8 6.8E-09 1.5E-13 107.9 7.0 103 353-459 25-151 (394)
133 PRK06647 DNA polymerase III su 98.8 4.1E-09 9E-14 114.3 4.9 102 354-462 12-135 (563)
134 KOG0745 Putative ATP-dependent 98.8 4.6E-09 1E-13 107.3 4.8 73 389-461 228-306 (564)
135 PF14532 Sigma54_activ_2: Sigm 98.8 1.6E-09 3.4E-14 96.4 1.2 83 361-463 1-86 (138)
136 PRK09111 DNA polymerase III su 98.8 5.1E-09 1.1E-13 114.2 5.3 102 354-462 20-148 (598)
137 PRK08903 DnaA regulatory inact 98.8 3.3E-09 7E-14 102.1 3.1 90 351-461 11-105 (227)
138 PRK08451 DNA polymerase III su 98.8 5.6E-09 1.2E-13 112.0 5.0 104 354-464 10-135 (535)
139 cd00009 AAA The AAA+ (ATPases 98.8 1.5E-08 3.2E-13 88.3 6.8 71 388-458 20-96 (151)
140 PRK14948 DNA polymerase III su 98.8 6E-09 1.3E-13 114.3 5.2 101 354-461 12-136 (620)
141 PRK14950 DNA polymerase III su 98.8 4.9E-09 1.1E-13 114.7 4.5 52 354-412 12-63 (585)
142 PRK00149 dnaA chromosomal repl 98.8 6.8E-09 1.5E-13 110.2 5.4 106 350-461 114-226 (450)
143 PRK10787 DNA-binding ATP-depen 98.8 1E-07 2.3E-12 107.2 15.1 100 359-462 323-432 (784)
144 PRK07133 DNA polymerase III su 98.8 5.1E-09 1.1E-13 115.3 4.4 102 354-462 14-134 (725)
145 TIGR02902 spore_lonB ATP-depen 98.8 2.8E-09 6E-14 115.3 2.3 62 353-422 60-131 (531)
146 TIGR02397 dnaX_nterm DNA polym 98.8 7.4E-09 1.6E-13 106.0 5.1 101 354-461 10-132 (355)
147 PRK12422 chromosomal replicati 98.7 9.6E-09 2.1E-13 108.6 5.7 110 350-461 103-217 (445)
148 PRK14954 DNA polymerase III su 98.7 7.9E-09 1.7E-13 112.9 5.1 53 354-413 12-64 (620)
149 PF00308 Bac_DnaA: Bacterial d 98.7 6.6E-09 1.4E-13 99.9 3.9 104 352-461 2-112 (219)
150 TIGR00362 DnaA chromosomal rep 98.7 1.2E-08 2.5E-13 106.9 5.7 106 350-461 102-214 (405)
151 PRK11034 clpA ATP-dependent Cl 98.7 1.6E-08 3.5E-13 113.0 6.7 99 355-462 183-294 (758)
152 PRK12377 putative replication 98.7 1E-08 2.2E-13 100.3 4.5 100 354-459 70-176 (248)
153 PTZ00112 origin recognition co 98.7 1.5E-08 3.2E-13 111.9 6.0 110 352-464 749-887 (1164)
154 PRK14088 dnaA chromosomal repl 98.7 1.4E-08 3E-13 107.5 5.6 106 350-461 97-209 (440)
155 PRK15115 response regulator Gl 98.7 5.1E-09 1.1E-13 110.6 2.3 182 234-463 48-245 (444)
156 TIGR02640 gas_vesic_GvpN gas v 98.7 1.3E-08 2.8E-13 100.5 4.6 34 389-422 23-56 (262)
157 PRK06620 hypothetical protein; 98.7 2.4E-08 5.2E-13 95.7 6.3 88 351-458 9-97 (214)
158 PRK08084 DNA replication initi 98.7 1.7E-08 3.7E-13 98.1 5.2 95 351-461 15-112 (235)
159 COG0470 HolB ATPase involved i 98.7 1.6E-08 3.5E-13 101.8 5.0 101 359-465 2-128 (325)
160 PRK00440 rfc replication facto 98.7 1.1E-08 2.3E-13 103.0 3.5 94 355-460 14-116 (319)
161 COG1474 CDC6 Cdc6-related prot 98.7 2.9E-08 6.3E-13 102.4 6.7 103 357-463 16-140 (366)
162 PF05673 DUF815: Protein of un 98.7 1.8E-08 3.9E-13 97.3 4.8 92 353-456 22-116 (249)
163 PHA02244 ATPase-like protein 98.7 2.2E-08 4.7E-13 102.3 5.2 93 360-461 98-195 (383)
164 TIGR02903 spore_lon_C ATP-depe 98.6 1.3E-08 2.9E-13 111.7 3.5 62 354-423 150-221 (615)
165 PRK14086 dnaA chromosomal repl 98.6 2E-08 4.3E-13 108.7 4.7 107 350-462 280-393 (617)
166 PRK08116 hypothetical protein; 98.6 2E-08 4.3E-13 99.5 4.2 101 354-457 81-189 (268)
167 COG3283 TyrR Transcriptional r 98.6 1.7E-08 3.6E-13 101.1 3.6 101 351-461 197-308 (511)
168 PRK08727 hypothetical protein; 98.6 3.4E-08 7.3E-13 95.9 5.7 95 351-462 12-109 (233)
169 PF01078 Mg_chelatase: Magnesi 98.6 1.4E-08 3.1E-13 95.9 2.9 45 357-411 2-46 (206)
170 PF07728 AAA_5: AAA domain (dy 98.6 2.9E-09 6.3E-14 94.4 -1.7 73 389-461 1-80 (139)
171 KOG0990 Replication factor C, 98.6 1.4E-08 2.9E-13 100.6 2.8 102 354-465 37-150 (360)
172 PRK05642 DNA replication initi 98.6 3.8E-08 8.2E-13 95.6 5.1 99 350-461 11-112 (234)
173 COG2812 DnaX DNA polymerase II 98.6 3.5E-08 7.5E-13 105.0 5.1 106 354-466 12-139 (515)
174 PRK08939 primosomal protein Dn 98.6 2.4E-08 5.3E-13 100.7 3.4 70 386-458 155-229 (306)
175 PRK14087 dnaA chromosomal repl 98.6 5E-08 1.1E-12 103.4 5.9 105 354-461 111-221 (450)
176 PRK07952 DNA replication prote 98.6 5.2E-08 1.1E-12 95.1 5.2 100 354-459 68-175 (244)
177 KOG1969 DNA replication checkp 98.6 4.7E-08 1E-12 105.4 4.9 71 388-459 327-400 (877)
178 TIGR01818 ntrC nitrogen regula 98.6 1.9E-08 4.2E-13 106.7 1.7 189 234-463 41-245 (463)
179 COG1484 DnaC DNA replication p 98.5 5.6E-08 1.2E-12 95.5 3.9 69 388-459 106-180 (254)
180 PRK14971 DNA polymerase III su 98.5 6.7E-08 1.4E-12 106.0 4.8 102 354-462 13-137 (614)
181 KOG0741 AAA+-type ATPase [Post 98.5 1.1E-07 2.4E-12 99.3 5.9 75 384-459 535-611 (744)
182 COG0714 MoxR-like ATPases [Gen 98.5 3.4E-08 7.4E-13 100.6 2.1 96 359-464 25-130 (329)
183 TIGR00602 rad24 checkpoint pro 98.5 1.3E-07 2.7E-12 103.6 6.5 61 354-417 80-140 (637)
184 PRK08181 transposase; Validate 98.5 3.5E-08 7.7E-13 97.6 1.9 71 388-461 107-182 (269)
185 PF07726 AAA_3: ATPase family 98.5 2.7E-09 5.8E-14 93.3 -5.5 75 389-463 1-79 (131)
186 PRK06526 transposase; Provisio 98.5 4.7E-08 1E-12 96.1 2.5 70 388-460 99-173 (254)
187 TIGR01650 PD_CobS cobaltochela 98.5 2E-08 4.3E-13 101.3 -0.6 73 388-462 65-150 (327)
188 PRK10365 transcriptional regul 98.5 4.1E-08 8.8E-13 103.5 1.0 187 234-463 48-250 (441)
189 PF06068 TIP49: TIP49 C-termin 98.5 1.6E-07 3.4E-12 95.4 5.1 86 352-440 18-105 (398)
190 CHL00081 chlI Mg-protoporyphyr 98.5 4.5E-08 9.8E-13 100.1 0.9 52 352-411 11-62 (350)
191 PRK13407 bchI magnesium chelat 98.4 4.8E-08 1E-12 99.5 0.8 50 354-411 4-53 (334)
192 PRK05564 DNA polymerase III su 98.4 2.1E-07 4.6E-12 94.1 5.0 101 356-463 2-110 (313)
193 PRK09112 DNA polymerase III su 98.4 2.3E-07 4.9E-12 95.4 5.2 52 354-412 19-70 (351)
194 COG1224 TIP49 DNA helicase TIP 98.4 4.5E-07 9.7E-12 91.1 6.6 88 350-440 31-120 (450)
195 PRK13531 regulatory ATPase Rav 98.4 1.1E-07 2.4E-12 100.3 2.3 97 358-464 20-125 (498)
196 PRK07471 DNA polymerase III su 98.4 2.8E-07 6.1E-12 95.2 4.9 52 353-411 14-65 (365)
197 PF05621 TniB: Bacterial TniB 98.4 8.6E-07 1.9E-11 88.3 7.7 100 358-460 34-159 (302)
198 PRK07399 DNA polymerase III su 98.3 4E-07 8.6E-12 92.2 4.6 49 356-411 2-50 (314)
199 TIGR02442 Cob-chelat-sub cobal 98.3 2E-07 4.3E-12 103.0 2.6 48 356-411 2-49 (633)
200 PRK06835 DNA replication prote 98.3 3.4E-07 7.4E-12 93.2 4.0 69 388-459 184-259 (329)
201 PF01695 IstB_IS21: IstB-like 98.3 7.9E-08 1.7E-12 89.5 -0.6 69 388-459 48-121 (178)
202 COG0606 Predicted ATPase with 98.3 2.9E-07 6.3E-12 95.9 3.4 48 354-411 175-222 (490)
203 TIGR00678 holB DNA polymerase 98.3 3.7E-07 8.1E-12 85.3 3.3 76 387-462 14-112 (188)
204 TIGR00368 Mg chelatase-related 98.3 1.7E-07 3.7E-12 100.3 0.3 47 355-411 189-235 (499)
205 COG2607 Predicted ATPase (AAA+ 98.3 7.9E-07 1.7E-11 85.1 4.5 91 353-455 55-148 (287)
206 COG4650 RtcR Sigma54-dependent 98.2 6.8E-07 1.5E-11 87.7 3.6 74 390-463 211-299 (531)
207 PRK11331 5-methylcytosine-spec 98.2 1.3E-06 2.7E-11 91.7 5.7 95 357-461 174-287 (459)
208 COG0593 DnaA ATPase involved i 98.2 1.2E-06 2.7E-11 90.8 5.5 106 350-461 79-190 (408)
209 PF13401 AAA_22: AAA domain; P 98.2 5.6E-07 1.2E-11 78.3 2.6 71 388-459 5-100 (131)
210 PRK06921 hypothetical protein; 98.2 6.3E-07 1.4E-11 88.7 3.1 68 387-457 117-188 (266)
211 PRK09087 hypothetical protein; 98.2 1.9E-06 4.1E-11 83.3 6.2 60 351-416 14-73 (226)
212 COG0542 clpA ATP-binding subun 98.2 1.7E-06 3.6E-11 95.8 6.4 98 355-461 167-277 (786)
213 KOG0735 AAA+-type ATPase [Post 98.2 2.1E-06 4.5E-11 92.7 6.5 96 358-460 408-508 (952)
214 PRK09183 transposase/IS protei 98.2 6.3E-07 1.4E-11 88.4 2.3 72 388-461 103-179 (259)
215 PRK08058 DNA polymerase III su 98.2 1.1E-06 2.4E-11 89.6 3.7 101 357-464 4-128 (329)
216 COG1220 HslU ATP-dependent pro 98.2 2.1E-06 4.5E-11 85.8 5.2 82 360-441 17-107 (444)
217 PF13173 AAA_14: AAA domain 98.2 1.8E-06 3.9E-11 75.7 4.2 69 389-459 4-74 (128)
218 TIGR02030 BchI-ChlI magnesium 98.2 3.8E-07 8.2E-12 93.1 -0.2 48 356-411 2-49 (337)
219 PHA00729 NTP-binding motif con 98.1 2.1E-06 4.6E-11 82.5 3.9 25 388-412 18-42 (226)
220 KOG0736 Peroxisome assembly fa 98.1 3.8E-06 8.2E-11 91.5 6.2 76 388-464 432-508 (953)
221 PF13177 DNA_pol3_delta2: DNA 98.1 2.6E-06 5.5E-11 78.1 4.2 96 362-464 1-120 (162)
222 COG3284 AcoR Transcriptional a 98.1 1.3E-06 2.9E-11 93.5 1.6 93 362-460 317-421 (606)
223 cd01120 RecA-like_NTPases RecA 97.9 9.2E-06 2E-10 72.5 4.5 32 389-420 1-35 (165)
224 KOG1942 DNA helicase, TBP-inte 97.9 1.6E-05 3.4E-10 78.2 6.3 71 352-425 32-104 (456)
225 PRK05707 DNA polymerase III su 97.9 7.2E-06 1.6E-10 83.6 3.9 78 387-464 22-124 (328)
226 TIGR03015 pepcterm_ATPase puta 97.9 2.9E-05 6.3E-10 76.2 7.7 24 389-412 45-68 (269)
227 smart00763 AAA_PrkA PrkA AAA d 97.9 9.9E-06 2.2E-10 82.9 4.3 63 356-420 48-118 (361)
228 PF06309 Torsin: Torsin; Inte 97.8 4.5E-05 9.7E-10 66.7 6.9 52 359-411 26-77 (127)
229 KOG2170 ATPase of the AAA+ sup 97.8 3.3E-05 7.2E-10 76.4 6.5 97 360-461 84-193 (344)
230 PRK09862 putative ATP-dependen 97.8 6.9E-06 1.5E-10 88.0 1.0 47 355-411 188-234 (506)
231 smart00350 MCM minichromosome 97.8 5.5E-06 1.2E-10 89.4 0.2 101 358-462 203-316 (509)
232 PRK14974 cell division protein 97.8 6.3E-05 1.4E-09 76.8 7.8 73 387-460 140-236 (336)
233 KOG2035 Replication factor C, 97.8 2.2E-05 4.7E-10 76.8 4.2 50 354-411 9-58 (351)
234 TIGR03499 FlhF flagellar biosy 97.8 3.6E-05 7.7E-10 76.9 5.8 35 388-422 195-234 (282)
235 COG0464 SpoVK ATPases of the A 97.8 2.9E-05 6.3E-10 83.5 5.5 79 384-464 15-94 (494)
236 PF13207 AAA_17: AAA domain; P 97.8 1.1E-05 2.3E-10 69.4 1.7 30 390-419 2-31 (121)
237 TIGR02031 BchD-ChlD magnesium 97.7 4.5E-06 9.8E-11 91.5 -2.0 73 387-463 16-101 (589)
238 PF00910 RNA_helicase: RNA hel 97.7 2E-05 4.4E-10 67.0 2.4 63 390-460 1-63 (107)
239 TIGR01618 phage_P_loop phage n 97.7 2.7E-05 5.8E-10 74.9 3.4 22 388-409 13-34 (220)
240 PF03215 Rad17: Rad17 cell cyc 97.7 2.7E-05 5.8E-10 83.9 3.4 62 354-418 15-76 (519)
241 PF01637 Arch_ATPase: Archaeal 97.7 7.5E-05 1.6E-09 70.8 5.9 72 388-459 21-131 (234)
242 PTZ00111 DNA replication licen 97.7 1.5E-05 3.3E-10 89.6 1.3 69 389-461 494-572 (915)
243 PF00448 SRP54: SRP54-type pro 97.6 4.9E-05 1.1E-09 71.9 4.3 71 388-459 2-96 (196)
244 COG0552 FtsY Signal recognitio 97.6 5.1E-05 1.1E-09 76.3 4.6 73 388-461 140-236 (340)
245 COG1618 Predicted nucleotide k 97.6 4.9E-05 1.1E-09 68.9 3.9 23 389-411 7-29 (179)
246 PRK00771 signal recognition pa 97.6 0.0001 2.2E-09 77.8 6.9 71 386-459 94-188 (437)
247 cd01124 KaiC KaiC is a circadi 97.6 5.9E-05 1.3E-09 69.7 4.5 31 390-420 2-35 (187)
248 PRK15455 PrkA family serine pr 97.6 5.3E-05 1.1E-09 81.5 4.3 64 355-420 73-137 (644)
249 PF12775 AAA_7: P-loop contain 97.6 7E-05 1.5E-09 74.4 4.9 53 354-412 6-58 (272)
250 TIGR02688 conserved hypothetic 97.6 8.8E-05 1.9E-09 77.3 5.7 67 388-462 210-276 (449)
251 PRK00131 aroK shikimate kinase 97.6 3.8E-05 8.3E-10 70.0 2.6 31 387-417 4-34 (175)
252 TIGR00764 lon_rel lon-related 97.6 3.6E-05 7.9E-10 84.7 2.8 82 354-445 14-106 (608)
253 PRK14722 flhF flagellar biosyn 97.6 6.5E-05 1.4E-09 77.7 4.5 36 388-423 138-178 (374)
254 PF13604 AAA_30: AAA domain; P 97.6 5.3E-05 1.2E-09 71.6 3.6 72 389-460 20-107 (196)
255 PF12774 AAA_6: Hydrolytic ATP 97.6 0.00013 2.9E-09 70.7 6.3 88 359-460 11-98 (231)
256 PRK06871 DNA polymerase III su 97.5 7.4E-05 1.6E-09 76.0 4.4 79 387-465 24-126 (325)
257 PRK12723 flagellar biosynthesi 97.5 6.9E-05 1.5E-09 78.0 4.1 70 388-460 175-268 (388)
258 PF13479 AAA_24: AAA domain 97.5 6E-05 1.3E-09 72.1 3.3 66 389-458 5-80 (213)
259 PRK08118 topology modulation p 97.5 5.3E-05 1.2E-09 69.7 2.5 31 389-419 3-33 (167)
260 PRK11889 flhF flagellar biosyn 97.5 0.00023 4.9E-09 73.8 7.2 73 388-460 242-334 (436)
261 PF00437 T2SE: Type II/IV secr 97.5 5.3E-05 1.2E-09 74.8 2.6 97 354-457 100-208 (270)
262 KOG1514 Origin recognition com 97.5 0.00011 2.3E-09 79.9 4.9 102 362-466 400-528 (767)
263 cd01128 rho_factor Transcripti 97.5 0.00014 2.9E-09 71.4 5.2 25 389-413 18-42 (249)
264 PRK13947 shikimate kinase; Pro 97.4 8.1E-05 1.8E-09 68.1 2.4 30 389-418 3-32 (171)
265 PRK00625 shikimate kinase; Pro 97.4 8E-05 1.7E-09 69.1 2.3 31 389-419 2-32 (173)
266 PF05729 NACHT: NACHT domain 97.4 0.00014 3E-09 65.3 3.7 23 389-411 2-24 (166)
267 PHA02624 large T antigen; Prov 97.4 0.00016 3.4E-09 78.3 4.7 35 388-422 432-466 (647)
268 PRK08699 DNA polymerase III su 97.4 0.00013 2.8E-09 74.4 3.9 77 387-463 21-130 (325)
269 cd01130 VirB11-like_ATPase Typ 97.4 0.00016 3.4E-09 67.6 4.1 24 388-411 26-49 (186)
270 TIGR02237 recomb_radB DNA repa 97.4 0.00025 5.4E-09 67.1 5.5 35 388-422 13-50 (209)
271 PRK03839 putative kinase; Prov 97.4 8.8E-05 1.9E-09 68.7 2.3 30 389-418 2-31 (180)
272 PF13671 AAA_33: AAA domain; P 97.4 7.1E-05 1.5E-09 66.0 1.6 25 390-414 2-26 (143)
273 KOG3347 Predicted nucleotide k 97.4 9.8E-05 2.1E-09 66.1 2.4 31 389-419 9-39 (176)
274 PRK06964 DNA polymerase III su 97.4 0.00013 2.8E-09 74.7 3.5 26 386-411 20-45 (342)
275 TIGR00064 ftsY signal recognit 97.3 0.00044 9.6E-09 68.7 7.0 37 386-422 71-110 (272)
276 TIGR01425 SRP54_euk signal rec 97.3 0.0004 8.6E-09 73.0 7.0 74 386-460 99-196 (429)
277 PRK04132 replication factor C 97.3 0.00011 2.3E-09 83.1 2.8 75 386-465 563-649 (846)
278 PF13191 AAA_16: AAA ATPase do 97.3 5E-05 1.1E-09 69.7 0.2 47 360-411 2-48 (185)
279 cd00464 SK Shikimate kinase (S 97.3 0.00011 2.4E-09 65.7 2.3 29 389-417 1-29 (154)
280 cd02027 APSK Adenosine 5'-phos 97.3 0.0003 6.6E-09 63.4 5.2 32 390-421 2-36 (149)
281 PRK07993 DNA polymerase III su 97.3 0.00017 3.6E-09 73.9 3.7 79 387-465 24-127 (334)
282 PRK14532 adenylate kinase; Pro 97.3 0.00012 2.5E-09 68.3 2.2 28 389-416 2-29 (188)
283 PRK13949 shikimate kinase; Pro 97.3 0.00013 2.8E-09 67.3 2.5 32 388-419 2-33 (169)
284 PRK04296 thymidine kinase; Pro 97.3 0.00025 5.4E-09 66.7 4.3 69 390-458 5-90 (190)
285 cd00046 DEXDc DEAD-like helica 97.3 0.0002 4.4E-09 61.2 3.4 23 389-411 2-24 (144)
286 KOG2680 DNA helicase TIP49, TB 97.3 0.00022 4.8E-09 70.5 4.0 92 347-441 29-122 (454)
287 COG3854 SpoIIIAA ncharacterize 97.3 0.00027 5.9E-09 67.7 4.4 72 387-459 137-231 (308)
288 PRK08769 DNA polymerase III su 97.3 0.00022 4.8E-09 72.4 4.1 77 388-464 27-131 (319)
289 cd00227 CPT Chloramphenicol (C 97.3 0.00015 3.3E-09 66.9 2.5 33 388-420 3-35 (175)
290 PRK10416 signal recognition pa 97.3 0.0006 1.3E-08 69.3 6.9 72 387-459 114-209 (318)
291 cd01131 PilT Pilus retraction 97.2 0.00028 6E-09 66.7 4.2 24 389-412 3-26 (198)
292 PRK10867 signal recognition pa 97.2 0.00057 1.2E-08 72.1 6.9 73 386-459 99-196 (433)
293 COG1936 Predicted nucleotide k 97.2 0.00015 3.2E-09 66.5 2.2 30 389-419 2-31 (180)
294 TIGR01359 UMP_CMP_kin_fam UMP- 97.2 0.00015 3.2E-09 67.1 2.2 26 390-415 2-27 (183)
295 COG1102 Cmk Cytidylate kinase 97.2 0.00017 3.6E-09 65.5 2.4 28 390-417 3-30 (179)
296 PRK13894 conjugal transfer ATP 97.2 0.00026 5.6E-09 72.0 3.9 69 388-457 149-230 (319)
297 PRK13833 conjugal transfer pro 97.2 0.00023 4.9E-09 72.4 3.4 66 388-456 145-225 (323)
298 cd03115 SRP The signal recogni 97.2 0.0005 1.1E-08 63.1 5.4 34 390-423 3-39 (173)
299 PF12780 AAA_8: P-loop contain 97.2 0.00091 2E-08 66.3 7.5 92 358-456 8-99 (268)
300 PRK07261 topology modulation p 97.2 0.00019 4.1E-09 66.3 2.4 31 389-419 2-32 (171)
301 TIGR02782 TrbB_P P-type conjug 97.2 0.00023 4.9E-09 71.8 3.2 69 388-457 133-215 (299)
302 KOG2227 Pre-initiation complex 97.2 0.00074 1.6E-08 70.5 6.8 104 358-465 150-275 (529)
303 TIGR03574 selen_PSTK L-seryl-t 97.2 0.00031 6.8E-09 68.6 4.0 34 390-423 2-38 (249)
304 PRK14531 adenylate kinase; Pro 97.2 0.0002 4.4E-09 66.7 2.4 28 389-416 4-31 (183)
305 PRK13948 shikimate kinase; Pro 97.2 0.00022 4.7E-09 66.7 2.6 34 386-419 9-42 (182)
306 PRK12726 flagellar biosynthesi 97.2 0.00069 1.5E-08 70.0 6.4 74 386-459 205-298 (407)
307 COG1239 ChlI Mg-chelatase subu 97.2 0.00019 4.2E-09 74.2 2.4 50 354-411 13-62 (423)
308 PRK06762 hypothetical protein; 97.2 0.00013 2.9E-09 66.4 1.1 33 388-420 3-35 (166)
309 PRK09376 rho transcription ter 97.2 0.00046 1E-08 71.5 5.1 24 389-412 171-194 (416)
310 cd02020 CMPK Cytidine monophos 97.2 0.00023 4.9E-09 63.0 2.5 30 390-419 2-31 (147)
311 PRK08154 anaerobic benzoate ca 97.1 0.00038 8.2E-09 70.5 4.2 56 364-419 110-165 (309)
312 cd01428 ADK Adenylate kinase ( 97.1 0.00022 4.7E-09 66.4 2.2 28 389-416 1-28 (194)
313 PRK14530 adenylate kinase; Pro 97.1 0.00022 4.8E-09 68.1 2.3 28 389-416 5-32 (215)
314 TIGR01313 therm_gnt_kin carboh 97.1 0.00023 5.1E-09 64.6 2.3 32 390-423 1-32 (163)
315 PRK05703 flhF flagellar biosyn 97.1 0.00058 1.2E-08 72.1 5.5 35 388-422 222-261 (424)
316 PRK12724 flagellar biosynthesi 97.1 0.00091 2E-08 70.0 6.8 71 388-459 224-312 (432)
317 PRK06090 DNA polymerase III su 97.1 0.00044 9.5E-09 70.2 4.3 80 385-464 23-126 (319)
318 TIGR01420 pilT_fam pilus retra 97.1 0.00036 7.8E-09 71.7 3.7 25 388-412 123-147 (343)
319 TIGR00767 rho transcription te 97.1 0.00051 1.1E-08 71.4 4.7 24 388-411 169-192 (415)
320 PF03969 AFG1_ATPase: AFG1-lik 97.1 0.00035 7.5E-09 72.2 3.5 30 384-413 59-88 (362)
321 PHA02774 E1; Provisional 97.1 0.00044 9.6E-09 74.6 4.4 33 388-420 435-468 (613)
322 COG0703 AroK Shikimate kinase 97.1 0.00027 5.9E-09 65.1 2.4 32 388-419 3-34 (172)
323 PRK13765 ATP-dependent proteas 97.1 0.00025 5.3E-09 78.3 2.5 50 353-412 26-75 (637)
324 PRK04040 adenylate kinase; Pro 97.1 0.00025 5.3E-09 66.7 2.1 34 388-423 3-38 (188)
325 TIGR02858 spore_III_AA stage I 97.1 0.00036 7.9E-09 69.2 3.4 24 388-411 112-135 (270)
326 PRK06217 hypothetical protein; 97.1 0.00026 5.7E-09 65.9 2.2 30 389-418 3-32 (183)
327 PRK14528 adenylate kinase; Pro 97.1 0.0003 6.5E-09 65.9 2.4 29 388-416 2-30 (186)
328 PRK05800 cobU adenosylcobinami 97.1 0.00057 1.2E-08 63.2 4.3 70 389-460 3-90 (170)
329 KOG1970 Checkpoint RAD17-RFC c 97.1 0.00032 7E-09 74.4 2.8 64 355-419 79-142 (634)
330 PRK09361 radB DNA repair and r 97.0 0.00077 1.7E-08 64.7 5.0 34 388-421 24-60 (225)
331 COG0563 Adk Adenylate kinase a 97.0 0.00027 5.9E-09 65.8 1.8 26 389-414 2-27 (178)
332 cd02021 GntK Gluconate kinase 97.0 0.00031 6.7E-09 62.8 2.1 26 390-415 2-27 (150)
333 cd01121 Sms Sms (bacterial rad 97.0 0.00048 1E-08 71.5 3.7 72 388-460 83-172 (372)
334 PRK13946 shikimate kinase; Pro 97.0 0.00037 8E-09 65.0 2.6 32 388-419 11-42 (184)
335 PF00931 NB-ARC: NB-ARC domain 97.0 0.00084 1.8E-08 66.4 5.1 24 387-410 19-42 (287)
336 PRK13764 ATPase; Provisional 97.0 0.00052 1.1E-08 75.0 3.8 25 388-412 258-282 (602)
337 PF05970 PIF1: PIF1-like helic 97.0 0.0005 1.1E-08 71.2 3.5 24 388-411 23-46 (364)
338 cd03281 ABC_MSH5_euk MutS5 hom 97.0 0.0011 2.3E-08 63.6 5.6 22 388-409 30-51 (213)
339 PRK13900 type IV secretion sys 97.0 0.00093 2E-08 68.3 5.4 69 388-457 161-246 (332)
340 PF01583 APS_kinase: Adenylyls 97.0 0.00071 1.5E-08 61.6 4.0 35 389-423 4-41 (156)
341 TIGR01360 aden_kin_iso1 adenyl 97.0 0.00043 9.2E-09 64.0 2.5 28 389-416 5-32 (188)
342 cd01129 PulE-GspE PulE/GspE Th 97.0 0.00075 1.6E-08 66.8 4.3 68 389-457 82-160 (264)
343 PRK08233 hypothetical protein; 97.0 0.001 2.2E-08 61.1 5.0 24 389-412 5-28 (182)
344 COG2804 PulE Type II secretory 97.0 0.00067 1.5E-08 71.8 4.1 88 356-457 236-338 (500)
345 PF01443 Viral_helicase1: Vira 97.0 0.00034 7.3E-09 67.0 1.8 22 390-411 1-22 (234)
346 PRK06696 uridine kinase; Valid 97.0 0.00075 1.6E-08 64.9 4.1 36 388-423 23-61 (223)
347 PF13245 AAA_19: Part of AAA d 97.0 0.00052 1.1E-08 54.8 2.5 22 390-411 13-35 (76)
348 PRK05057 aroK shikimate kinase 96.9 0.00045 9.9E-09 63.8 2.4 32 388-419 5-36 (172)
349 PRK11823 DNA repair protein Ra 96.9 0.00093 2E-08 71.1 4.9 72 388-460 81-170 (446)
350 PRK03731 aroL shikimate kinase 96.9 0.00048 1E-08 63.1 2.4 30 389-418 4-33 (171)
351 PRK06547 hypothetical protein; 96.9 0.00055 1.2E-08 63.4 2.8 32 387-418 15-46 (172)
352 TIGR02012 tigrfam_recA protein 96.9 0.00076 1.6E-08 68.5 4.0 76 384-460 51-147 (321)
353 PLN02674 adenylate kinase 96.9 0.00038 8.2E-09 68.0 1.7 35 387-423 31-65 (244)
354 PRK02496 adk adenylate kinase; 96.9 0.00048 1E-08 64.0 2.3 28 389-416 3-30 (184)
355 cd00983 recA RecA is a bacter 96.9 0.00078 1.7E-08 68.5 4.0 77 384-460 51-147 (325)
356 PLN02200 adenylate kinase fami 96.9 0.00057 1.2E-08 66.5 2.9 34 388-423 44-77 (234)
357 PRK13851 type IV secretion sys 96.9 0.00094 2E-08 68.5 4.6 69 388-457 163-247 (344)
358 PRK12727 flagellar biosynthesi 96.9 0.00076 1.6E-08 72.4 3.9 69 388-459 351-441 (559)
359 PRK08533 flagellar accessory p 96.9 0.0013 2.9E-08 63.6 5.3 32 388-419 25-59 (230)
360 COG0529 CysC Adenylylsulfate k 96.9 0.0013 2.7E-08 60.8 4.7 36 388-423 24-62 (197)
361 PF13238 AAA_18: AAA domain; P 96.9 0.00049 1.1E-08 59.1 2.0 22 390-411 1-22 (129)
362 TIGR01351 adk adenylate kinase 96.9 0.00055 1.2E-08 65.1 2.4 27 390-416 2-28 (210)
363 PRK12608 transcription termina 96.9 0.0012 2.5E-08 68.2 5.0 23 389-411 135-157 (380)
364 TIGR02788 VirB11 P-type DNA tr 96.9 0.001 2.2E-08 67.4 4.4 69 388-457 145-229 (308)
365 PTZ00088 adenylate kinase 1; P 96.9 0.00053 1.1E-08 66.5 2.3 29 389-417 8-36 (229)
366 KOG1051 Chaperone HSP104 and r 96.9 0.0025 5.4E-08 72.1 7.7 99 357-463 185-297 (898)
367 TIGR00959 ffh signal recogniti 96.8 0.0014 3.1E-08 69.1 5.5 72 387-459 99-195 (428)
368 PF09848 DUF2075: Uncharacteri 96.8 0.00073 1.6E-08 69.6 3.2 23 389-411 3-25 (352)
369 PRK14723 flhF flagellar biosyn 96.8 0.0019 4E-08 72.3 6.4 73 388-460 186-277 (767)
370 PF05707 Zot: Zonular occluden 96.8 0.00071 1.5E-08 63.7 2.7 73 390-464 3-97 (193)
371 cd03283 ABC_MutS-like MutS-lik 96.8 0.0018 3.9E-08 61.3 5.5 23 388-410 26-48 (199)
372 COG2805 PilT Tfp pilus assembl 96.8 0.0018 4E-08 64.4 5.6 90 354-457 105-209 (353)
373 PRK14527 adenylate kinase; Pro 96.8 0.00069 1.5E-08 63.4 2.5 28 388-415 7-34 (191)
374 PRK00279 adk adenylate kinase; 96.8 0.00063 1.4E-08 65.0 2.3 28 389-416 2-29 (215)
375 PRK05917 DNA polymerase III su 96.8 0.00097 2.1E-08 66.7 3.5 78 388-465 20-114 (290)
376 TIGR00750 lao LAO/AO transport 96.8 0.0025 5.4E-08 64.3 6.4 25 387-411 34-58 (300)
377 PRK06067 flagellar accessory p 96.8 0.002 4.3E-08 62.3 5.5 36 384-419 21-60 (234)
378 cd00544 CobU Adenosylcobinamid 96.8 0.0014 3.1E-08 60.5 4.1 32 390-421 2-33 (169)
379 TIGR00455 apsK adenylylsulfate 96.8 0.0022 4.8E-08 59.5 5.4 36 388-423 19-57 (184)
380 COG5192 BMS1 GTP-binding prote 96.7 0.0014 3.1E-08 69.5 4.4 69 385-454 67-143 (1077)
381 PRK06995 flhF flagellar biosyn 96.7 0.0039 8.5E-08 66.6 7.5 35 388-422 257-296 (484)
382 PF13086 AAA_11: AAA domain; P 96.7 0.00082 1.8E-08 63.6 2.2 22 390-411 20-41 (236)
383 PF06414 Zeta_toxin: Zeta toxi 96.7 0.0019 4E-08 61.0 4.5 37 387-423 15-52 (199)
384 cd00561 CobA_CobO_BtuR ATP:cor 96.7 0.0029 6.3E-08 57.8 5.4 28 390-417 5-35 (159)
385 PRK04182 cytidylate kinase; Pr 96.7 0.001 2.2E-08 61.0 2.4 29 389-417 2-30 (180)
386 COG1373 Predicted ATPase (AAA+ 96.7 0.002 4.3E-08 67.6 4.8 68 389-458 39-106 (398)
387 PF00406 ADK: Adenylate kinase 96.7 0.00091 2E-08 60.1 1.9 25 392-416 1-25 (151)
388 PTZ00202 tuzin; Provisional 96.7 0.0096 2.1E-07 62.6 9.6 60 355-419 259-318 (550)
389 TIGR00150 HI0065_YjeE ATPase, 96.7 0.002 4.3E-08 57.2 4.0 27 388-414 23-49 (133)
390 cd03280 ABC_MutS2 MutS2 homolo 96.6 0.0038 8.2E-08 59.0 6.1 20 389-408 30-49 (200)
391 PHA02530 pseT polynucleotide k 96.6 0.00085 1.8E-08 67.1 1.6 23 389-411 4-26 (300)
392 PRK01184 hypothetical protein; 96.6 0.0011 2.4E-08 61.5 2.1 28 389-417 3-30 (184)
393 cd02019 NK Nucleoside/nucleoti 96.6 0.0013 2.9E-08 51.3 2.3 22 390-411 2-23 (69)
394 cd03243 ABC_MutS_homologs The 96.6 0.0031 6.7E-08 59.6 5.2 22 388-409 30-51 (202)
395 COG1419 FlhF Flagellar GTP-bin 96.6 0.0017 3.6E-08 67.3 3.4 25 387-411 203-227 (407)
396 PRK14526 adenylate kinase; Pro 96.6 0.0013 2.7E-08 63.0 2.4 27 389-415 2-28 (211)
397 PF13521 AAA_28: AAA domain; P 96.6 0.00093 2E-08 60.8 1.5 26 390-416 2-27 (163)
398 TIGR02173 cyt_kin_arch cytidyl 96.6 0.0013 2.8E-08 59.8 2.4 28 390-417 3-30 (171)
399 TIGR02525 plasmid_TraJ plasmid 96.6 0.0018 3.8E-08 67.2 3.5 23 389-411 151-173 (372)
400 TIGR01448 recD_rel helicase, p 96.5 0.0014 3.1E-08 73.7 3.0 71 389-459 340-429 (720)
401 PRK03846 adenylylsulfate kinas 96.5 0.0027 5.9E-08 59.8 4.5 35 388-422 25-62 (198)
402 TIGR03878 thermo_KaiC_2 KaiC d 96.5 0.0025 5.4E-08 62.9 4.3 37 384-420 32-72 (259)
403 PRK00889 adenylylsulfate kinas 96.5 0.0014 3E-08 60.3 2.3 35 388-422 5-42 (175)
404 TIGR02524 dot_icm_DotB Dot/Icm 96.5 0.0023 5E-08 66.1 4.2 24 388-411 135-158 (358)
405 TIGR03819 heli_sec_ATPase heli 96.5 0.0018 3.9E-08 66.5 3.2 68 388-456 179-263 (340)
406 PF08433 KTI12: Chromatin asso 96.5 0.0043 9.4E-08 61.6 5.6 68 389-458 3-82 (270)
407 PRK05986 cob(I)alamin adenolsy 96.5 0.005 1.1E-07 57.9 5.7 24 388-411 23-46 (191)
408 PF02562 PhoH: PhoH-like prote 96.5 0.002 4.3E-08 61.4 3.0 23 389-411 21-43 (205)
409 PF03266 NTPase_1: NTPase; In 96.5 0.0016 3.5E-08 60.0 2.3 23 389-411 1-23 (168)
410 PRK14529 adenylate kinase; Pro 96.4 0.0018 3.9E-08 62.5 2.6 28 389-416 2-29 (223)
411 cd01123 Rad51_DMC1_radA Rad51_ 96.4 0.0052 1.1E-07 59.1 5.8 23 388-410 20-42 (235)
412 PRK10078 ribose 1,5-bisphospho 96.4 0.0014 3E-08 61.2 1.7 27 389-415 4-30 (186)
413 PRK05818 DNA polymerase III su 96.4 0.0026 5.7E-08 62.5 3.6 79 386-464 6-106 (261)
414 PRK09354 recA recombinase A; P 96.4 0.0039 8.4E-08 64.0 5.0 77 384-460 56-152 (349)
415 cd01393 recA_like RecA is a b 96.4 0.0036 7.9E-08 59.8 4.4 28 384-411 15-43 (226)
416 PRK09435 membrane ATPase/prote 96.4 0.0048 1E-07 63.1 5.3 33 389-421 58-93 (332)
417 KOG1968 Replication factor C, 96.4 0.002 4.4E-08 73.1 2.9 71 390-460 360-442 (871)
418 PLN02459 probable adenylate ki 96.4 0.0019 4.1E-08 63.6 2.3 27 389-415 31-57 (261)
419 TIGR02533 type_II_gspE general 96.4 0.0035 7.7E-08 67.3 4.6 92 356-457 220-322 (486)
420 smart00534 MUTSac ATPase domai 96.4 0.0059 1.3E-07 57.0 5.5 19 390-408 2-20 (185)
421 PRK12339 2-phosphoglycerate ki 96.4 0.0019 4.2E-08 61.1 2.2 27 389-415 5-31 (197)
422 PRK05541 adenylylsulfate kinas 96.3 0.0022 4.8E-08 59.0 2.5 25 388-412 8-32 (176)
423 PRK08099 bifunctional DNA-bind 96.3 0.0048 1E-07 64.7 5.2 27 388-414 220-246 (399)
424 PRK05480 uridine/cytidine kina 96.3 0.0022 4.9E-08 60.7 2.5 35 388-422 7-42 (209)
425 PF01745 IPT: Isopentenyl tran 96.3 0.0018 3.9E-08 61.6 1.8 31 389-419 3-33 (233)
426 PRK10436 hypothetical protein; 96.3 0.0038 8.3E-08 66.5 4.5 92 356-457 196-298 (462)
427 cd03221 ABCF_EF-3 ABCF_EF-3 E 96.3 0.0029 6.2E-08 56.6 3.0 24 388-411 27-50 (144)
428 TIGR03881 KaiC_arch_4 KaiC dom 96.3 0.0031 6.8E-08 60.5 3.4 35 388-422 21-58 (229)
429 cd03216 ABC_Carb_Monos_I This 96.3 0.0041 8.9E-08 56.8 3.9 24 388-411 27-50 (163)
430 PLN02199 shikimate kinase 96.3 0.0025 5.3E-08 63.8 2.6 31 388-418 103-133 (303)
431 TIGR02322 phosphon_PhnN phosph 96.3 0.0024 5.2E-08 58.9 2.3 24 389-412 3-26 (179)
432 COG5271 MDN1 AAA ATPase contai 96.3 0.0014 3E-08 76.8 0.8 71 388-458 1544-1623(4600)
433 COG0467 RAD55 RecA-superfamily 96.2 0.0031 6.6E-08 62.1 3.1 40 384-423 19-62 (260)
434 cd03222 ABC_RNaseL_inhibitor T 96.2 0.0035 7.6E-08 58.3 3.3 23 389-411 27-49 (177)
435 PRK13808 adenylate kinase; Pro 96.2 0.0025 5.4E-08 65.0 2.5 29 389-417 2-30 (333)
436 PRK06731 flhF flagellar biosyn 96.2 0.0063 1.4E-07 60.4 5.2 73 388-460 76-168 (270)
437 PF14516 AAA_35: AAA-like doma 96.2 0.0052 1.1E-07 62.9 4.8 73 388-460 32-141 (331)
438 PRK07667 uridine kinase; Provi 96.2 0.0041 8.8E-08 58.5 3.7 34 389-422 19-55 (193)
439 cd02028 UMPK_like Uridine mono 96.2 0.0022 4.8E-08 59.6 1.8 34 390-423 2-38 (179)
440 PRK14721 flhF flagellar biosyn 96.2 0.008 1.7E-07 63.3 6.1 24 388-411 192-215 (420)
441 KOG2543 Origin recognition com 96.2 0.0089 1.9E-07 61.3 6.1 74 386-459 29-128 (438)
442 TIGR00708 cobA cob(I)alamin ad 96.2 0.0088 1.9E-07 55.4 5.4 71 389-459 7-110 (173)
443 COG4088 Predicted nucleotide k 96.2 0.0029 6.3E-08 59.8 2.2 23 389-411 3-25 (261)
444 cd02023 UMPK Uridine monophosp 96.1 0.0029 6.3E-08 59.4 2.3 22 390-411 2-23 (198)
445 cd00267 ABC_ATPase ABC (ATP-bi 96.1 0.0061 1.3E-07 55.0 4.3 24 388-411 26-49 (157)
446 cd01394 radB RadB. The archaea 96.1 0.0071 1.5E-07 57.6 4.9 33 388-420 20-55 (218)
447 TIGR03877 thermo_KaiC_1 KaiC d 96.1 0.004 8.6E-08 60.5 3.2 35 388-422 22-59 (237)
448 cd03282 ABC_MSH4_euk MutS4 hom 96.1 0.0092 2E-07 56.8 5.5 23 388-410 30-52 (204)
449 TIGR02538 type_IV_pilB type IV 96.1 0.0056 1.2E-07 67.1 4.5 92 356-457 294-396 (564)
450 PRK09270 nucleoside triphospha 96.1 0.0055 1.2E-07 59.1 4.0 26 387-412 33-58 (229)
451 cd03287 ABC_MSH3_euk MutS3 hom 96.1 0.0087 1.9E-07 57.7 5.3 22 388-409 32-53 (222)
452 PRK05537 bifunctional sulfate 96.1 0.0087 1.9E-07 65.6 5.9 50 358-413 369-418 (568)
453 PF01926 MMR_HSR1: 50S ribosom 96.1 0.008 1.7E-07 51.2 4.5 21 390-410 2-22 (116)
454 PRK00300 gmk guanylate kinase; 96.1 0.0039 8.4E-08 58.7 2.7 25 388-412 6-30 (205)
455 TIGR02768 TraA_Ti Ti-type conj 96.1 0.0033 7.2E-08 71.0 2.6 70 389-459 370-452 (744)
456 PF06745 KaiC: KaiC; InterPro 96.1 0.003 6.4E-08 60.6 1.9 37 384-420 15-56 (226)
457 PF08303 tRNA_lig_kinase: tRNA 96.1 0.0056 1.2E-07 56.0 3.5 67 393-463 5-71 (168)
458 TIGR00416 sms DNA repair prote 96.1 0.0066 1.4E-07 64.7 4.6 72 388-460 95-184 (454)
459 PRK12338 hypothetical protein; 96.0 0.0037 8E-08 63.3 2.5 28 388-415 5-32 (319)
460 PRK08356 hypothetical protein; 96.0 0.0038 8.1E-08 58.7 2.4 31 389-422 7-37 (195)
461 COG0541 Ffh Signal recognition 96.0 0.014 3E-07 60.9 6.7 75 385-460 98-196 (451)
462 PTZ00121 MAEBL; Provisional 96.0 0.21 4.5E-06 58.5 16.2 19 393-411 1963-1982(2084)
463 PRK14737 gmk guanylate kinase; 96.0 0.0046 9.9E-08 58.0 2.8 25 387-411 4-28 (186)
464 TIGR03263 guanyl_kin guanylate 96.0 0.0034 7.3E-08 57.8 1.9 24 390-413 4-27 (180)
465 COG1855 ATPase (PilT family) [ 96.0 0.0045 9.8E-08 64.5 2.9 43 356-411 245-287 (604)
466 PRK10463 hydrogenase nickel in 96.0 0.012 2.6E-07 58.9 5.7 23 389-411 106-128 (290)
467 PLN02165 adenylate isopentenyl 95.9 0.0046 9.9E-08 63.0 2.7 26 389-414 45-70 (334)
468 TIGR01447 recD exodeoxyribonuc 95.9 0.0048 1E-07 67.8 2.9 23 389-411 162-184 (586)
469 PRK13889 conjugal transfer rel 95.9 0.0088 1.9E-07 69.1 5.1 69 390-459 365-446 (988)
470 PRK07132 DNA polymerase III su 95.9 0.007 1.5E-07 61.0 3.7 75 388-462 19-106 (299)
471 KOG0477 DNA replication licens 95.9 0.0034 7.3E-08 67.6 1.5 68 389-460 484-560 (854)
472 cd00071 GMPK Guanosine monopho 95.9 0.0044 9.5E-08 55.1 2.0 24 390-413 2-25 (137)
473 PRK09825 idnK D-gluconate kina 95.8 0.0054 1.2E-07 56.9 2.6 25 389-413 5-29 (176)
474 PF00485 PRK: Phosphoribulokin 95.8 0.0047 1E-07 58.0 2.1 23 390-412 2-24 (194)
475 TIGR00235 udk uridine kinase. 95.8 0.0052 1.1E-07 58.3 2.5 24 389-412 8-31 (207)
476 cd01853 Toc34_like Toc34-like 95.8 0.015 3.3E-07 57.1 5.7 25 386-410 30-54 (249)
477 PRK04328 hypothetical protein; 95.8 0.0063 1.4E-07 59.6 3.0 35 388-422 24-61 (249)
478 cd03284 ABC_MutS1 MutS1 homolo 95.8 0.014 3.1E-07 55.9 5.4 22 388-409 31-52 (216)
479 PRK13975 thymidylate kinase; P 95.8 0.0057 1.2E-07 57.1 2.6 26 389-414 4-29 (196)
480 COG5245 DYN1 Dynein, heavy cha 95.8 0.0097 2.1E-07 69.6 4.6 69 387-456 1494-1573(3164)
481 cd02022 DPCK Dephospho-coenzym 95.8 0.0051 1.1E-07 57.0 2.1 25 390-415 2-26 (179)
482 PRK04220 2-phosphoglycerate ki 95.7 0.0056 1.2E-07 61.5 2.3 28 388-415 93-120 (301)
483 TIGR00017 cmk cytidylate kinas 95.7 0.006 1.3E-07 58.6 2.4 28 389-416 4-31 (217)
484 PRK07276 DNA polymerase III su 95.7 0.013 2.7E-07 58.9 4.8 79 385-465 22-123 (290)
485 cd02024 NRK1 Nicotinamide ribo 95.7 0.0061 1.3E-07 57.3 2.4 23 390-412 2-24 (187)
486 COG3842 PotA ABC-type spermidi 95.7 0.0044 9.6E-08 63.6 1.5 22 390-411 34-55 (352)
487 PRK13406 bchD magnesium chelat 95.7 0.002 4.4E-08 70.5 -1.0 71 388-462 26-109 (584)
488 PRK11545 gntK gluconate kinase 95.7 0.0062 1.3E-07 55.7 2.3 22 393-414 1-22 (163)
489 PF03029 ATP_bind_1: Conserved 95.7 0.0052 1.1E-07 59.9 1.8 30 392-421 1-33 (238)
490 PRK10536 hypothetical protein; 95.7 0.008 1.7E-07 59.1 3.0 22 389-410 76-97 (262)
491 PF00488 MutS_V: MutS domain V 95.6 0.016 3.5E-07 56.4 5.0 67 388-457 44-133 (235)
492 TIGR03575 selen_PSTK_euk L-ser 95.6 0.0069 1.5E-07 62.0 2.5 35 390-424 2-40 (340)
493 cd01672 TMPK Thymidine monopho 95.6 0.0074 1.6E-07 55.9 2.5 29 390-418 3-34 (200)
494 PF03308 ArgK: ArgK protein; 95.6 0.012 2.6E-07 57.7 3.9 23 389-411 31-53 (266)
495 PRK00023 cmk cytidylate kinase 95.6 0.0078 1.7E-07 58.1 2.6 28 389-416 6-33 (225)
496 cd01983 Fer4_NifH The Fer4_Nif 95.6 0.01 2.2E-07 47.7 2.9 30 390-419 2-34 (99)
497 PRK14730 coaE dephospho-CoA ki 95.6 0.0076 1.6E-07 56.9 2.4 28 389-416 3-30 (195)
498 PF00493 MCM: MCM2/3/5 family 95.5 0.00096 2.1E-08 68.2 -4.1 68 388-460 58-135 (331)
499 TIGR02655 circ_KaiC circadian 95.5 0.014 3E-07 62.8 4.6 74 384-458 259-365 (484)
500 KOG3354 Gluconate kinase [Carb 95.5 0.01 2.3E-07 53.6 2.9 37 385-423 9-46 (191)
No 1
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.5e-102 Score=772.71 Aligned_cols=456 Identities=60% Similarity=0.852 Sum_probs=411.1
Q ss_pred CCccchhhHHHHHHHHHHhhhhcccccccCCCccccCCCCCCCCCCC--Cc-hhhhhhhhcCCCC-CCCCCCCCCChHHH
Q 012305 1 MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSG--ND-EAEQTADAQKSRE-PEEPRGSGFDPEAL 76 (466)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~f~~f~~~~~~~~~~--~~-~~~~~~~~~~~~~-~~~~~~~~fd~~~l 76 (466)
|++++.+ .+.++++++...+-+.+|+|++|.|++||.+++++-|| |+ +++.+....+.|. ++...+++|||++|
T Consensus 1 Ma~kc~a--~~i~a~~~S~~~~~nka~ad~~f~~~~fs~sp~~~~pp~~~~~~~s~~~~~~~~p~~~Pk~~~~gFDpeaL 78 (630)
T KOG0742|consen 1 MAQKCAA--GSISALAMSWLFGINKAYADSRFGFPGFSASPPPPLPPAQPGAPGSGDRGEGDRPDPAPKDSWSGFDPEAL 78 (630)
T ss_pred CchhHHH--HHHHHHHHHHHhccchhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCccccccCCChHHH
Confidence 5665333 33344444555555669999999999998876653222 11 1111111112122 22334779999999
Q ss_pred HHHHHHHHHhcCChhhHHHHHHHHHhHhhhhhhhhhhhHHHHHHHhhhhHHHHHHhHHHHHHHHHHHHHHHHhcccchhH
Q 012305 77 ERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDE 156 (466)
Q Consensus 77 er~a~a~~~l~~s~~a~~~~~~~~~~e~~~~~E~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~~~~q~~~~~~~a~~~d~ 156 (466)
||+|||+|+|+.|||||++|+++++||+|+|.|++++..+|++++++.+.+++++.+||+||++++|+++++|+++|+|+
T Consensus 79 ERaAKAlrein~s~~aK~vfel~r~qE~Trq~E~~~k~~~~eA~qa~~~~er~r~~~Ee~rk~lq~qaq~k~q~arYqD~ 158 (630)
T KOG0742|consen 79 ERAAKALREINHSPYAKDVFELARMQEQTRQAEQQAKTKEYEAAQAQLKSERIRVQAEERRKTLQEETQQKQQRARYQDK 158 (630)
T ss_pred HHHHHHHHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhcccccccch
Q 012305 157 LARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTE 236 (466)
Q Consensus 157 l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~~~~~~~~~ 236 (466)
|+||||++|++.|+..|++++++||+|+.|+|++|+.++|+++++++++|.++.++++++++.++++|+++++++++.|.
T Consensus 159 larkr~~~e~e~qr~~n~ElvrmQEeS~irqE~aRraTeE~iqaqrr~tE~erae~EretiRvkA~Aeaegraheakl~e 238 (630)
T KOG0742|consen 159 LARKRYEDELEAQRRLNEELVRMQEESVIRQEQARRATEEQIQAQRRKTEMERAEAERETIRVKAKAEAEGRAHEAKLNE 238 (630)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhcchhhhhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhCCCcc
Q 012305 237 DHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSL 316 (466)
Q Consensus 237 d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~p~l 316 (466)
|+|+++|+.+++++|++|+..|+++|.+||+|+.++++|+++++++|+|+++++.|||++|+|+.|+|+||+++||+|+|
T Consensus 239 dvnrr~l~~~~n~eRekwl~aInTtf~higgG~r~~ltD~~Kli~tVgGlTaLAaGvYTtkeg~~V~w~yi~r~LGqPSL 318 (630)
T KOG0742|consen 239 DVNRRQLRLKANEEREKWLEAINTTFTHIGGGLRAFLTDWNKLIATVGGLTALAAGVYTTKEGTLVTWRYIERRLGQPSL 318 (630)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHhhhHHHhhhHHHHHhhhhHhHHHHhhhHHHHHhhheeccccchhHHHHHHHHcCCchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCC
Q 012305 317 IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPP 396 (466)
Q Consensus 317 vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~Gpp 396 (466)
|||+|+.+|||.+.++...+.+.. .........+.|++||+++.+.++|.++...++|++.+..||+||||||||
T Consensus 319 iREsSrg~~pw~gsls~~k~~i~~-----~~~~s~~gk~pl~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPP 393 (630)
T KOG0742|consen 319 IRESSRGRFPWIGSLSALKHPIQG-----SRSASSRGKDPLEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPP 393 (630)
T ss_pred hhhhccccCCCcccHHHHhchhhh-----hHhhhhcCCCCcCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCC
Confidence 999999999999998877665521 112233556679999999999999999999999999999999999999999
Q ss_pred CCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 397 GTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 397 GTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
|||||++|+.||.++|++|.+|+|+|+.|+|.+.++.+|++|+|++++++|.+|||||+|+|+|+|.
T Consensus 394 GTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~qaVTkiH~lFDWakkS~rGLllFIDEADAFLceRn 460 (630)
T KOG0742|consen 394 GTGKTMFARELARHSGLDYAIMTGGDVAPLGAQAVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERN 460 (630)
T ss_pred CCCchHHHHHHHhhcCCceehhcCCCccccchHHHHHHHHHHHHHhhcccceEEEehhhHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999999999999999999999986
No 2
>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.
Probab=100.00 E-value=6.4e-66 Score=496.12 Aligned_cols=259 Identities=59% Similarity=0.795 Sum_probs=254.3
Q ss_pred CCCCCCCCCCCCChHHHHHHHHHHHHhcCChhhHHHHHHHHHhHhhhhhhhhhhhHHHHHHHhhhhHHHHHHhHHHHHHH
Q 012305 60 SREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNL 139 (466)
Q Consensus 60 ~~~~~~~~~~~fd~~~ler~a~a~~~l~~s~~a~~~~~~~~~~e~~~~~E~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~ 139 (466)
.+.++...+++|||++|||||||||+|++||||+++|+++++||.|+|+|+++++++|+++.+|+++++.++++||+||+
T Consensus 18 ~~~~~~~~~~~FDP~aLERaAkAlrel~~S~~Ak~afel~k~QE~TkQ~E~~ak~~e~ea~~~q~~~e~~rv~~EE~Rkt 97 (276)
T PF12037_consen 18 RNDNPRTTASGFDPEALERAAKALRELNSSPHAKKAFELMKKQEETKQAELQAKIAEYEAAQAQAEIERQRVEAEERRKT 97 (276)
T ss_pred CCCCCCcccCCCCcHHHHHHHHHHHHHhcChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455567999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcccchhHHHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhhhhh
Q 012305 140 VQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRV 219 (466)
Q Consensus 140 ~~~q~~~~~~~a~~~d~l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~~~~ 219 (466)
+++|+++++++++|+|+|+|+||+++++.++.+|++++++||+|+.|||++|++++++|+++++++++++++|+++++++
T Consensus 98 ~~~q~q~~~q~aqY~D~LaRkR~~~e~~~qr~~n~e~lk~QEes~~rqE~~Rr~Te~~i~~~r~~t~~~eaeL~~e~~~~ 177 (276)
T PF12037_consen 98 LQQQTQQKQQRAQYEDELARKRYQDELEQQRRRNEELLKMQEESVIRQEQMRRATEEQILAQRRQTEEEEAELRRETERA 177 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhcccccccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccC
Q 012305 220 KAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREG 299 (466)
Q Consensus 220 ~~~~e~e~~~~~~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g 299 (466)
++++|++|+++.+|+|+|+++++|+.++.++|.+||.+|+++|++||+||..|++|+++++.+|+|++++++|||++|.|
T Consensus 178 k~~AEa~gra~~eReN~Di~l~~l~~ka~e~R~t~lesI~t~f~~lg~G~~~lltD~~kl~~~vgg~T~LA~GvYtar~g 257 (276)
T PF12037_consen 178 KAEAEAEGRAKEERENEDINLEQLRLKAEEERETVLESINTTFSHLGEGFRALLTDRDKLTTTVGGLTALAAGVYTAREG 257 (276)
T ss_pred HHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceehhhhhhhhhCCCcccc
Q 012305 300 ARVTWGYVNRILGQPSLIR 318 (466)
Q Consensus 300 ~~~~~~~v~~~lg~p~lvr 318 (466)
+.|+|+||+++||+|+|||
T Consensus 258 t~v~~~yie~rLGkPsLVR 276 (276)
T PF12037_consen 258 TRVAGRYIEARLGKPSLVR 276 (276)
T ss_pred HHHHHHHHHHHcCCCccCC
Confidence 9999999999999999987
No 3
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.81 E-value=5.5e-19 Score=177.23 Aligned_cols=218 Identities=16% Similarity=0.114 Sum_probs=171.6
Q ss_pred hhhHHHHHHHHHHhhhhcccccccCCCcccc--CCCCCCCCCCCCchhhhhhhhc-CCCCCCCCC-CCCCChHHHHHHH-
Q 012305 6 LSSCLAVAAAVASLSTASNRAFADAPSRFSF--FSSSPQPTSSGNDEAEQTADAQ-KSREPEEPR-GSGFDPEALERAA- 80 (466)
Q Consensus 6 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~f~~--f~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~fd~~~ler~a- 80 (466)
|+..+++++.++++.+.+ ...+.+|++|+ |++|+++|+||-||..+..+.. .....+.|+ +|.-...+|++.+
T Consensus 1 Ma~kc~a~~i~a~~~S~~--~~~nka~ad~~f~~~~fs~sp~~~~pp~~~~~~~s~~~~~~~~p~~~Pk~~~~gFDpeaL 78 (630)
T KOG0742|consen 1 MAQKCAAGSISALAMSWL--FGINKAYADSRFGFPGFSASPPPPLPPAQPGAPGSGDRGEGDRPDPAPKDSWSGFDPEAL 78 (630)
T ss_pred CchhHHHHHHHHHHHHHH--hccchhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCccccccCCChHHH
Confidence 445555555555555544 45555999997 7777777766544433322111 112222233 6666777999998
Q ss_pred -HHHHHhcCChhhHHHHHHHHHhHhhhhhhhhhhhHHHHHHHhhhhHHHHHHhHHHHHHHHHHHHHHHHhcccchhHHHH
Q 012305 81 -KALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELAR 159 (466)
Q Consensus 81 -~a~~~l~~s~~a~~~~~~~~~~e~~~~~E~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~~~~q~~~~~~~a~~~d~l~r 159 (466)
+|++.|+.++|++++ +++++..+.+| +++++|+++...++++.+.+.+.|..|+.+++|.+..++.+|.+.+..
T Consensus 79 ERaAKAlrein~s~~a---K~vfel~r~qE-~Trq~E~~~k~~~~eA~qa~~~~er~r~~~Ee~rk~lq~qaq~k~q~a- 153 (630)
T KOG0742|consen 79 ERAAKALREINHSPYA---KDVFELARMQE-QTRQAEQQAKTKEYEAAQAQLKSERIRVQAEERRKTLQEETQQKQQRA- 153 (630)
T ss_pred HHHHHHHHhhccCccH---HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 999999999999999 99999999999 999999999999999999999999999999999999999999988887
Q ss_pred HhhcccHHHHhhcchhhhhh--chhhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhhhhhhhhhh---hhhccccccc
Q 012305 160 KRLQTDHEAQRRHNTELVKM--QEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAE---AEGRAHEAKL 234 (466)
Q Consensus 160 ~r~q~E~e~~~~~~e~~~~~--qees~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~~~~~~~~e---~e~~~~~~~~ 234 (466)
+||+++.+++.+.+...++ ++|++.+||+.-+..+. +|++|+++++.+++++++.++++| .+.++..+++
T Consensus 154 -rYqD~larkr~~~e~e~qr~~n~ElvrmQEeS~irqE~----aRraTeE~iqaqrr~tE~erae~EretiRvkA~Aeae 228 (630)
T KOG0742|consen 154 -RYQDKLARKRYEDELEAQRRLNEELVRMQEESVIRQEQ----ARRATEEQIQAQRRKTEMERAEAERETIRVKAKAEAE 228 (630)
T ss_pred -HHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHH----HHHhHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999986654443 34888888888777766 999999999999999999999999 4455555555
Q ss_pred c
Q 012305 235 T 235 (466)
Q Consensus 235 ~ 235 (466)
.
T Consensus 229 g 229 (630)
T KOG0742|consen 229 G 229 (630)
T ss_pred c
Confidence 3
No 4
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.77 E-value=4.7e-19 Score=175.95 Aligned_cols=117 Identities=24% Similarity=0.398 Sum_probs=98.7
Q ss_pred cCccccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305 348 AGPVEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD 422 (466)
Q Consensus 348 ~~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~ 422 (466)
.....+..++++|-|.++.++.|++.+.. +.++. -+..||++||||||||||||++|+++|++.+..|+.+.|+.
T Consensus 141 ~v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSE 220 (406)
T COG1222 141 EVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSE 220 (406)
T ss_pred eeccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHH
Confidence 34456677889998888888888876553 33332 23478899999999999999999999999999999999999
Q ss_pred ccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305 423 VAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 423 l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
+.. +.+++...++.+|..|+... ++||||||||++..+|.+.
T Consensus 221 lVqKYiGEGaRlVRelF~lAreka-PsIIFiDEIDAIg~kR~d~ 263 (406)
T COG1222 221 LVQKYIGEGARLVRELFELAREKA-PSIIFIDEIDAIGAKRFDS 263 (406)
T ss_pred HHHHHhccchHHHHHHHHHHhhcC-CeEEEEechhhhhcccccC
Confidence 875 77888999999999999766 8999999999999998764
No 5
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=99.76 E-value=3.2e-19 Score=170.17 Aligned_cols=110 Identities=28% Similarity=0.479 Sum_probs=98.4
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhcccccc-ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc-ccchhH
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIH-QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQ 429 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~-~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l-~~~~~e 429 (466)
.+..+|+||||+++++...+-+..++.++... .|.++|||||||||||||++|++||++.+.|++.|....+ +...++
T Consensus 115 ~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVGd 194 (368)
T COG1223 115 ISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGD 194 (368)
T ss_pred hccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhhh
Confidence 34568999999999999999999999998644 4778999999999999999999999999999999998775 457788
Q ss_pred HHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 430 AVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 430 ~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
....++.+++.|+... +||+||||+|++.-+|
T Consensus 195 gar~Ihely~rA~~~a-PcivFiDE~DAiaLdR 226 (368)
T COG1223 195 GARRIHELYERARKAA-PCIVFIDELDAIALDR 226 (368)
T ss_pred HHHHHHHHHHHHHhcC-CeEEEehhhhhhhhhh
Confidence 8999999999999887 8999999999998665
No 6
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=99.75 E-value=4.8e-19 Score=184.45 Aligned_cols=195 Identities=16% Similarity=0.210 Sum_probs=149.6
Q ss_pred ccccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhh
Q 012305 231 EAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRI 310 (466)
Q Consensus 231 ~~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~ 310 (466)
..+...|+.+.+++++ ..+...++..|+.. +++.+++++||++++..+|.++|.| +++|+.|+
T Consensus 44 i~~~~~~lvl~Di~mp-~~~Gl~ll~~i~~~-------------~~~~pVI~~Tg~g~i~~AV~A~k~G---A~Dfl~KP 106 (464)
T COG2204 44 LSESPFDLVLLDIRMP-GMDGLELLKEIKSR-------------DPDLPVIVMTGHGDIDTAVEALRLG---AFDFLEKP 106 (464)
T ss_pred HhcCCCCEEEEecCCC-CCchHHHHHHHHhh-------------CCCCCEEEEeCCCCHHHHHHHHhcC---cceeeeCC
Confidence 3344789999999998 56888899888887 8999999999999999999999999 89999999
Q ss_pred hCCCccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccc
Q 012305 311 LGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNM 390 (466)
Q Consensus 311 lg~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~v 390 (466)
+....| ...+.+++.......++.. ..........++||.+..+..|...+..++.++.+ |
T Consensus 107 ~~~~~L-----------~~~v~ral~~~~~~~e~~~--~~~~~~~~~~~liG~S~am~~l~~~i~kvA~s~a~------V 167 (464)
T COG2204 107 FDLDRL-----------LAIVERALELRELQRENRR--SLKRAKSLGGELVGESPAMQQLRRLIAKVAPSDAS------V 167 (464)
T ss_pred CCHHHH-----------HHHHHHHHHHhhhhhhhhh--hhhccccccCCceecCHHHHHHHHHHHHHhCCCCC------E
Confidence 996655 2344455443322111111 11122345678999999999999999999998887 9
Q ss_pred cccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch--hHHHHHHHHHHhhhhhcc-------CceEEEecccccc
Q 012305 391 LFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG--AQAVTKIHEIFDWAKKSK-------KGLLLFIDEADAF 458 (466)
Q Consensus 391 Ll~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~--~e~~~~l~~lf~~A~~~~-------~~~iLflDEid~l 458 (466)
||+|++||||.++|++|+..+ +.||+.+||+.+++.. .+.++.-.+.|..|...+ .|++||||||+.|
T Consensus 168 LI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~ESELFGhekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~m 247 (464)
T COG2204 168 LITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLESELFGHEKGAFTGAITRRIGRFEQANGGTLFLDEIGEM 247 (464)
T ss_pred EEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHHHHHHhhcccccCcCCcccccCcceeEcCCceEEeeccccC
Confidence 999999999999999999999 6799999999998733 333444444444443321 2699999999998
Q ss_pred ccc
Q 012305 459 LCD 461 (466)
Q Consensus 459 ~~~ 461 (466)
...
T Consensus 248 pl~ 250 (464)
T COG2204 248 PLE 250 (464)
T ss_pred CHH
Confidence 654
No 7
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=99.71 E-value=5.6e-18 Score=177.05 Aligned_cols=110 Identities=27% Similarity=0.406 Sum_probs=98.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGA 428 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~ 428 (466)
...|.++-|.+.....|+.++..+.++.. +..|+++||||||||||||+||++||+++|.||+.|++..+.. +.+
T Consensus 186 nv~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSG 265 (802)
T KOG0733|consen 186 NVSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSG 265 (802)
T ss_pred CcchhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCc
Confidence 45789999999999999998888776542 3478899999999999999999999999999999999998764 778
Q ss_pred HHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
++...++.+|+.|.... +|||||||||++.++|..
T Consensus 266 ESEkkiRelF~~A~~~a-PcivFiDeIDAI~pkRe~ 300 (802)
T KOG0733|consen 266 ESEKKIRELFDQAKSNA-PCIVFIDEIDAITPKREE 300 (802)
T ss_pred ccHHHHHHHHHHHhccC-CeEEEeecccccccchhh
Confidence 99999999999999877 899999999999999864
No 8
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.71 E-value=9e-18 Score=173.17 Aligned_cols=110 Identities=22% Similarity=0.369 Sum_probs=99.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGA 428 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~ 428 (466)
...|+||-|-++++..|.+++.++.++.. ++.-|++|||+||||||||+||+++|.+.|.||+...|+.+-. +.+
T Consensus 300 nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VG 379 (752)
T KOG0734|consen 300 NVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVG 379 (752)
T ss_pred ccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhc
Confidence 45699999999999999999999988643 3566799999999999999999999999999999999999876 566
Q ss_pred HHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
....+++.+|..|+++. +|||||||||++.++|..
T Consensus 380 vGArRVRdLF~aAk~~A-PcIIFIDEiDavG~kR~~ 414 (752)
T KOG0734|consen 380 VGARRVRDLFAAAKARA-PCIIFIDEIDAVGGKRNP 414 (752)
T ss_pred ccHHHHHHHHHHHHhcC-CeEEEEechhhhcccCCc
Confidence 77899999999999877 899999999999998864
No 9
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.70 E-value=7.9e-18 Score=168.31 Aligned_cols=112 Identities=21% Similarity=0.339 Sum_probs=96.6
Q ss_pred ccccCCCCeeeCcchHHHHHHHHH-hhccc---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAK-ATANT---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~-~~~~~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
++...|+||.|..++++-|.+.+- .+.-+ +.-..|+++|||+||||||||+||++||.++|..|+.|+.+++.. +
T Consensus 206 np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSKw 285 (491)
T KOG0738|consen 206 NPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKW 285 (491)
T ss_pred CCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhhh
Confidence 456789999999999999987432 22222 233578999999999999999999999999999999999998875 8
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.+++...++-||+.|+.+. +++|||||||+|..+|+.
T Consensus 286 RGeSEKlvRlLFemARfyA-PStIFiDEIDslcs~RG~ 322 (491)
T KOG0738|consen 286 RGESEKLVRLLFEMARFYA-PSTIFIDEIDSLCSQRGG 322 (491)
T ss_pred ccchHHHHHHHHHHHHHhC-CceeehhhHHHHHhcCCC
Confidence 8899999999999999888 899999999999998875
No 10
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=99.68 E-value=1.8e-17 Score=173.28 Aligned_cols=113 Identities=20% Similarity=0.343 Sum_probs=96.7
Q ss_pred ccccCCCCeeeCcchHHHHHHHHH-hhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAK-ATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP- 425 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~-~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~- 425 (466)
-++.+|+||-+..++...|...+. .+.++.. +..++.+||||||||||||++|+++|++.|.+|+.|.|+.+..
T Consensus 505 VPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNk 584 (802)
T KOG0733|consen 505 VPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNK 584 (802)
T ss_pred cCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHH
Confidence 367789999999999999987443 3444322 2345689999999999999999999999999999999999865
Q ss_pred chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305 426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
|.+++...++.+|..|+.+. +||||+||||+|.+.|++.
T Consensus 585 YVGESErAVR~vFqRAR~sa-PCVIFFDEiDaL~p~R~~~ 623 (802)
T KOG0733|consen 585 YVGESERAVRQVFQRARASA-PCVIFFDEIDALVPRRSDE 623 (802)
T ss_pred HhhhHHHHHHHHHHHhhcCC-CeEEEecchhhcCcccCCC
Confidence 88999999999999999877 8999999999999999863
No 11
>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.68 E-value=2.1e-17 Score=174.74 Aligned_cols=112 Identities=25% Similarity=0.446 Sum_probs=96.5
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhh-ccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKAT-ANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP- 425 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~-~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~- 425 (466)
-+..+|+||-|.++++..|.+.+.+- ..+ +-...|+++||||||||||||++|++||++++.+|+.|.|+++..
T Consensus 428 ~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk 507 (693)
T KOG0730|consen 428 MPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSK 507 (693)
T ss_pred CCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHH
Confidence 45668899999999999998866542 221 222478899999999999999999999999999999999998764
Q ss_pred chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
|.+++...++.+|+.|+... ++||||||||++.+.|++
T Consensus 508 ~vGeSEr~ir~iF~kAR~~a-P~IiFfDEiDsi~~~R~g 545 (693)
T KOG0730|consen 508 YVGESERAIREVFRKARQVA-PCIIFFDEIDALAGSRGG 545 (693)
T ss_pred hcCchHHHHHHHHHHHhhcC-CeEEehhhHHhHhhccCC
Confidence 88899999999999999888 599999999999999953
No 12
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=2.3e-16 Score=150.19 Aligned_cols=117 Identities=26% Similarity=0.403 Sum_probs=95.6
Q ss_pred cCccccccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305 348 AGPVEAIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD 422 (466)
Q Consensus 348 ~~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~ 422 (466)
....++..++.|+-|.+-.+..++..+.. +... ..+.-|+++||||||||||||+|++++|++....|+.+.|+.
T Consensus 145 ~~~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgse 224 (408)
T KOG0727|consen 145 GPDEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSE 224 (408)
T ss_pred CCCCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHH
Confidence 44456677888888888777778775542 1111 123468899999999999999999999999999999999998
Q ss_pred ccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305 423 VAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 423 l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
+.. +.++....++.+|+.|+.+. ++||||||||++..+|++.
T Consensus 225 fvqkylgegprmvrdvfrlakena-psiifideidaiatkrfda 267 (408)
T KOG0727|consen 225 FVQKYLGEGPRMVRDVFRLAKENA-PSIIFIDEIDAIATKRFDA 267 (408)
T ss_pred HHHHHhccCcHHHHHHHHHHhccC-CcEEEeehhhhHhhhhccc
Confidence 764 66777888999999999877 8999999999999988763
No 13
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=8.4e-17 Score=171.99 Aligned_cols=117 Identities=21% Similarity=0.370 Sum_probs=97.4
Q ss_pred ccCccccccCCCCeeeCcchHHHHHHHHHh-hcccc---ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305 347 TAGPVEAIKNNGDIILHPSLQRRIQHLAKA-TANTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD 422 (466)
Q Consensus 347 ~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~---~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~ 422 (466)
...+.-+...|+||-|.++++..|.+.+.. +..+. .+-.+-.+||||||||||||++|+++|.++...|+.|.|+.
T Consensus 661 iGAPKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPE 740 (953)
T KOG0736|consen 661 IGAPKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPE 740 (953)
T ss_pred cCCCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHH
Confidence 455556777899999999999999875543 22221 11223358999999999999999999999999999999999
Q ss_pred ccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 423 VAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 423 l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
+.. +.+++..+++.+|+.|+... +||||+||+|++.++|++
T Consensus 741 LLNMYVGqSE~NVR~VFerAR~A~-PCVIFFDELDSlAP~RG~ 782 (953)
T KOG0736|consen 741 LLNMYVGQSEENVREVFERARSAA-PCVIFFDELDSLAPNRGR 782 (953)
T ss_pred HHHHHhcchHHHHHHHHHHhhccC-CeEEEeccccccCccCCC
Confidence 765 78899999999999999766 899999999999999975
No 14
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=7.8e-17 Score=174.91 Aligned_cols=113 Identities=23% Similarity=0.371 Sum_probs=100.8
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhcccccc----ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIH----QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~----~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~ 425 (466)
..+.+..|.||.|.++++..|.+++.++.|+..+ -.+|+++||+||||||||+||+++|.+.|.||+.++|+++..
T Consensus 303 ~~~t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE 382 (774)
T KOG0731|consen 303 EGNTGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVE 382 (774)
T ss_pred CCCCCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHH
Confidence 3455678999999999999999999999998654 366799999999999999999999999999999999999876
Q ss_pred -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+++...++++.+|..++.+. |+||||||||++.+.|+
T Consensus 383 ~~~g~~asrvr~lf~~ar~~a-P~iifideida~~~~r~ 420 (774)
T KOG0731|consen 383 MFVGVGASRVRDLFPLARKNA-PSIIFIDEIDAVGRKRG 420 (774)
T ss_pred HhcccchHHHHHHHHHhhccC-CeEEEeccccccccccc
Confidence 44445889999999999877 89999999999999884
No 15
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.64 E-value=9.4e-17 Score=155.85 Aligned_cols=112 Identities=21% Similarity=0.414 Sum_probs=95.2
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHh-hccc---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKA-TANT---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
.+...|+||-|.+.+++.|.+.+.. +.-+ .....|++++||||||||||+.||+++|.+.+..|+.|+.+|+.. +
T Consensus 127 KPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKW 206 (439)
T KOG0739|consen 127 KPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKW 206 (439)
T ss_pred CCCCchhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHH
Confidence 4566789999999999999884432 2211 233578899999999999999999999999999999999999875 7
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
-+++...+..+|+.|+.++ ++||||||||.+++.|++
T Consensus 207 mGESEkLVknLFemARe~k-PSIIFiDEiDslcg~r~e 243 (439)
T KOG0739|consen 207 MGESEKLVKNLFEMARENK-PSIIFIDEIDSLCGSRSE 243 (439)
T ss_pred hccHHHHHHHHHHHHHhcC-CcEEEeehhhhhccCCCC
Confidence 7899999999999999877 899999999999888763
No 16
>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=99.61 E-value=2.8e-16 Score=149.11 Aligned_cols=101 Identities=31% Similarity=0.525 Sum_probs=66.6
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK 433 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~ 433 (466)
+.+|+++|||++++..+.-++..... .+.++.|+|||||||||||+||+.||++++.+|..++++.+.. ...
T Consensus 20 P~~L~efiGQ~~l~~~l~i~i~aa~~---r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k-----~~d 91 (233)
T PF05496_consen 20 PKSLDEFIGQEHLKGNLKILIRAAKK---RGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEK-----AGD 91 (233)
T ss_dssp -SSCCCS-S-HHHHHHHHHHHHHHHC---TTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--S-----CHH
T ss_pred CCCHHHccCcHHHHhhhHHHHHHHHh---cCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhh-----HHH
Confidence 56899999999999998876655422 2234458999999999999999999999999999888865432 223
Q ss_pred HHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305 434 IHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 434 l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
+..++... ..+.|||||||+.|....+++
T Consensus 92 l~~il~~l---~~~~ILFIDEIHRlnk~~qe~ 120 (233)
T PF05496_consen 92 LAAILTNL---KEGDILFIDEIHRLNKAQQEI 120 (233)
T ss_dssp HHHHHHT-----TT-EEEECTCCC--HHHHHH
T ss_pred HHHHHHhc---CCCcEEEEechhhccHHHHHH
Confidence 34444433 347899999999998766543
No 17
>PRK10865 protein disaggregation chaperone; Provisional
Probab=99.57 E-value=7.4e-15 Score=166.10 Aligned_cols=254 Identities=16% Similarity=0.152 Sum_probs=141.9
Q ss_pred hHHHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHH---HHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhcccc
Q 012305 155 DELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEE---QIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHE 231 (466)
Q Consensus 155 d~l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e---~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~~~~ 231 (466)
+.++++..+++.+.+.+..+. +..+..|+++++.++++ ++..++.+|..++.++....+....+++.+.+++.
T Consensus 413 ~rLer~l~~L~~E~e~l~~e~----~~~~~~~~~~l~~~l~~lq~e~~~L~eq~k~~k~el~~~~~~~~ele~l~~kie~ 488 (857)
T PRK10865 413 DRLDRRIIQLKLEQQALMKES----DEASKKRLDMLNEELSDKERQYSELEEEWKAEKASLSGTQTIKAELEQAKIAIEQ 488 (857)
T ss_pred HHHHHHHHHHHHHHHHHHhhh----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 455555555555555554442 22234455555555443 66668889998887776666666555555555555
Q ss_pred cccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhh
Q 012305 232 AKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRIL 311 (466)
Q Consensus 232 ~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~l 311 (466)
...+.|.... .+..+..+..+...+......-. .+...+...|+ ...+..+|.+|+
T Consensus 489 a~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~v~---------------~~~i~~vv~~~t 544 (857)
T PRK10865 489 ARRVGDLARM------SELQYGKIPELEKQLAAATQLEG---KTMRLLRNKVT---------------DAEIAEVLARWT 544 (857)
T ss_pred HHhhhhhhhH------HHhhhhhhHHHHHHHHHHHhhhc---cccccccCccC---------------HHHHHHHHHHHH
Confidence 5555555431 12223333333222111110000 00111112232 445788999999
Q ss_pred CCCcc-ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccc-ccccccccc
Q 012305 312 GQPSL-IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANT-KIHQAPFRN 389 (466)
Q Consensus 312 g~p~l-vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~-~~~~~p~~~ 389 (466)
|.|.- +.+....++ .+... .-...|||++.++..|...+...... ..+..|..+
T Consensus 545 gip~~~~~~~~~~~l------~~l~~------------------~l~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~ 600 (857)
T PRK10865 545 GIPVSRMLESEREKL------LRMEQ------------------ELHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGS 600 (857)
T ss_pred CCCchhhhhhHHHHH------HHHHH------------------HhCCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCce
Confidence 99973 222111111 11111 12356999999999998877655432 233455567
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--------------chhHHHHHHHHHHhhhhhccCceEEEe
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--------------LGAQAVTKIHEIFDWAKKSKKGLLLFI 452 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--------------~~~e~~~~l~~lf~~A~~~~~~~iLfl 452 (466)
+||+||||||||++|++|+..+ +.+|+.++|+.+.. .|.+. .+.+..+-+..+++||||
T Consensus 601 ~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~~~~LiG~~pgy~g~~~----~g~l~~~v~~~p~~vLll 676 (857)
T PRK10865 601 FLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEE----GGYLTEAVRRRPYSVILL 676 (857)
T ss_pred EEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhhHHHHhCCCCcccccch----hHHHHHHHHhCCCCeEEE
Confidence 9999999999999999999887 45677777765422 11111 122222223455899999
Q ss_pred ccccccccccCC
Q 012305 453 DEADAFLCDNQD 464 (466)
Q Consensus 453 DEid~l~~~r~~ 464 (466)
|||+.+.+..++
T Consensus 677 DEieka~~~v~~ 688 (857)
T PRK10865 677 DEVEKAHPDVFN 688 (857)
T ss_pred eehhhCCHHHHH
Confidence 999988765443
No 18
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=2.8e-15 Score=143.70 Aligned_cols=114 Identities=23% Similarity=0.412 Sum_probs=95.7
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA 424 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~ 424 (466)
...++.++.||-|-.+.++.++.++.. +-++ ....-|+++||+|||||||||++|+++|+..+..|+.+.|+.+.
T Consensus 169 eekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigselv 248 (435)
T KOG0729|consen 169 EEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELV 248 (435)
T ss_pred ecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHH
Confidence 345677889998999999999887653 1111 22346889999999999999999999999999999999999876
Q ss_pred c-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
. +.++....++.+|+.|+..+ -||||+||||++.+-|++
T Consensus 249 qkyvgegarmvrelf~martkk-aciiffdeidaiggarfd 288 (435)
T KOG0729|consen 249 QKYVGEGARMVRELFEMARTKK-ACIIFFDEIDAIGGARFD 288 (435)
T ss_pred HHHhhhhHHHHHHHHHHhcccc-eEEEEeeccccccCcccc
Confidence 4 77888999999999999644 899999999999988764
No 19
>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=99.55 E-value=2.7e-15 Score=160.69 Aligned_cols=112 Identities=23% Similarity=0.398 Sum_probs=93.4
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
.+..+|++|+|.+.++..+..++..+.++.. +..+++++|||||||||||+++++||..++.+|+.++++++.. +
T Consensus 49 ~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~ 128 (495)
T TIGR01241 49 KPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF 128 (495)
T ss_pred CCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHH
Confidence 4567899999999999999998887665432 3456689999999999999999999999999999999887644 3
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.+.+...++.+|..++... ++||||||||.+++++++
T Consensus 129 ~g~~~~~l~~~f~~a~~~~-p~Il~iDEid~l~~~r~~ 165 (495)
T TIGR01241 129 VGVGASRVRDLFEQAKKNA-PCIIFIDEIDAVGRQRGA 165 (495)
T ss_pred hcccHHHHHHHHHHHHhcC-CCEEEEechhhhhhcccc
Confidence 3455678899999998655 799999999999887754
No 20
>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=5.9e-15 Score=143.05 Aligned_cols=116 Identities=22% Similarity=0.346 Sum_probs=92.7
Q ss_pred CccccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305 349 GPVEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 423 (466)
Q Consensus 349 ~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l 423 (466)
....+..++.|+-|.++.+..|...+.. +.++. -...|+++|+|||+||||||+||+++|+.....|+.+.|+++
T Consensus 176 ~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseL 255 (440)
T KOG0726|consen 176 VEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSEL 255 (440)
T ss_pred cccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHH
Confidence 3345667788887777777666654332 22221 124788999999999999999999999999999999999987
Q ss_pred cc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305 424 AP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 424 ~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
.. +.++....++++|..|.... ++|+||||||++..+|.+.
T Consensus 256 iQkylGdGpklvRqlF~vA~e~a-pSIvFiDEIdAiGtKRyds 297 (440)
T KOG0726|consen 256 IQKYLGDGPKLVRELFRVAEEHA-PSIVFIDEIDAIGTKRYDS 297 (440)
T ss_pred HHHHhccchHHHHHHHHHHHhcC-CceEEeehhhhhccccccC
Confidence 64 66777888999999999877 8999999999999988753
No 21
>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=3.8e-15 Score=159.22 Aligned_cols=111 Identities=25% Similarity=0.423 Sum_probs=99.3
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhcccccc----ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIH----QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~----~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
.....|.|+.|.+++++.+.+++..+.++... ...++++||+||||||||+||+++|.+.+.||..++|+++.. +
T Consensus 144 ~~~v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemf 223 (596)
T COG0465 144 QVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF 223 (596)
T ss_pred ccCcChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhh
Confidence 34568999999999999999999999987644 355699999999999999999999999999999999999876 5
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.+-..+.++.+|..|++.. +|||||||||+..+.|+
T Consensus 224 VGvGAsRVRdLF~qAkk~a-P~IIFIDEiDAvGr~Rg 259 (596)
T COG0465 224 VGVGASRVRDLFEQAKKNA-PCIIFIDEIDAVGRQRG 259 (596)
T ss_pred cCCCcHHHHHHHHHhhccC-CCeEEEehhhhcccccC
Confidence 5566789999999999888 69999999999998885
No 22
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=7.9e-15 Score=160.47 Aligned_cols=138 Identities=19% Similarity=0.218 Sum_probs=97.6
Q ss_pred ceehhhhhhhhhCCCcc-ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhc
Q 012305 300 ARVTWGYVNRILGQPSL-IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA 378 (466)
Q Consensus 300 ~~~~~~~v~~~lg~p~l-vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~ 378 (466)
...+..+|.+|+|+|.- +.+..+.++ ..+...+ -..||||++++..|...+...+
T Consensus 456 ~~~Ia~vv~~~TgIPv~~l~~~e~~kl---l~le~~L---------------------~~rViGQd~AV~avs~aIrraR 511 (786)
T COG0542 456 EDDIAEVVARWTGIPVAKLLEDEKEKL---LNLERRL---------------------KKRVIGQDEAVEAVSDAIRRAR 511 (786)
T ss_pred HHHHHHHHHHHHCCChhhhchhhHHHH---HHHHHHH---------------------hcceeChHHHHHHHHHHHHHHh
Confidence 45688899999999974 333332221 1111111 1459999999999988665544
Q ss_pred c-ccccccccccccccCCCCCCchHHHHHHHHhhC---Cc--------------chhhcCCCcccchhHHHHHHHHHHhh
Q 012305 379 N-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---LD--------------YAMMTGGDVAPLGAQAVTKIHEIFDW 440 (466)
Q Consensus 379 ~-~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---~~--------------~~~v~~~~l~~~~~e~~~~l~~lf~~ 440 (466)
. ...+..|..++||.||+|+|||.+|++||..+. .. +..+.|+..+|.|++..+.+...++
T Consensus 512 aGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeGG~LTEaVR- 590 (786)
T COG0542 512 AGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVR- 590 (786)
T ss_pred cCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHhCCCCCCceeccccchhHhhh-
Confidence 4 466678889999999999999999999999993 22 3444566666777766555444433
Q ss_pred hhhccCceEEEeccccccccccCCC
Q 012305 441 AKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 441 A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
.+|++||+||||+..+++-.|+
T Consensus 591 ---r~PySViLlDEIEKAHpdV~ni 612 (786)
T COG0542 591 ---RKPYSVILLDEIEKAHPDVFNL 612 (786)
T ss_pred ---cCCCeEEEechhhhcCHHHHHH
Confidence 5679999999999999876654
No 23
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=6e-15 Score=158.01 Aligned_cols=113 Identities=24% Similarity=0.384 Sum_probs=96.4
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHhhccccc-----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKI-----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~-----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~ 425 (466)
..+...|.++.|....+..+.+.+...-.... +..+++++|||||||||||++|+++|..++.+|+.+.++++.+
T Consensus 235 ~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~s 314 (494)
T COG0464 235 EDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLS 314 (494)
T ss_pred CCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhc
Confidence 45667889999988888888887665333221 3466789999999999999999999999999999999998765
Q ss_pred -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
+.+++...++.+|..|+... ++||||||||++.+.|++
T Consensus 315 k~vGesek~ir~~F~~A~~~~-p~iiFiDEiDs~~~~r~~ 353 (494)
T COG0464 315 KWVGESEKNIRELFEKARKLA-PSIIFIDEIDSLASGRGP 353 (494)
T ss_pred cccchHHHHHHHHHHHHHcCC-CcEEEEEchhhhhccCCC
Confidence 88899999999999999766 899999999999998864
No 24
>CHL00195 ycf46 Ycf46; Provisional
Probab=99.53 E-value=6.7e-15 Score=156.27 Aligned_cols=110 Identities=19% Similarity=0.274 Sum_probs=88.9
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhcc--ccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chh
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATAN--TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGA 428 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~--~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~ 428 (466)
.+..+|++|.|.+.++..+......+.. ...+..++++||||||||||||++|++||+.++.+|+.++++.+.. +.+
T Consensus 222 ~~~~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vG 301 (489)
T CHL00195 222 SVNEKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVG 301 (489)
T ss_pred CCCCCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccC
Confidence 3455789999999999888765443321 1223356689999999999999999999999999999999987653 666
Q ss_pred HHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
++...++.+|..++... ++||||||||.++.++
T Consensus 302 ese~~l~~~f~~A~~~~-P~IL~IDEID~~~~~~ 334 (489)
T CHL00195 302 ESESRMRQMIRIAEALS-PCILWIDEIDKAFSNS 334 (489)
T ss_pred hHHHHHHHHHHHHHhcC-CcEEEehhhhhhhccc
Confidence 78889999999998766 8999999999987653
No 25
>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.
Probab=99.52 E-value=6.7e-14 Score=135.93 Aligned_cols=157 Identities=13% Similarity=0.145 Sum_probs=138.5
Q ss_pred CCCCCCCCCCCChHHHHHHH--HHHHHhcCChhhHHHHHHHHHhHhhhhhhhhhhhHHHHHHHhhhhHHHHHHhHHHHHH
Q 012305 61 REPEEPRGSGFDPEALERAA--KALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRN 138 (466)
Q Consensus 61 ~~~~~~~~~~fd~~~ler~a--~a~~~l~~s~~a~~~~~~~~~~e~~~~~E~~~~~~e~~~~~~~~~~~~~~~~~ee~r~ 138 (466)
++.+.+++++....+|+|.+ +|++.|+....++++ +++++.++.+| .++++|+.+..+++++...+.+.+..|+
T Consensus 14 ~~~~~~~~~~~~~~~FDP~aLERaAkAlrel~~S~~A---k~afel~k~QE-~TkQ~E~~ak~~e~ea~~~q~~~e~~rv 89 (276)
T PF12037_consen 14 GSKPRNDNPRTTASGFDPEALERAAKALRELNSSPHA---KKAFELMKKQE-ETKQAELQAKIAEYEAAQAQAEIERQRV 89 (276)
T ss_pred CcCCCCCCCCcccCCCCcHHHHHHHHHHHHHhcChhH---HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677889999999999998 999999999999999 99999999999 9999999999999999999999999999
Q ss_pred HHHHHHHHHHhcccchhHHHHHhhcccHHHHhhcchhhhhhch--hhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhh
Q 012305 139 LVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQE--ESSIRKEQARRSTEEQIQAQQRLTEKERAEIERET 216 (466)
Q Consensus 139 ~~~~q~~~~~~~a~~~d~l~r~r~q~E~e~~~~~~e~~~~~qe--es~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~ 216 (466)
..+++.+..++.++.+.+.+ +|++++++++.+.+...+++. +.+++||+.-...++ +|++++++...+++.+
T Consensus 90 ~~EE~Rkt~~~q~q~~~q~a--qY~D~LaRkR~~~e~~~qr~~n~e~lk~QEes~~rqE~----~Rr~Te~~i~~~r~~t 163 (276)
T PF12037_consen 90 EAEERRKTLQQQTQQKQQRA--QYEDELARKRYQDELEQQRRRNEELLKMQEESVIRQEQ----MRRATEEQILAQRRQT 163 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHh
Confidence 99999999999888888888 999999999998776555443 666777766666555 9999999999999988
Q ss_pred hhhhhhhhhhh
Q 012305 217 IRVKAMAEAEG 227 (466)
Q Consensus 217 ~~~~~~~e~e~ 227 (466)
+..++.-+.+.
T Consensus 164 ~~~eaeL~~e~ 174 (276)
T PF12037_consen 164 EEEEAELRRET 174 (276)
T ss_pred HHHHHHHHHHH
Confidence 88887776664
No 26
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=1.2e-14 Score=145.53 Aligned_cols=112 Identities=29% Similarity=0.448 Sum_probs=93.9
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHh-hcccc-----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK-----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA 424 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~-----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~ 424 (466)
.....+|+|+-|.+.++..+..++.. +..+. .-..|.++||||||||||||++|+++|+..|.+|+-|.++.+.
T Consensus 85 ~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt 164 (386)
T KOG0737|consen 85 SEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLT 164 (386)
T ss_pred hhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccc
Confidence 34466889999999999999885542 22221 1135779999999999999999999999999999999999887
Q ss_pred c-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
. +.+++...+..+|..|.+.. |+||||||||.|++.|+
T Consensus 165 ~KWfgE~eKlv~AvFslAsKl~-P~iIFIDEvds~L~~R~ 203 (386)
T KOG0737|consen 165 SKWFGEAQKLVKAVFSLASKLQ-PSIIFIDEVDSFLGQRR 203 (386)
T ss_pred hhhHHHHHHHHHHHHhhhhhcC-cceeehhhHHHHHhhcc
Confidence 6 66788899999999999888 89999999999998873
No 27
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=99.51 E-value=1.4e-14 Score=146.39 Aligned_cols=81 Identities=20% Similarity=0.228 Sum_probs=72.4
Q ss_pred cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhHHHHHHHHHHhhhhh----ccCceEEEeccccc
Q 012305 383 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQAVTKIHEIFDWAKK----SKKGLLLFIDEADA 457 (466)
Q Consensus 383 ~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e~~~~l~~lf~~A~~----~~~~~iLflDEid~ 457 (466)
+..++++++||||||||||++|+++|+.+|.+|+.++++++.. +.+++...++.+|..|.. ...+|||||||||+
T Consensus 144 ~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA 223 (413)
T PLN00020 144 NIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDA 223 (413)
T ss_pred CCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhh
Confidence 3467799999999999999999999999999999999998864 888999999999998874 23589999999999
Q ss_pred cccccC
Q 012305 458 FLCDNQ 463 (466)
Q Consensus 458 l~~~r~ 463 (466)
+++.|+
T Consensus 224 ~~g~r~ 229 (413)
T PLN00020 224 GAGRFG 229 (413)
T ss_pred cCCCCC
Confidence 998875
No 28
>CHL00176 ftsH cell division protein; Validated
Probab=99.51 E-value=1.3e-14 Score=158.70 Aligned_cols=111 Identities=22% Similarity=0.351 Sum_probs=93.0
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
....+|+||+|.++.++.+..++..+.++.. ...+++++|||||||||||++|++||..++.+|+.++|+++.. +
T Consensus 177 ~~~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~ 256 (638)
T CHL00176 177 DTGITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMF 256 (638)
T ss_pred CCCCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHh
Confidence 4456899999999999999999888777654 3455689999999999999999999999999999999988754 3
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.+.....++.+|..+.... ++||||||||.+.++|+
T Consensus 257 ~g~~~~~vr~lF~~A~~~~-P~ILfIDEID~l~~~r~ 292 (638)
T CHL00176 257 VGVGAARVRDLFKKAKENS-PCIVFIDEIDAVGRQRG 292 (638)
T ss_pred hhhhHHHHHHHHHHHhcCC-CcEEEEecchhhhhccc
Confidence 3344567889999998655 79999999999987654
No 29
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=3.1e-14 Score=136.24 Aligned_cols=116 Identities=23% Similarity=0.355 Sum_probs=90.5
Q ss_pred CccccccCCCCeeeCcchHHHHHHHH-Hhhccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305 349 GPVEAIKNNGDIILHPSLQRRIQHLA-KATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 423 (466)
Q Consensus 349 ~~~~~~~~l~~vVg~~~~~~~l~~~~-~~~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l 423 (466)
....+...+.||-|.+..++.|...+ ..+... +-+..|++++|+|||||||||++|++.|...+..|+.+.|+.+
T Consensus 162 vDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQL 241 (424)
T KOG0652|consen 162 VDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQL 241 (424)
T ss_pred eccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHH
Confidence 34456667788877666655554422 222221 2235788999999999999999999999999999999999987
Q ss_pred cc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305 424 AP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 424 ~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
.. +.++....++..|..|+... ++||||||+|++..+|+++
T Consensus 242 VQMfIGdGAkLVRDAFaLAKEka-P~IIFIDElDAIGtKRfDS 283 (424)
T KOG0652|consen 242 VQMFIGDGAKLVRDAFALAKEKA-PTIIFIDELDAIGTKRFDS 283 (424)
T ss_pred HhhhhcchHHHHHHHHHHhhccC-CeEEEEechhhhccccccc
Confidence 65 56677888999999998655 8999999999999999864
No 30
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=99.50 E-value=1.4e-14 Score=150.68 Aligned_cols=111 Identities=23% Similarity=0.446 Sum_probs=89.5
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP- 425 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~- 425 (466)
.+...|++|+|.+..++.|...+.. +.++ ..+..|+++||||||||||||++|+++|+.++.+|+.++++++..
T Consensus 125 ~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~ 204 (389)
T PRK03992 125 SPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQK 204 (389)
T ss_pred CCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHh
Confidence 4566788999999999999886643 3322 122356789999999999999999999999999999999988753
Q ss_pred chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+.+++...++.+|..+.... ++||||||||.++++|.
T Consensus 205 ~~g~~~~~i~~~f~~a~~~~-p~IlfiDEiD~l~~~r~ 241 (389)
T PRK03992 205 FIGEGARLVRELFELAREKA-PSIIFIDEIDAIAAKRT 241 (389)
T ss_pred hccchHHHHHHHHHHHHhcC-CeEEEEechhhhhcccc
Confidence 44556678889999988655 79999999999987664
No 31
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=99.50 E-value=1.3e-14 Score=150.88 Aligned_cols=112 Identities=24% Similarity=0.408 Sum_probs=90.9
Q ss_pred cccccCCCCeeeCcchHHHHHHHHH-hhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAK-ATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~-~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~ 425 (466)
..+..+|+||.|.+..++.|...+. .+.++. .+..|++++|||||||||||++++++|+.++.+|+.+.++++..
T Consensus 138 ~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~ 217 (398)
T PTZ00454 138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ 217 (398)
T ss_pred CCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHH
Confidence 4567789999999999999988765 333322 22356799999999999999999999999999999998876543
Q ss_pred -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+.+++...++.+|..++... ++||||||||.++++|.
T Consensus 218 k~~ge~~~~lr~lf~~A~~~~-P~ILfIDEID~i~~~r~ 255 (398)
T PTZ00454 218 KYLGEGPRMVRDVFRLARENA-PSIIFIDEVDSIATKRF 255 (398)
T ss_pred HhcchhHHHHHHHHHHHHhcC-CeEEEEECHhhhccccc
Confidence 45566778899999998765 79999999999987763
No 32
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=99.49 E-value=1e-14 Score=147.36 Aligned_cols=102 Identities=28% Similarity=0.472 Sum_probs=80.6
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK 433 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~ 433 (466)
+.+|+++|||.++...-.-+.+.+....- .+++||||||||||++|+.|+...+..|..++... .++..
T Consensus 20 P~~lde~vGQ~HLlg~~~~lrr~v~~~~l-----~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~------~gvkd 88 (436)
T COG2256 20 PKSLDEVVGQEHLLGEGKPLRRAVEAGHL-----HSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT------SGVKD 88 (436)
T ss_pred CCCHHHhcChHhhhCCCchHHHHHhcCCC-----ceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc------ccHHH
Confidence 56789999999988554444334433333 37999999999999999999999999999988754 34678
Q ss_pred HHHHHhhhhhc---cCceEEEeccccccccccCCCC
Q 012305 434 IHEIFDWAKKS---KKGLLLFIDEADAFLCDNQDFI 466 (466)
Q Consensus 434 l~~lf~~A~~~---~~~~iLflDEid~l~~~r~~~l 466 (466)
++.+++.++.. ++..|||||||+.|....|++|
T Consensus 89 lr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l 124 (436)
T COG2256 89 LREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL 124 (436)
T ss_pred HHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhh
Confidence 88999888653 3469999999999998888765
No 33
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=99.47 E-value=3.6e-14 Score=158.85 Aligned_cols=110 Identities=25% Similarity=0.428 Sum_probs=91.9
Q ss_pred cccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
+...|++++|.+.++..|...+.. +.... .+..+++++|||||||||||++|++||..++.+|+.++++++.. +
T Consensus 448 ~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~ 527 (733)
T TIGR01243 448 PNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKW 527 (733)
T ss_pred cccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcc
Confidence 456789999999999999886653 22211 23456789999999999999999999999999999999988753 6
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.+++...++.+|..|+... ++||||||||.|+++|+
T Consensus 528 vGese~~i~~~f~~A~~~~-p~iifiDEid~l~~~r~ 563 (733)
T TIGR01243 528 VGESEKAIREIFRKARQAA-PAIIFFDEIDAIAPARG 563 (733)
T ss_pred cCcHHHHHHHHHHHHHhcC-CEEEEEEChhhhhccCC
Confidence 6778889999999999766 89999999999998775
No 34
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=2.1e-14 Score=152.65 Aligned_cols=111 Identities=23% Similarity=0.337 Sum_probs=92.2
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccc-----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANT-----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~-----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
.+..|+|+-|..++++.|.+++.+-... ..+.+-..+||||||||||||++|.+++..++..|+.+.|+.+.. +
T Consensus 662 tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~Ky 741 (952)
T KOG0735|consen 662 TGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKY 741 (952)
T ss_pred CCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHH
Confidence 3467899999999999999887653221 111122358999999999999999999999999999999998754 6
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.+.+...++.+|..|...+ +||||+||.|++.++|+.
T Consensus 742 IGaSEq~vR~lF~rA~~a~-PCiLFFDEfdSiAPkRGh 778 (952)
T KOG0735|consen 742 IGASEQNVRDLFERAQSAK-PCILFFDEFDSIAPKRGH 778 (952)
T ss_pred hcccHHHHHHHHHHhhccC-CeEEEeccccccCcccCC
Confidence 6788899999999999766 899999999999999974
No 35
>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]
Probab=99.45 E-value=1.8e-13 Score=130.35 Aligned_cols=106 Identities=23% Similarity=0.442 Sum_probs=82.8
Q ss_pred CCee-eCcchHHHHHHHHHhh-cccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhHH
Q 012305 358 GDII-LHPSLQRRIQHLAKAT-ANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQA 430 (466)
Q Consensus 358 ~~vV-g~~~~~~~l~~~~~~~-~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e~ 430 (466)
.++| |.+..++.+..++..- ..+. -+...++++|||||||||||++|++++.+.++.|+.++|+.+.. +.++.
T Consensus 146 YeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~igeg 225 (404)
T KOG0728|consen 146 YEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKYIGEG 225 (404)
T ss_pred HHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHHhhhh
Confidence 3444 4566666666665431 1111 11345689999999999999999999999999999999998764 66777
Q ss_pred HHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 431 VTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 431 ~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
...++.+|-.|+... ++|||+||||++...|.+
T Consensus 226 srmvrelfvmareha-psiifmdeidsigs~r~e 258 (404)
T KOG0728|consen 226 SRMVRELFVMAREHA-PSIIFMDEIDSIGSSRVE 258 (404)
T ss_pred HHHHHHHHHHHHhcC-CceEeeeccccccccccc
Confidence 888999999999766 899999999999887753
No 36
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=99.44 E-value=6.3e-14 Score=146.91 Aligned_cols=112 Identities=23% Similarity=0.407 Sum_probs=90.2
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~ 425 (466)
..+..+|+||.|.+..++.+..++.. +.++. .+..|++++|||||||||||++|++||+.++.+|+.+.++++..
T Consensus 176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~ 255 (438)
T PTZ00361 176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQ 255 (438)
T ss_pred cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhh
Confidence 34567889999999999999887653 33321 22356789999999999999999999999999999999888753
Q ss_pred -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+.++....++.+|..+.... ++||||||||.++.+|.
T Consensus 256 k~~Ge~~~~vr~lF~~A~~~~-P~ILfIDEID~l~~kR~ 293 (438)
T PTZ00361 256 KYLGDGPKLVRELFRVAEENA-PSIVFIDEIDAIGTKRY 293 (438)
T ss_pred hhcchHHHHHHHHHHHHHhCC-CcEEeHHHHHHHhccCC
Confidence 45566777899999998655 79999999999987764
No 37
>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=99.44 E-value=4.3e-13 Score=152.15 Aligned_cols=137 Identities=18% Similarity=0.191 Sum_probs=88.8
Q ss_pred ceehhhhhhhhhCCCccc-cccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhc
Q 012305 300 ARVTWGYVNRILGQPSLI-RESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA 378 (466)
Q Consensus 300 ~~~~~~~v~~~lg~p~lv-re~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~ 378 (466)
...+..+|.+|+|.|.-. ......+ +......+ -..|+|++.+++.|...+....
T Consensus 530 ~~~i~~v~~~~tgip~~~~~~~e~~~------l~~l~~~l------------------~~~v~GQ~~av~~v~~~i~~~~ 585 (852)
T TIGR03346 530 AEEIAEVVSRWTGIPVSKMLEGEREK------LLHMEEVL------------------HERVVGQDEAVEAVSDAIRRSR 585 (852)
T ss_pred HHHHHHHHHHhcCCCcccccHHHHHH------HHHHHHHh------------------hcccCCChHHHHHHHHHHHHHh
Confidence 456788899999999742 2111111 11111111 1458999999999988776654
Q ss_pred cc-cccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--------------chhHHHHHHHHHHhh
Q 012305 379 NT-KIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--------------LGAQAVTKIHEIFDW 440 (466)
Q Consensus 379 ~~-~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--------------~~~e~~~~l~~lf~~ 440 (466)
.. ..+..|..++||+||||||||++|++||..+ +.+++.++++.+.. .|.+..+ .+...
T Consensus 586 ~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~~~l~g~~~g~~g~~~~g---~l~~~ 662 (852)
T TIGR03346 586 AGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVARLIGAPPGYVGYEEGG---QLTEA 662 (852)
T ss_pred ccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchHHHhcCCCCCccCccccc---HHHHH
Confidence 32 3344566789999999999999999999987 45677777765422 1111112 23333
Q ss_pred hhhccCceEEEeccccccccccCC
Q 012305 441 AKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 441 A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.+ ..+++|||||||+.+.++-++
T Consensus 663 v~-~~p~~vlllDeieka~~~v~~ 685 (852)
T TIGR03346 663 VR-RKPYSVVLFDEVEKAHPDVFN 685 (852)
T ss_pred HH-cCCCcEEEEeccccCCHHHHH
Confidence 33 345899999999999876544
No 38
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=99.42 E-value=9.6e-14 Score=134.65 Aligned_cols=99 Identities=25% Similarity=0.416 Sum_probs=77.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK 433 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~ 433 (466)
+..|+++||++.+++.+.-++.... ..+-.+-|+|||||||.|||+||..+|+++|.++-..+|+.+.. .+.
T Consensus 22 P~~l~efiGQ~~vk~~L~ifI~AAk---~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK-----~gD 93 (332)
T COG2255 22 PKTLDEFIGQEKVKEQLQIFIKAAK---KRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEK-----PGD 93 (332)
T ss_pred cccHHHhcChHHHHHHHHHHHHHHH---hcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccC-----hhh
Confidence 5678999999999999987766543 33445678999999999999999999999999977777765532 234
Q ss_pred HHHHHhhhhhccCceEEEeccccccccccC
Q 012305 434 IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 434 l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+..++... .+++|||||||+.+.+...
T Consensus 94 laaiLt~L---e~~DVLFIDEIHrl~~~vE 120 (332)
T COG2255 94 LAAILTNL---EEGDVLFIDEIHRLSPAVE 120 (332)
T ss_pred HHHHHhcC---CcCCeEEEehhhhcChhHH
Confidence 44555544 4489999999999987543
No 39
>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=99.41 E-value=1.8e-13 Score=145.43 Aligned_cols=112 Identities=22% Similarity=0.374 Sum_probs=84.2
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCc----------ch
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD----------YA 416 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~----------~~ 416 (466)
.+..+|++|.|.+..++.+...+.. +.+. ..+..|++++|||||||||||++++++++.++.+ |+
T Consensus 176 ~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl 255 (512)
T TIGR03689 176 VPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFL 255 (512)
T ss_pred CCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEE
Confidence 3566899999999999999886543 2222 1223567899999999999999999999998654 33
Q ss_pred hhcCCCcc-cchhHHHHHHHHHHhhhhhc---cCceEEEeccccccccccC
Q 012305 417 MMTGGDVA-PLGAQAVTKIHEIFDWAKKS---KKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 417 ~v~~~~l~-~~~~e~~~~l~~lf~~A~~~---~~~~iLflDEid~l~~~r~ 463 (466)
.+.++++. .+.+++...++.+|+.++.. ..++||||||||.++++|+
T Consensus 256 ~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~ 306 (512)
T TIGR03689 256 NIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRG 306 (512)
T ss_pred eccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccC
Confidence 44454443 35567778889999888753 2479999999999998765
No 40
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=99.39 E-value=2e-13 Score=140.90 Aligned_cols=112 Identities=26% Similarity=0.439 Sum_probs=87.1
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~ 425 (466)
..+...|++++|.+..++.+...+.. +.+.. .+..|++++|||||||||||++|+++++.++.+|+.+.++++..
T Consensus 115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~ 194 (364)
T TIGR01242 115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVR 194 (364)
T ss_pred cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHH
Confidence 34566788999999999999886653 22221 22356789999999999999999999999999999888776543
Q ss_pred -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+.++....++.+|..++... ++||||||+|.++.++.
T Consensus 195 ~~~g~~~~~i~~~f~~a~~~~-p~il~iDEiD~l~~~~~ 232 (364)
T TIGR01242 195 KYIGEGARLVREIFELAKEKA-PSIIFIDEIDAIAAKRT 232 (364)
T ss_pred HhhhHHHHHHHHHHHHHHhcC-CcEEEhhhhhhhccccc
Confidence 34455667888999887655 78999999999986654
No 41
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=1.7e-13 Score=134.12 Aligned_cols=110 Identities=23% Similarity=0.396 Sum_probs=89.7
Q ss_pred cccCCCCeeeCcchHHHHHHHHH-hhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAK-ATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~-~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
...+|+++-|.-.....+++.+. .+.++. -+..||.+++||||||||||++|++++..+|.+|+.+..+.+.. +
T Consensus 127 ~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~ky 206 (388)
T KOG0651|consen 127 RNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKY 206 (388)
T ss_pred cccCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhh
Confidence 34578888777777777766443 233322 24568899999999999999999999999999999999888765 7
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.+++...+++.|..|+..- +||||+||||+..+.+.
T Consensus 207 iGEsaRlIRemf~yA~~~~-pciifmdeiDAigGRr~ 242 (388)
T KOG0651|consen 207 IGESARLIRDMFRYAREVI-PCIIFMDEIDAIGGRRF 242 (388)
T ss_pred cccHHHHHHHHHHHHhhhC-ceEEeehhhhhhccEEe
Confidence 7789999999999999766 79999999999988764
No 42
>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=99.38 E-value=3.4e-13 Score=117.39 Aligned_cols=73 Identities=38% Similarity=0.650 Sum_probs=65.1
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
||||||||||||++++.+++.++.+|+.++++.+. .+..+....+..+|..+.....++||||||+|.+..+.
T Consensus 1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~ 74 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKS 74 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHC
T ss_pred CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccc
Confidence 68999999999999999999999999999999886 46677888999999998766546999999999998765
No 43
>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=99.38 E-value=2.8e-13 Score=133.42 Aligned_cols=100 Identities=24% Similarity=0.265 Sum_probs=72.7
Q ss_pred CCCeeeCcchHHHHHHHHHhhcccc-------ccccccccccccCCCCCCchHHHHHHHHhh-------CCcchhhcCCC
Q 012305 357 NGDIILHPSLQRRIQHLAKATANTK-------IHQAPFRNMLFYGPPGTGKTMVAREIARKS-------GLDYAMMTGGD 422 (466)
Q Consensus 357 l~~vVg~~~~~~~l~~~~~~~~~~~-------~~~~p~~~vLl~GppGTGKT~lA~alA~~l-------~~~~~~v~~~~ 422 (466)
++++||.+.++..|..+........ .......|+|||||||||||++|+.+++.+ ..+|+.+++++
T Consensus 5 l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~ 84 (261)
T TIGR02881 5 LSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERAD 84 (261)
T ss_pred HHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHH
Confidence 4779999999999998776643321 111223589999999999999999999875 23456666665
Q ss_pred ccc-chhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305 423 VAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 423 l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
+.. +.++....+.++|..+. ++||||||||.|..
T Consensus 85 l~~~~~g~~~~~~~~~~~~a~----~~VL~IDE~~~L~~ 119 (261)
T TIGR02881 85 LVGEYIGHTAQKTREVIKKAL----GGVLFIDEAYSLAR 119 (261)
T ss_pred hhhhhccchHHHHHHHHHhcc----CCEEEEechhhhcc
Confidence 532 34455667778887764 68999999999864
No 44
>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=99.37 E-value=2.8e-12 Score=144.93 Aligned_cols=136 Identities=16% Similarity=0.172 Sum_probs=86.7
Q ss_pred ceehhhhhhhhhCCCcc-ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhc
Q 012305 300 ARVTWGYVNRILGQPSL-IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA 378 (466)
Q Consensus 300 ~~~~~~~v~~~lg~p~l-vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~ 378 (466)
...+..+|.+|+|.|.- +......+ +......+ -..|+|+++++..|...+....
T Consensus 531 ~~~i~~vv~~~tgip~~~~~~~e~~~------l~~l~~~L------------------~~~v~GQ~~Av~~v~~~i~~~~ 586 (852)
T TIGR03345 531 AQAVAEVVADWTGIPVGRMVRDEIEA------VLSLPDRL------------------AERVIGQDHALEAIAERIRTAR 586 (852)
T ss_pred HHHHHHHHHHHHCCCchhhchhHHHH------HHHHHHHh------------------cCeEcChHHHHHHHHHHHHHHh
Confidence 45688899999999983 22111111 11111111 1459999999999988665543
Q ss_pred c-ccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc--------------ccchhHHHHHHHHHHhh
Q 012305 379 N-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV--------------APLGAQAVTKIHEIFDW 440 (466)
Q Consensus 379 ~-~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l--------------~~~~~e~~~~l~~lf~~ 440 (466)
. ...+..|...+||+||||||||.+|++||..+ +..|+.++++++ ++.|....+.+ .+.
T Consensus 587 ~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~g~~~gyvg~~~~g~L---~~~ 663 (852)
T TIGR03345 587 AGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLKGSPPGYVGYGEGGVL---TEA 663 (852)
T ss_pred cCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhccccCCCCCcccccccchH---HHH
Confidence 3 23344565679999999999999999999988 335566665443 22232222222 333
Q ss_pred hhhccCceEEEeccccccccccC
Q 012305 441 AKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 441 A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.++ .|++||||||||.+.+...
T Consensus 664 v~~-~p~svvllDEieka~~~v~ 685 (852)
T TIGR03345 664 VRR-KPYSVVLLDEVEKAHPDVL 685 (852)
T ss_pred HHh-CCCcEEEEechhhcCHHHH
Confidence 333 5689999999999887644
No 45
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=99.33 E-value=1.1e-12 Score=146.92 Aligned_cols=111 Identities=25% Similarity=0.472 Sum_probs=89.5
Q ss_pred cccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L 426 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~ 426 (466)
+..+|++|+|.+..++.+..++.. +.++. ....|++++|||||||||||+++++||+.++.+|+.++++++.. +
T Consensus 173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~ 252 (733)
T TIGR01243 173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKY 252 (733)
T ss_pred CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhccc
Confidence 456889999999999999887654 22221 22356689999999999999999999999999999999887643 4
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.+++...++.+|+.+.... ++||||||||.+.++++.
T Consensus 253 ~g~~~~~l~~lf~~a~~~~-p~il~iDEid~l~~~r~~ 289 (733)
T TIGR01243 253 YGESEERLREIFKEAEENA-PSIIFIDEIDAIAPKREE 289 (733)
T ss_pred ccHHHHHHHHHHHHHHhcC-CcEEEeehhhhhcccccC
Confidence 4566778999999988655 789999999999887653
No 46
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.28 E-value=3.1e-12 Score=131.98 Aligned_cols=111 Identities=25% Similarity=0.416 Sum_probs=91.9
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhcc-c---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATAN-T---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG 427 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~-~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~ 427 (466)
....|+|+-|...++..+...+.+... + ..-..|.+++||.||||||||+++++||.+++..|+.++.+.+.. +.
T Consensus 148 ~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK~~ 227 (428)
T KOG0740|consen 148 RNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSKYV 227 (428)
T ss_pred CcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhhcc
Confidence 345688999988998888775544221 1 122456789999999999999999999999999999999998875 77
Q ss_pred hHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
+++...++.+|..|+... ++|+||||||.++.+|.+
T Consensus 228 Ge~eK~vralf~vAr~~q-PsvifidEidslls~Rs~ 263 (428)
T KOG0740|consen 228 GESEKLVRALFKVARSLQ-PSVIFIDEIDSLLSKRSD 263 (428)
T ss_pred ChHHHHHHHHHHHHHhcC-CeEEEechhHHHHhhcCC
Confidence 788899999999999655 899999999999998854
No 47
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=99.26 E-value=2.5e-12 Score=143.12 Aligned_cols=136 Identities=18% Similarity=0.194 Sum_probs=90.7
Q ss_pred eehhhhhhhhhCCCccc-cccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcc
Q 012305 301 RVTWGYVNRILGQPSLI-RESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATAN 379 (466)
Q Consensus 301 ~~~~~~v~~~lg~p~lv-re~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~ 379 (466)
..+..++.+|+|.|... ...... .+......+ -..|||++++++.|...+.....
T Consensus 424 ~~i~~v~~~~tgip~~~~~~~~~~------~l~~l~~~L------------------~~~ViGQ~~ai~~l~~~i~~~~~ 479 (758)
T PRK11034 424 ADIESVVARIARIPEKSVSQSDRD------TLKNLGDRL------------------KMLVFGQDKAIEALTEAIKMSRA 479 (758)
T ss_pred hhHHHHHHHHhCCChhhhhhhHHH------HHHHHHHHh------------------cceEeCcHHHHHHHHHHHHHHhc
Confidence 56788899999999842 221110 111111111 13589999999999887765433
Q ss_pred c-cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc--------------chhHHHHHHHHHHhhhhhc
Q 012305 380 T-KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP--------------LGAQAVTKIHEIFDWAKKS 444 (466)
Q Consensus 380 ~-~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~--------------~~~e~~~~l~~lf~~A~~~ 444 (466)
. ..+..|..++||+||||||||++|+.||..++.+|+.++|+++.. .|.+..+ .+.+..+ .
T Consensus 480 gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~~gyvg~~~~g---~L~~~v~-~ 555 (758)
T PRK11034 480 GLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGG---LLTDAVI-K 555 (758)
T ss_pred cccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCCCCcccccccc---hHHHHHH-h
Confidence 2 233556678999999999999999999999999999998877532 1111111 2223333 3
Q ss_pred cCceEEEeccccccccccCC
Q 012305 445 KKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 445 ~~~~iLflDEid~l~~~r~~ 464 (466)
.+++||||||||.+.++.++
T Consensus 556 ~p~sVlllDEieka~~~v~~ 575 (758)
T PRK11034 556 HPHAVLLLDEIEKAHPDVFN 575 (758)
T ss_pred CCCcEEEeccHhhhhHHHHH
Confidence 45899999999999876543
No 48
>CHL00181 cbbX CbbX; Provisional
Probab=99.26 E-value=2.6e-12 Score=128.32 Aligned_cols=99 Identities=29% Similarity=0.359 Sum_probs=68.6
Q ss_pred CCeeeCcchHHHHHHHHHhhcccc-------ccccccccccccCCCCCCchHHHHHHHHhh---C----CcchhhcCCCc
Q 012305 358 GDIILHPSLQRRIQHLAKATANTK-------IHQAPFRNMLFYGPPGTGKTMVAREIARKS---G----LDYAMMTGGDV 423 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~~-------~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~----~~~~~v~~~~l 423 (466)
.+++|.+.+++.|..++..+.... ....+..|+||+||||||||++|++++..+ | .+|+.++++++
T Consensus 23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l 102 (287)
T CHL00181 23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDL 102 (287)
T ss_pred HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHH
Confidence 369999999999988765432211 111233479999999999999999998876 2 24666666554
Q ss_pred cc-chhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305 424 AP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 424 ~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
.. +.+++.....++|+.+. ++||||||+|.|..
T Consensus 103 ~~~~~g~~~~~~~~~l~~a~----ggVLfIDE~~~l~~ 136 (287)
T CHL00181 103 VGQYIGHTAPKTKEVLKKAM----GGVLFIDEAYYLYK 136 (287)
T ss_pred HHHHhccchHHHHHHHHHcc----CCEEEEEccchhcc
Confidence 32 33334445566777653 68999999999854
No 49
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=99.25 E-value=3.1e-12 Score=127.58 Aligned_cols=104 Identities=30% Similarity=0.494 Sum_probs=73.8
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc---chhhcCCCcccchh
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD---YAMMTGGDVAPLGA 428 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~---~~~v~~~~l~~~~~ 428 (466)
-.+++|+|+||++++... ..++..+-. .+..| +++|+||||||||++|+.|+..+..+ |+.++...
T Consensus 132 mRPktL~dyvGQ~hlv~q-~gllrs~ie--q~~ip--SmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~------ 200 (554)
T KOG2028|consen 132 MRPKTLDDYVGQSHLVGQ-DGLLRSLIE--QNRIP--SMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATN------ 200 (554)
T ss_pred cCcchHHHhcchhhhcCc-chHHHHHHH--cCCCC--ceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccc------
Confidence 346688999999988766 333333222 12223 89999999999999999999988554 55554432
Q ss_pred HHHHHHHHHHhhhhh----ccCceEEEeccccccccccCCCC
Q 012305 429 QAVTKIHEIFDWAKK----SKKGLLLFIDEADAFLCDNQDFI 466 (466)
Q Consensus 429 e~~~~l~~lf~~A~~----~~~~~iLflDEid~l~~~r~~~l 466 (466)
.....++++|+.+.+ .++..|||||||+.|...+|+.|
T Consensus 201 a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNksQQD~f 242 (554)
T KOG2028|consen 201 AKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQDTF 242 (554)
T ss_pred cchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhhhhhcc
Confidence 124567788877765 34568999999999988877754
No 50
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=99.25 E-value=4.8e-12 Score=131.05 Aligned_cols=104 Identities=24% Similarity=0.340 Sum_probs=87.1
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--c
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--L 426 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--~ 426 (466)
.....+.+|||.+..+..+.+.+..++.++.+ |||+|++||||..+|++|+..+ +.||+.+||+.++. .
T Consensus 217 ~~~~~~~~iIG~S~am~~ll~~i~~VA~Sd~t------VLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLl 290 (550)
T COG3604 217 EVVLEVGGIIGRSPAMRQLLKEIEVVAKSDST------VLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLL 290 (550)
T ss_pred chhcccccceecCHHHHHHHHHHHHHhcCCCe------EEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchHHH
Confidence 33567789999999999999999999998887 9999999999999999999999 68999999999987 3
Q ss_pred hhHHHHHHHHHHhhhhhccC-------ceEEEeccccccccc
Q 012305 427 GAQAVTKIHEIFDWAKKSKK-------GLLLFIDEADAFLCD 461 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~-------~~iLflDEid~l~~~ 461 (466)
.++.++..++.|..|-..++ |++||||||+.|...
T Consensus 291 ESELFGHeKGAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~ 332 (550)
T COG3604 291 ESELFGHEKGAFTGAINTRRGRFELADGGTLFLDEIGELPLA 332 (550)
T ss_pred HHHHhcccccccccchhccCcceeecCCCeEechhhccCCHH
Confidence 44456666777766654333 599999999998653
No 51
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=6e-12 Score=130.50 Aligned_cols=113 Identities=19% Similarity=0.348 Sum_probs=79.9
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhcccc--------cccccc-ccccccCCCCCCchHHHHHHHHhhCC-cchhhcCC
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTK--------IHQAPF-RNMLFYGPPGTGKTMVAREIARKSGL-DYAMMTGG 421 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~--------~~~~p~-~~vLl~GppGTGKT~lA~alA~~l~~-~~~~v~~~ 421 (466)
++...|+++ |-..+.+....+-+..-..+ .-+.++ +++|||||||||||++||.|...++. +--+|||+
T Consensus 213 ~Pdf~Fe~m-GIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGP 291 (744)
T KOG0741|consen 213 NPDFNFESM-GIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGP 291 (744)
T ss_pred CCCCChhhc-ccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcH
Confidence 445556655 44555555554333211111 112333 78999999999999999999999963 45678998
Q ss_pred Cccc-chhHHHHHHHHHHhhhhh-------ccCceEEEeccccccccccCCC
Q 012305 422 DVAP-LGAQAVTKIHEIFDWAKK-------SKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 422 ~l~~-~~~e~~~~l~~lf~~A~~-------~~~~~iLflDEid~l~~~r~~~ 465 (466)
.+.. +.+++..+++++|..|.. ...-.||++||||+++..|++.
T Consensus 292 eIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~ 343 (744)
T KOG0741|consen 292 EILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSM 343 (744)
T ss_pred HHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCC
Confidence 8765 888999999999988764 1113899999999999888753
No 52
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=99.24 E-value=3.7e-12 Score=133.39 Aligned_cols=104 Identities=28% Similarity=0.313 Sum_probs=84.9
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc-
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL- 426 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~- 426 (466)
....++|++|||.+..+..+...+...+.++++ |||+|++||||.+||++|++.+ +.||+.+||+.+++.
T Consensus 238 ~~a~y~f~~Iig~S~~m~~~~~~akr~A~tdst------VLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~L 311 (560)
T COG3829 238 LKAKYTFDDIIGESPAMLRVLELAKRIAKTDST------VLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETL 311 (560)
T ss_pred cccccchhhhccCCHHHHHHHHHHHhhcCCCCc------EEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCHHH
Confidence 566789999999999999999988888887776 9999999999999999999999 689999999999873
Q ss_pred -hhHHHHHHHHHHhhhhhc-c-------CceEEEecccccccc
Q 012305 427 -GAQAVTKIHEIFDWAKKS-K-------KGLLLFIDEADAFLC 460 (466)
Q Consensus 427 -~~e~~~~l~~lf~~A~~~-~-------~~~iLflDEid~l~~ 460 (466)
.++.++...+.|..|.+. + .+++||||||+.|..
T Consensus 312 lESELFGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl 354 (560)
T COG3829 312 LESELFGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPL 354 (560)
T ss_pred HHHHHhCcCCccccccccCCCCcceeeccCCeEEehhhccCCH
Confidence 333345555555555542 1 159999999999864
No 53
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=99.24 E-value=3.7e-12 Score=129.58 Aligned_cols=98 Identities=24% Similarity=0.407 Sum_probs=72.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK 433 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~ 433 (466)
+..|+++||++...+.+..++...... +.++.++|||||||||||++|+.+|+.++.++..++++.+.. ...
T Consensus 21 P~~~~~~vG~~~~~~~l~~~l~~~~~~---~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~-----~~~ 92 (328)
T PRK00080 21 PKSLDEFIGQEKVKENLKIFIEAAKKR---GEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEK-----PGD 92 (328)
T ss_pred cCCHHHhcCcHHHHHHHHHHHHHHHhc---CCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccC-----hHH
Confidence 447899999999999988776554322 345678999999999999999999999998877766654322 223
Q ss_pred HHHHHhhhhhccCceEEEecccccccccc
Q 012305 434 IHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 434 l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
+..++... ..+++|||||||.+....
T Consensus 93 l~~~l~~l---~~~~vl~IDEi~~l~~~~ 118 (328)
T PRK00080 93 LAAILTNL---EEGDVLFIDEIHRLSPVV 118 (328)
T ss_pred HHHHHHhc---ccCCEEEEecHhhcchHH
Confidence 44444433 347899999999986543
No 54
>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=99.24 E-value=5.8e-12 Score=125.72 Aligned_cols=98 Identities=32% Similarity=0.369 Sum_probs=71.5
Q ss_pred CeeeCcchHHHHHHHHHhhcccc-------ccccccccccccCCCCCCchHHHHHHHHhhC-------CcchhhcCCCcc
Q 012305 359 DIILHPSLQRRIQHLAKATANTK-------IHQAPFRNMLFYGPPGTGKTMVAREIARKSG-------LDYAMMTGGDVA 424 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~~~~~~-------~~~~p~~~vLl~GppGTGKT~lA~alA~~l~-------~~~~~v~~~~l~ 424 (466)
++||..++++.|..++..+.... ....|..|+||+||||||||++|++++..+. .+|+.++++++.
T Consensus 23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~ 102 (284)
T TIGR02880 23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV 102 (284)
T ss_pred hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence 68999999999988776543321 1122445899999999999999999987762 257777776653
Q ss_pred c-chhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305 425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
. +.+++...+.++|+.+. ++|||||||+.|.+
T Consensus 103 ~~~~g~~~~~~~~~~~~a~----~gvL~iDEi~~L~~ 135 (284)
T TIGR02880 103 GQYIGHTAPKTKEILKRAM----GGVLFIDEAYYLYR 135 (284)
T ss_pred HhhcccchHHHHHHHHHcc----CcEEEEechhhhcc
Confidence 2 33344556677888764 68999999998853
No 55
>CHL00206 ycf2 Ycf2; Provisional
Probab=99.23 E-value=5.1e-12 Score=146.95 Aligned_cols=77 Identities=18% Similarity=0.273 Sum_probs=63.8
Q ss_pred cccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccc--------------------------------------
Q 012305 385 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL-------------------------------------- 426 (466)
Q Consensus 385 ~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~-------------------------------------- 426 (466)
.|++||||+||||||||++|++||.+++.||+.|+++++...
T Consensus 1628 ~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~~n~ 1707 (2281)
T CHL00206 1628 SPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMNA 1707 (2281)
T ss_pred CCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhhcch
Confidence 567899999999999999999999999999999988776421
Q ss_pred ----hhHHHH--HHHHHHhhhhhccCceEEEecccccccccc
Q 012305 427 ----GAQAVT--KIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 427 ----~~e~~~--~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
.+.+++ .++.+|+.|+... ||||||||||++..+.
T Consensus 1708 ~~~~m~~~e~~~rIr~lFelARk~S-PCIIFIDEIDaL~~~d 1748 (2281)
T CHL00206 1708 LTMDMMPKIDRFYITLQFELAKAMS-PCIIWIPNIHDLNVNE 1748 (2281)
T ss_pred hhhhhhhhhhHHHHHHHHHHHHHCC-CeEEEEEchhhcCCCc
Confidence 111222 3889999999877 8999999999998653
No 56
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=99.23 E-value=4.9e-12 Score=139.38 Aligned_cols=110 Identities=24% Similarity=0.391 Sum_probs=88.6
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGA 428 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~ 428 (466)
...|+++.|.+...+++.+++.....+.. ....++++||+||||||||+++++++..++.+|+.++++++.. +.+
T Consensus 148 ~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g 227 (644)
T PRK10733 148 KTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVG 227 (644)
T ss_pred hCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhc
Confidence 45678899999999999988877654322 2244578999999999999999999999999999999987654 334
Q ss_pred HHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.....++.+|..+.... ++||||||||.+..+|+.
T Consensus 228 ~~~~~~~~~f~~a~~~~-P~IifIDEiD~l~~~r~~ 262 (644)
T PRK10733 228 VGASRVRDMFEQAKKAA-PCIIFIDEIDAVGRQRGA 262 (644)
T ss_pred ccHHHHHHHHHHHHhcC-CcEEEehhHhhhhhccCC
Confidence 45667889999987655 799999999999877653
No 57
>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=99.21 E-value=6.3e-12 Score=126.22 Aligned_cols=96 Identities=26% Similarity=0.427 Sum_probs=69.0
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHH
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIH 435 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~ 435 (466)
+|+++||+++.+..|..++...... ..++.++|||||||||||++|+.+|+.++.++..+.++.+.. ...+.
T Consensus 2 ~~~~~iG~~~~~~~l~~~l~~~~~~---~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~-----~~~l~ 73 (305)
T TIGR00635 2 LLAEFIGQEKVKEQLQLFIEAAKMR---QEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK-----PGDLA 73 (305)
T ss_pred CHHHHcCHHHHHHHHHHHHHHHHhc---CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcC-----chhHH
Confidence 5789999999999988776543322 233467999999999999999999999988766655543322 12233
Q ss_pred HHHhhhhhccCceEEEecccccccccc
Q 012305 436 EIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 436 ~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
..+.. ...+++||||||+.+..+.
T Consensus 74 ~~l~~---~~~~~vl~iDEi~~l~~~~ 97 (305)
T TIGR00635 74 AILTN---LEEGDVLFIDEIHRLSPAV 97 (305)
T ss_pred HHHHh---cccCCEEEEehHhhhCHHH
Confidence 33333 2347899999999987654
No 58
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=99.21 E-value=4.7e-12 Score=124.17 Aligned_cols=103 Identities=21% Similarity=0.297 Sum_probs=67.3
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC------cchhhcCCCccc--
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL------DYAMMTGGDVAP-- 425 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~------~~~~v~~~~l~~-- 425 (466)
+++|++++|++.++..|...+.. ...| |+|||||||||||++|+++++.+.. .++..+.++--.
T Consensus 32 Pkt~de~~gQe~vV~~L~~a~~~------~~lp--~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis 103 (346)
T KOG0989|consen 32 PKTFDELAGQEHVVQVLKNALLR------RILP--HYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS 103 (346)
T ss_pred CCcHHhhcchHHHHHHHHHHHhh------cCCc--eEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc
Confidence 56789999999999998765333 1233 7999999999999999999999844 345555544321
Q ss_pred chhHHHHHHHHHHhhh-----hhccCceEEEeccccccccccCC
Q 012305 426 LGAQAVTKIHEIFDWA-----KKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 426 ~~~e~~~~l~~lf~~A-----~~~~~~~iLflDEid~l~~~r~~ 464 (466)
++.+......++...- ..++++.|+||||+|.|..+.+.
T Consensus 104 vvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~ 147 (346)
T KOG0989|consen 104 VVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQA 147 (346)
T ss_pred chhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHH
Confidence 1222111111111111 12455689999999999876543
No 59
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=99.19 E-value=2.9e-11 Score=126.27 Aligned_cols=102 Identities=19% Similarity=0.318 Sum_probs=71.1
Q ss_pred eeeCcchHHHHHHHHH----hhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---chh
Q 012305 360 IILHPSLQRRIQHLAK----ATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---LGA 428 (466)
Q Consensus 360 vVg~~~~~~~l~~~~~----~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---~~~ 428 (466)
|||++.+++.|...+. .+.... ....+..||||+||||||||++|++||..++.+|+.+++..+.. .|.
T Consensus 73 ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG~ 152 (412)
T PRK05342 73 VIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGE 152 (412)
T ss_pred eeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcccc
Confidence 8999999998865431 121111 11124478999999999999999999999999999999987653 232
Q ss_pred HHHHHHHHHHhhhh---hccCceEEEeccccccccc
Q 012305 429 QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 429 e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~ 461 (466)
+....+..++..+. ....++||||||||.+.++
T Consensus 153 d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~ 188 (412)
T PRK05342 153 DVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARK 188 (412)
T ss_pred hHHHHHHHHHHhccccHHHcCCcEEEEechhhhccc
Confidence 23333444443211 1124799999999999875
No 60
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=99.18 E-value=5.9e-12 Score=116.11 Aligned_cols=94 Identities=23% Similarity=0.342 Sum_probs=68.1
Q ss_pred eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--HH---
Q 012305 360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--AV--- 431 (466)
Q Consensus 360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~~--- 431 (466)
+||.+..+..+.+.+..+.....+ |||+|++||||+++|++|+..+ +.||+.|+|+.+.+...+ -+
T Consensus 1 liG~s~~m~~~~~~~~~~a~~~~p------VlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~ 74 (168)
T PF00158_consen 1 LIGESPAMKRLREQAKRAASSDLP------VLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHE 74 (168)
T ss_dssp SS--SHHHHHHHHHHHHHTTSTS-------EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBC
T ss_pred CEeCCHHHHHHHHHHHHHhCCCCC------EEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccc
Confidence 578888888888888777766544 9999999999999999999988 579999999988542111 01
Q ss_pred --------HHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 432 --------TKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 432 --------~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
....++|+.|. +++||||||+.|...-|
T Consensus 75 ~~~~~~~~~~~~G~l~~A~----~GtL~Ld~I~~L~~~~Q 110 (168)
T PF00158_consen 75 KGAFTGARSDKKGLLEQAN----GGTLFLDEIEDLPPELQ 110 (168)
T ss_dssp SSSSTTTSSEBEHHHHHTT----TSEEEEETGGGS-HHHH
T ss_pred cccccccccccCCceeecc----ceEEeecchhhhHHHHH
Confidence 11236777665 79999999999986543
No 61
>PRK13342 recombination factor protein RarA; Reviewed
Probab=99.18 E-value=8.8e-12 Score=130.79 Aligned_cols=96 Identities=26% Similarity=0.475 Sum_probs=70.3
Q ss_pred ccCCCCeeeCcchHHH---HHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHH
Q 012305 354 IKNNGDIILHPSLQRR---IQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA 430 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~---l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~ 430 (466)
+.+|+++||+++++.. +..++ .... ..++||+||||||||++|+.|++.++.+|+.+++... .
T Consensus 8 P~~l~d~vGq~~~v~~~~~L~~~i---~~~~-----~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~------~ 73 (413)
T PRK13342 8 PKTLDEVVGQEHLLGPGKPLRRMI---EAGR-----LSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS------G 73 (413)
T ss_pred CCCHHHhcCcHHHhCcchHHHHHH---HcCC-----CceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc------c
Confidence 4578999999998766 55443 2221 2379999999999999999999999999998887643 1
Q ss_pred HHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305 431 VTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 431 ~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~ 463 (466)
...++.+++.+.. .+.+.||||||||.|....+
T Consensus 74 ~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~~~q 109 (413)
T PRK13342 74 VKDLREVIEEARQRRSAGRRTILFIDEIHRFNKAQQ 109 (413)
T ss_pred HHHHHHHHHHHHHhhhcCCceEEEEechhhhCHHHH
Confidence 3345555555532 22478999999999876544
No 62
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=99.17 E-value=1.7e-11 Score=137.26 Aligned_cols=103 Identities=18% Similarity=0.253 Sum_probs=74.0
Q ss_pred CCeeeCcchHHHHHHHHHhhccc-cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-----------
Q 012305 358 GDIILHPSLQRRIQHLAKATANT-KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------- 425 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~-~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------- 425 (466)
..|+|++.+++.|...+...... ..+..|..++||+||||||||++|++||..++.+++.++++++..
T Consensus 454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~ 533 (731)
T TIGR02639 454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAP 533 (731)
T ss_pred cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCC
Confidence 45899999999988766654332 233456667999999999999999999999998888888766421
Q ss_pred ---chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 426 ---LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 426 ---~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.|.+..+. +.+..+ ..+++||||||||.+.++-.+
T Consensus 534 ~gyvg~~~~~~---l~~~~~-~~p~~VvllDEieka~~~~~~ 571 (731)
T TIGR02639 534 PGYVGFEQGGL---LTEAVR-KHPHCVLLLDEIEKAHPDIYN 571 (731)
T ss_pred CCCcccchhhH---HHHHHH-hCCCeEEEEechhhcCHHHHH
Confidence 22222222 333333 355899999999999876543
No 63
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=99.17 E-value=3.5e-10 Score=127.49 Aligned_cols=101 Identities=21% Similarity=0.214 Sum_probs=71.6
Q ss_pred CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------ch
Q 012305 358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LG 427 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~ 427 (466)
.+++|++.+++++...+......... ...++||+||||||||++|++||+.++.+|+.++++.+.. +.
T Consensus 320 ~~~~G~~~~k~~i~~~~~~~~~~~~~--~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~~~~~ 397 (775)
T TIGR00763 320 EDHYGLKKVKERILEYLAVQKLRGKM--KGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYV 397 (775)
T ss_pred hhcCChHHHHHHHHHHHHHHHhhcCC--CCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCCCcee
Confidence 35889999999988755433221111 1137999999999999999999999999999888765421 12
Q ss_pred hHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
+...+.+...|..+...+ .||||||||.+.++.
T Consensus 398 g~~~g~i~~~l~~~~~~~--~villDEidk~~~~~ 430 (775)
T TIGR00763 398 GAMPGRIIQGLKKAKTKN--PLFLLDEIDKIGSSF 430 (775)
T ss_pred CCCCchHHHHHHHhCcCC--CEEEEechhhcCCcc
Confidence 223445566777665433 499999999998653
No 64
>PRK04195 replication factor C large subunit; Provisional
Probab=99.16 E-value=3.3e-11 Score=128.83 Aligned_cols=98 Identities=22% Similarity=0.377 Sum_probs=73.6
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK 433 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~ 433 (466)
+..|+++||++..+..|..++.... .+.|++++|||||||||||++|++||+.++.+++.+++++.... ..
T Consensus 10 P~~l~dlvg~~~~~~~l~~~l~~~~----~g~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~-----~~ 80 (482)
T PRK04195 10 PKTLSDVVGNEKAKEQLREWIESWL----KGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTA-----DV 80 (482)
T ss_pred CCCHHHhcCCHHHHHHHHHHHHHHh----cCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccH-----HH
Confidence 4468899999999999988776544 23456789999999999999999999999999999998875321 12
Q ss_pred HHHHHhhhhh----c-cCceEEEecccccccc
Q 012305 434 IHEIFDWAKK----S-KKGLLLFIDEADAFLC 460 (466)
Q Consensus 434 l~~lf~~A~~----~-~~~~iLflDEid~l~~ 460 (466)
+..+...+.. . .++.||||||+|.|..
T Consensus 81 i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~ 112 (482)
T PRK04195 81 IERVAGEAATSGSLFGARRKLILLDEVDGIHG 112 (482)
T ss_pred HHHHHHHhhccCcccCCCCeEEEEecCccccc
Confidence 2222222221 1 2468999999999976
No 65
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=1.8e-11 Score=135.96 Aligned_cols=203 Identities=18% Similarity=0.186 Sum_probs=132.5
Q ss_pred HHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhcccccccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccc
Q 012305 197 QIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDR 276 (466)
Q Consensus 197 ~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~~~~~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~ 276 (466)
..+++...|..++..+++..-.+...++... +...++.+|+.. +.++++..++ ++....+ .|.
T Consensus 461 ~~~~l~~~~~~~~s~~~~l~~~~~~~~~~~~-~~k~~r~~d~~~------~~~l~~~~~p--------~~~~~~~--~~~ 523 (898)
T KOG1051|consen 461 TQQPLSASVDSERSVIEELKLKKNSLDRNSL-LAKAHRPNDYTR------ETDLRYGRIP--------DELSEKS--NDN 523 (898)
T ss_pred ccccchhhhccchhHHhhhccccCCcccchh-hhcccCCCCcch------hhhccccccc--------hhhhhhc--ccc
Confidence 3456778888888888888888888888877 777777888877 3356666554 1111111 111
Q ss_pred cceeeeechhhhhhhheeecccCceehhhhhhhhhCCCcccc-ccccCCCchhhhhHHHHHHhhhccccccccCcccccc
Q 012305 277 NKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIR-ESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIK 355 (466)
Q Consensus 277 ~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~p~lvr-e~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (466)
.. +...+...+.+|+|+|.... +..+.++ ..+...+.
T Consensus 524 ~~--------------------~~~~i~~~~s~~tgip~~~~~~~e~~~l---~~L~~~L~------------------- 561 (898)
T KOG1051|consen 524 QG--------------------GESDISEVVSRWTGIPVDRLAEAEAERL---KKLEERLH------------------- 561 (898)
T ss_pred cC--------------------CccchhhhhhhhcCCchhhhhhhHHHHH---HHHHHHHH-------------------
Confidence 11 35567888999999998433 2222222 12222222
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC----------
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD---------- 422 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~---------- 422 (466)
..|+||.+++..|...+...........|...+||.||+|+|||-+|++||..+ ...|+.++.+.
T Consensus 562 --~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evskligs 639 (898)
T KOG1051|consen 562 --ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSKLIGS 639 (898)
T ss_pred --hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhhccCC
Confidence 349999999999998877766543332567889999999999999999999998 23344444442
Q ss_pred -cccchhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 423 -VAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 423 -l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.++.|.+..+. +.+..+ .+|++||||||||...+.-++
T Consensus 640 p~gyvG~e~gg~---Lteavr-rrP~sVVLfdeIEkAh~~v~n 678 (898)
T KOG1051|consen 640 PPGYVGKEEGGQ---LTEAVK-RRPYSVVLFEEIEKAHPDVLN 678 (898)
T ss_pred CcccccchhHHH---HHHHHh-cCCceEEEEechhhcCHHHHH
Confidence 23345444443 444444 566999999999987765443
No 66
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=6.2e-11 Score=121.90 Aligned_cols=101 Identities=21% Similarity=0.310 Sum_probs=79.1
Q ss_pred ccccCCCCeeeCcchHHHHHH-HHHhhcccc---cccccc-ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccc
Q 012305 352 EAIKNNGDIILHPSLQRRIQH-LAKATANTK---IHQAPF-RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL 426 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~-~~~~~~~~~---~~~~p~-~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~ 426 (466)
..+.+|+.++..+++++.|.+ +..++.... .-+.|+ |++|||||||||||+++-++|++++++++.+....+...
T Consensus 195 ~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n 274 (457)
T KOG0743|consen 195 PHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLD 274 (457)
T ss_pred CCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCc
Confidence 445789999999999998855 555554433 336777 899999999999999999999999999999887766432
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
..++.++-... ..+||+|.+||+-+.
T Consensus 275 -----~dLr~LL~~t~---~kSIivIEDIDcs~~ 300 (457)
T KOG0743|consen 275 -----SDLRHLLLATP---NKSILLIEDIDCSFD 300 (457)
T ss_pred -----HHHHHHHHhCC---CCcEEEEeecccccc
Confidence 23777776554 368999999999654
No 67
>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=4.1e-11 Score=127.55 Aligned_cols=107 Identities=28% Similarity=0.417 Sum_probs=85.6
Q ss_pred CCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-cchhHHH
Q 012305 358 GDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-PLGAQAV 431 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-~~~~e~~ 431 (466)
+++.|.......++.++.. +... .....|++++|+|||||||||+++++++++.+..++.++|+.+. .+.+++.
T Consensus 184 ~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte 263 (693)
T KOG0730|consen 184 DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETE 263 (693)
T ss_pred cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchH
Confidence 4555556566666554432 1111 13346779999999999999999999999999999999999765 4788999
Q ss_pred HHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 432 TKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 432 ~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
+.++..|..+.+...+++|||||+|.+.++|..
T Consensus 264 ~~LR~~f~~a~k~~~psii~IdEld~l~p~r~~ 296 (693)
T KOG0730|consen 264 SNLRKAFAEALKFQVPSIIFIDELDALCPKREG 296 (693)
T ss_pred HHHHHHHHHHhccCCCeeEeHHhHhhhCCcccc
Confidence 999999999998877899999999999998764
No 68
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.12 E-value=3.8e-11 Score=127.54 Aligned_cols=96 Identities=24% Similarity=0.310 Sum_probs=63.7
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD------------------- 414 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~------------------- 414 (466)
+.+|+++||++.++..|...+.. +..+.++|||||||||||++|+.+++.++..
T Consensus 10 P~~~~divGq~~i~~~L~~~i~~-------~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~ 82 (472)
T PRK14962 10 PKTFSEVVGQDHVKKLIINALKK-------NSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDE 82 (472)
T ss_pred CCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhc
Confidence 55789999999998887765332 2233468999999999999999999988541
Q ss_pred -----chhhcCCCcccchhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305 415 -----YAMMTGGDVAPLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 415 -----~~~v~~~~l~~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~ 461 (466)
++.++++. ..+ ...++.+.+.+.. .+.+.||||||+|.|...
T Consensus 83 g~~~dv~el~aa~--~~g---id~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~ 132 (472)
T PRK14962 83 GTFMDVIELDAAS--NRG---IDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKE 132 (472)
T ss_pred CCCCccEEEeCcc--cCC---HHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHH
Confidence 22222210 111 2334444444332 234689999999998654
No 69
>CHL00095 clpC Clp protease ATP binding subunit
Probab=99.10 E-value=3.5e-11 Score=136.25 Aligned_cols=137 Identities=18% Similarity=0.179 Sum_probs=87.9
Q ss_pred ceehhhhhhhhhCCCcc-ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhc
Q 012305 300 ARVTWGYVNRILGQPSL-IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA 378 (466)
Q Consensus 300 ~~~~~~~v~~~lg~p~l-vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~ 378 (466)
...+..+|.+|+|.|.. +......+ +......+ -..|+||+.++..|...+....
T Consensus 474 ~~~i~~~~~~~tgip~~~~~~~~~~~------l~~l~~~L------------------~~~v~GQ~~ai~~l~~~i~~~~ 529 (821)
T CHL00095 474 EEDIAEIVSAWTGIPVNKLTKSESEK------LLHMEETL------------------HKRIIGQDEAVVAVSKAIRRAR 529 (821)
T ss_pred HHHHHHHHHHHHCCCchhhchhHHHH------HHHHHHHh------------------cCcCcChHHHHHHHHHHHHHHh
Confidence 35678889999999983 22221111 11111111 1458999999999987665433
Q ss_pred c-ccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc--------------cchhHHHHHHHHHHhh
Q 012305 379 N-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA--------------PLGAQAVTKIHEIFDW 440 (466)
Q Consensus 379 ~-~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~--------------~~~~e~~~~l~~lf~~ 440 (466)
. ...+..|..++||+||||||||++|++||..+ +.+++.++++.+. +.|.+.. ..+.+.
T Consensus 530 ~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~g~~~gyvg~~~~---~~l~~~ 606 (821)
T CHL00095 530 VGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVGYNEG---GQLTEA 606 (821)
T ss_pred hcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhcCCCCcccCcCcc---chHHHH
Confidence 2 23345566789999999999999999999987 3456666555432 1222211 234444
Q ss_pred hhhccCceEEEeccccccccccCC
Q 012305 441 AKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 441 A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
.+. .|++||||||||.+.++..+
T Consensus 607 ~~~-~p~~VvllDeieka~~~v~~ 629 (821)
T CHL00095 607 VRK-KPYTVVLFDEIEKAHPDIFN 629 (821)
T ss_pred HHh-CCCeEEEECChhhCCHHHHH
Confidence 443 45899999999999876544
No 70
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.10 E-value=4.5e-11 Score=125.87 Aligned_cols=104 Identities=25% Similarity=0.318 Sum_probs=66.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhc-
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMT- 419 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~- 419 (466)
+..|++|||++.++..|...+.. +..+..+|||||||||||++|+.||+.++... ..+.
T Consensus 14 P~~f~dvVGQe~iv~~L~~~i~~-------~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~ 86 (484)
T PRK14956 14 PQFFRDVIHQDLAIGALQNALKS-------GKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITK 86 (484)
T ss_pred CCCHHHHhChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHc
Confidence 55799999999999988766432 12223589999999999999999999985421 0000
Q ss_pred --CCCcccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 420 --GGDVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 420 --~~~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
..++..+.. .++..++.+.+.+. ..+++.|+||||||.|....++
T Consensus 87 g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~N 139 (484)
T PRK14956 87 GISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFN 139 (484)
T ss_pred cCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHH
Confidence 112211111 11334455444433 2334679999999999765443
No 71
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=99.10 E-value=4.4e-11 Score=113.24 Aligned_cols=98 Identities=29% Similarity=0.394 Sum_probs=75.0
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-CC----cchhhcCCCcccchhHH
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-GL----DYAMMTGGDVAPLGAQA 430 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-~~----~~~~v~~~~l~~~~~e~ 430 (466)
.+.|+||+++.+.+|..++ +.++.| |++|.||||||||+.+.+||+.+ |- -++.+|.+| ..|.+.
T Consensus 25 ~l~dIVGNe~tv~rl~via------~~gnmP--~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASd--eRGIDv 94 (333)
T KOG0991|consen 25 VLQDIVGNEDTVERLSVIA------KEGNMP--NLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASD--ERGIDV 94 (333)
T ss_pred HHHHhhCCHHHHHHHHHHH------HcCCCC--ceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCcc--ccccHH
Confidence 4688999999999998773 344555 89999999999999999999988 42 356677765 456677
Q ss_pred HHHHHHHHhhhhh-c--cCceEEEeccccccccccC
Q 012305 431 VTKIHEIFDWAKK-S--KKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 431 ~~~l~~lf~~A~~-~--~~~~iLflDEid~l~~~r~ 463 (466)
+.+-.+.|..-+- . ++..||+|||+|+|....+
T Consensus 95 VRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQ 130 (333)
T KOG0991|consen 95 VRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQ 130 (333)
T ss_pred HHHHHHHHHHhhccCCCCceeEEEeeccchhhhHHH
Confidence 7777777765443 2 3458999999999975443
No 72
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.10 E-value=5.2e-11 Score=127.68 Aligned_cols=104 Identities=18% Similarity=0.241 Sum_probs=67.4
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~ 420 (466)
+.+|++|||++.+++.|...+.. +..+..+|||||||||||++|+.||+.+++.- ..+..
T Consensus 12 P~~f~divGq~~v~~~L~~~~~~-------~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~ 84 (509)
T PRK14958 12 PRCFQEVIGQAPVVRALSNALDQ-------QYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDE 84 (509)
T ss_pred CCCHHHhcCCHHHHHHHHHHHHh-------CCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhc
Confidence 56799999999999988876532 22233589999999999999999999885421 11111
Q ss_pred CC---cccch---hHHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 421 GD---VAPLG---AQAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 421 ~~---l~~~~---~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
+. +..+. ...+..++.+.+.+. ..+++.|+||||+|.|...-+|
T Consensus 85 g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~n 137 (509)
T PRK14958 85 GRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFN 137 (509)
T ss_pred CCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHH
Confidence 11 11111 112334455554433 3345789999999999875443
No 73
>PLN03025 replication factor C subunit; Provisional
Probab=99.08 E-value=5.3e-11 Score=120.71 Aligned_cols=101 Identities=27% Similarity=0.411 Sum_probs=65.5
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-C----CcchhhcCCCcccchh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-G----LDYAMMTGGDVAPLGA 428 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-~----~~~~~v~~~~l~~~~~ 428 (466)
+.+|+++||++++...|..++.. ...| |+|||||||||||++|+++|+.+ | ..++.++.++.. +.
T Consensus 9 P~~l~~~~g~~~~~~~L~~~~~~------~~~~--~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~--~~ 78 (319)
T PLN03025 9 PTKLDDIVGNEDAVSRLQVIARD------GNMP--NLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDR--GI 78 (319)
T ss_pred CCCHHHhcCcHHHHHHHHHHHhc------CCCc--eEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccc--cH
Confidence 45789999999999888766331 1222 79999999999999999999997 2 235555555431 22
Q ss_pred HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 429 QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 429 e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
+....+...|.... ....+.||||||+|.|....++
T Consensus 79 ~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~ 117 (319)
T PLN03025 79 DVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQ 117 (319)
T ss_pred HHHHHHHHHHHhccccCCCCCeEEEEEechhhcCHHHHH
Confidence 22222222221111 0123689999999999876554
No 74
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.08 E-value=6.7e-11 Score=127.73 Aligned_cols=104 Identities=20% Similarity=0.299 Sum_probs=68.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc------------------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY------------------ 415 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~------------------ 415 (466)
+.+|++|||++.+++.|...+.. +..+..+||+||+|||||++|+.|++.+++.-
T Consensus 12 PqtFddVIGQe~vv~~L~~al~~-------gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC 84 (700)
T PRK12323 12 PRDFTTLVGQEHVVRALTHALEQ-------QRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRAC 84 (700)
T ss_pred CCcHHHHcCcHHHHHHHHHHHHh-------CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHH
Confidence 55789999999999988876442 22234579999999999999999999886410
Q ss_pred hhhcCC---Ccccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 416 AMMTGG---DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 416 ~~v~~~---~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
..|..+ ++..+.. .++..++.+.+.+. ..+++.|+||||+|.|....+|
T Consensus 85 ~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaN 142 (700)
T PRK12323 85 TEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFN 142 (700)
T ss_pred HHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHH
Confidence 011111 1111111 12344555555443 2345789999999999865544
No 75
>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]
Probab=99.08 E-value=1.5e-10 Score=129.53 Aligned_cols=110 Identities=24% Similarity=0.381 Sum_probs=88.1
Q ss_pred cccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCC
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGD 422 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~ 422 (466)
...+|++|-|.+..+..+...+.. +-.+ +.+..|+++||||||||||||++|+++|..+ ...|.+-.|.|
T Consensus 260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD 339 (1080)
T KOG0732|consen 260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGAD 339 (1080)
T ss_pred cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCch
Confidence 345789998888888888775432 2222 2335688999999999999999999999988 34566667766
Q ss_pred c-ccchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 423 V-APLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 423 l-~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
. ..+.++...+++-+|+.|++.. ++|||+||||.|.+-|+
T Consensus 340 ~lskwvgEaERqlrllFeeA~k~q-PSIIffdeIdGlapvrS 380 (1080)
T KOG0732|consen 340 CLSKWVGEAERQLRLLFEEAQKTQ-PSIIFFDEIDGLAPVRS 380 (1080)
T ss_pred hhccccCcHHHHHHHHHHHHhccC-ceEEecccccccccccc
Confidence 4 4588999999999999999766 89999999999988774
No 76
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=99.06 E-value=2e-10 Score=119.56 Aligned_cols=104 Identities=19% Similarity=0.318 Sum_probs=70.1
Q ss_pred CeeeCcchHHHHHHHHH----hhcc--ccc--cc--cccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---
Q 012305 359 DIILHPSLQRRIQHLAK----ATAN--TKI--HQ--APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP--- 425 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~----~~~~--~~~--~~--~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~--- 425 (466)
.|||++.+++.+...+. .+.. ... ++ .+..+|||+||||||||++|++||..++.+|+.+++..+.+
T Consensus 78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gy 157 (413)
T TIGR00382 78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY 157 (413)
T ss_pred eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcccccc
Confidence 37999999998876441 1111 000 00 12368999999999999999999999999999998877643
Q ss_pred chhHHHHHHHHHHhhhh---hccCceEEEecccccccccc
Q 012305 426 LGAQAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 426 ~~~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r 462 (466)
.|.+....+..++..+. ....++||||||||.+.+++
T Consensus 158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~ 197 (413)
T TIGR00382 158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKS 197 (413)
T ss_pred ccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhh
Confidence 23323344444443221 01236799999999998743
No 77
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.06 E-value=1e-10 Score=126.58 Aligned_cols=103 Identities=20% Similarity=0.294 Sum_probs=66.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~ 420 (466)
+..|++|||++.+++.|...+.. +..+..+||+||||||||++|+++|+.+++.. -.+..
T Consensus 11 PktFddVIGQe~vv~~L~~aI~~-------grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~ 83 (702)
T PRK14960 11 PRNFNELVGQNHVSRALSSALER-------GRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNE 83 (702)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhc
Confidence 46789999999999888776542 23335689999999999999999999985421 01111
Q ss_pred C---Ccccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccC
Q 012305 421 G---DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 421 ~---~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~ 463 (466)
+ ++..+.. ..+..++.+.+.+. ..+++.|+||||+|.|.....
T Consensus 84 g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~ 135 (702)
T PRK14960 84 GRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSF 135 (702)
T ss_pred CCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHH
Confidence 1 1111110 12344555554432 234578999999999876543
No 78
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=99.06 E-value=8.8e-11 Score=130.28 Aligned_cols=99 Identities=25% Similarity=0.405 Sum_probs=67.1
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK 433 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~ 433 (466)
+.+|+++||++.+......+...+.... ..++|||||||||||++|++|++.++.+|+.+++.... ...
T Consensus 24 P~tldd~vGQe~ii~~~~~L~~~i~~~~-----~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~------i~d 92 (725)
T PRK13341 24 PRTLEEFVGQDHILGEGRLLRRAIKADR-----VGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAG------VKD 92 (725)
T ss_pred CCcHHHhcCcHHHhhhhHHHHHHHhcCC-----CceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhh------hHH
Confidence 4678999999998864333333333221 23799999999999999999999999888888875321 112
Q ss_pred HHHHHhhh----hhccCceEEEeccccccccccC
Q 012305 434 IHEIFDWA----KKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 434 l~~lf~~A----~~~~~~~iLflDEid~l~~~r~ 463 (466)
++..+..+ ...+.+.+|||||||.|....+
T Consensus 93 ir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQ 126 (725)
T PRK13341 93 LRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQ 126 (725)
T ss_pred HHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHH
Confidence 22222222 2223467999999999876544
No 79
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=99.04 E-value=1.2e-10 Score=127.02 Aligned_cols=105 Identities=18% Similarity=0.249 Sum_probs=67.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc--hhhcCC----------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY--AMMTGG---------- 421 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~--~~v~~~---------- 421 (466)
+.+|++|||++.+++.|...+.. +..+..+||+||+|||||++|+.||+.+++.. ....|+
T Consensus 12 P~~f~divGQe~vv~~L~~~l~~-------~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~ 84 (647)
T PRK07994 12 PQTFAEVVGQEHVLTALANALDL-------GRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQ 84 (647)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHc
Confidence 46899999999999988765432 22223479999999999999999999985421 011111
Q ss_pred ----Ccccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCCC
Q 012305 422 ----DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 422 ----~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~~ 465 (466)
|+..+.. ..+..++.+.+.+. ..+++.|+||||+|.|....+|.
T Consensus 85 g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NA 138 (647)
T PRK07994 85 GRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNA 138 (647)
T ss_pred CCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHH
Confidence 1111111 12334444444433 23457899999999998765543
No 80
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.04 E-value=1.5e-10 Score=128.71 Aligned_cols=104 Identities=18% Similarity=0.216 Sum_probs=65.7
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch-h-hcC-----------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA-M-MTG----------- 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~-~-v~~----------- 420 (466)
+.+|++|||++.++..|..++.. +..+..+|||||||||||++|+.||+.+++... . ..|
T Consensus 12 P~tFddIIGQe~Iv~~LknaI~~-------~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~ 84 (944)
T PRK14949 12 PATFEQMVGQSHVLHALTNALTQ-------QRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQ 84 (944)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHh-------CCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhc
Confidence 46799999999999988765432 122234699999999999999999999865310 0 001
Q ss_pred ---CCcccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 421 ---GDVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 421 ---~~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
.++..+.. ..+..++.+.+.+. ..+++.|+||||+|.|....++
T Consensus 85 g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqN 137 (944)
T PRK14949 85 GRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFN 137 (944)
T ss_pred CCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHH
Confidence 11111111 11233444444333 2345689999999999865544
No 81
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=99.03 E-value=3.5e-10 Score=114.11 Aligned_cols=95 Identities=22% Similarity=0.327 Sum_probs=66.3
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHH-H
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAV-T 432 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~-~ 432 (466)
+.+|+++||++.....+..++.. +..+..+|||||||||||++++++++.++.++..+++++ .. .+.. .
T Consensus 17 P~~~~~~~~~~~~~~~l~~~~~~-------~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-~~--~~~i~~ 86 (316)
T PHA02544 17 PSTIDECILPAADKETFKSIVKK-------GRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-CR--IDFVRN 86 (316)
T ss_pred CCcHHHhcCcHHHHHHHHHHHhc-------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-cc--HHHHHH
Confidence 45789999999999988876541 222234666999999999999999999999999999877 22 1111 1
Q ss_pred HHHHHHhhhhhccCceEEEecccccc
Q 012305 433 KIHEIFDWAKKSKKGLLLFIDEADAF 458 (466)
Q Consensus 433 ~l~~lf~~A~~~~~~~iLflDEid~l 458 (466)
.+..+.........+.+|||||+|.+
T Consensus 87 ~l~~~~~~~~~~~~~~vliiDe~d~l 112 (316)
T PHA02544 87 RLTRFASTVSLTGGGKVIIIDEFDRL 112 (316)
T ss_pred HHHHHHHhhcccCCCeEEEEECcccc
Confidence 12222221111234789999999988
No 82
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=99.03 E-value=1.3e-10 Score=127.13 Aligned_cols=104 Identities=18% Similarity=0.277 Sum_probs=66.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~ 420 (466)
+.+|++|||++.+++.|...+.. +..+..+|||||+|||||++++.|++.+++.. ..+..
T Consensus 12 PqtFdEVIGQe~Vv~~L~~aL~~-------gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~ 84 (830)
T PRK07003 12 PKDFASLVGQEHVVRALTHALDG-------GRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDE 84 (830)
T ss_pred CCcHHHHcCcHHHHHHHHHHHhc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhc
Confidence 55789999999999988776431 22234579999999999999999999885421 01111
Q ss_pred C---Ccccch---hHHHHHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305 421 G---DVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 421 ~---~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~ 464 (466)
+ ++..+. ..++..++.+++.+.. ..++.||||||+|.|....+|
T Consensus 85 G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~N 137 (830)
T PRK07003 85 GRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFN 137 (830)
T ss_pred CCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHH
Confidence 1 111111 1123345555555432 234789999999999765444
No 83
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=99.03 E-value=1e-10 Score=125.84 Aligned_cols=100 Identities=22% Similarity=0.280 Sum_probs=76.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHh--------h---CCcchhhcCCC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK--------S---GLDYAMMTGGD 422 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~--------l---~~~~~~v~~~~ 422 (466)
.+.|+++||.+..+..+...+..+..+..+ |||+|+|||||+++|++|+.. + +.||+.++|+.
T Consensus 215 ~~~f~~iiG~S~~m~~~~~~i~~~A~s~~p------VLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaa 288 (538)
T PRK15424 215 RYVLGDLLGQSPQMEQVRQTILLYARSSAA------VLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGA 288 (538)
T ss_pred ccchhheeeCCHHHHHHHHHHHHHhCCCCc------EEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeeccc
Confidence 357899999999999999888777766554 999999999999999999988 4 67999999998
Q ss_pred cccchhH--HHHH------------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305 423 VAPLGAQ--AVTK------------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 423 l~~~~~e--~~~~------------l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+++...+ .++. ..++|+.+. +++||||||+.|....+
T Consensus 289 l~e~lleseLFG~~~gaftga~~~~~~Gl~e~A~----gGTLfLdeI~~Lp~~~Q 339 (538)
T PRK15424 289 IAESLLEAELFGYEEGAFTGSRRGGRAGLFEIAH----GGTLFLDEIGEMPLPLQ 339 (538)
T ss_pred CChhhHHHHhcCCccccccCccccccCCchhccC----CCEEEEcChHhCCHHHH
Confidence 8652211 1111 123555443 78999999999876543
No 84
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=1.6e-09 Score=116.19 Aligned_cols=98 Identities=26% Similarity=0.329 Sum_probs=70.5
Q ss_pred CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------chh
Q 012305 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LGA 428 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~~ 428 (466)
|-.|-.+++++|.+++....-....+. .-++|+||||+|||+++++||+.+|..|+.++.+.+.+ +.+
T Consensus 412 DHYgm~dVKeRILEfiAV~kLrgs~qG--kIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRTYVG 489 (906)
T KOG2004|consen 412 DHYGMEDVKERILEFIAVGKLRGSVQG--KILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVG 489 (906)
T ss_pred cccchHHHHHHHHHHHHHHhhcccCCC--cEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccceeeec
Confidence 455778889998876554322211111 24889999999999999999999999999988766532 223
Q ss_pred HHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305 429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
...+.+.+.+......+ -+++|||||.+.+
T Consensus 490 AMPGkiIq~LK~v~t~N--PliLiDEvDKlG~ 519 (906)
T KOG2004|consen 490 AMPGKIIQCLKKVKTEN--PLILIDEVDKLGS 519 (906)
T ss_pred cCChHHHHHHHhhCCCC--ceEEeehhhhhCC
Confidence 33456666666666555 3899999999974
No 85
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=3.4e-10 Score=111.58 Aligned_cols=105 Identities=17% Similarity=0.324 Sum_probs=71.5
Q ss_pred eeeCcchHHHHHHH-----HHhhccccccc--cccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc--chhHH
Q 012305 360 IILHPSLQRRIQHL-----AKATANTKIHQ--APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP--LGAQA 430 (466)
Q Consensus 360 vVg~~~~~~~l~~~-----~~~~~~~~~~~--~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~--~~~e~ 430 (466)
|||++..++.|.-. .+......... ..-.|+||.||+|||||+||+.||+.++.||.+.++..+.. +.++.
T Consensus 63 VIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVGED 142 (408)
T COG1219 63 VIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGED 142 (408)
T ss_pred eecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccchh
Confidence 78998888765321 11111111111 22258999999999999999999999999999999888864 34444
Q ss_pred H-HHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305 431 V-TKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 431 ~-~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~ 464 (466)
+ ..+-.++..+.- ....+||+|||||.+.++..|
T Consensus 143 VENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN 180 (408)
T COG1219 143 VENILLKLLQAADYDVERAERGIIYIDEIDKIARKSEN 180 (408)
T ss_pred HHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCC
Confidence 4 345556554431 122589999999999987654
No 86
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=99.01 E-value=2.9e-10 Score=127.38 Aligned_cols=99 Identities=19% Similarity=0.234 Sum_probs=75.6
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV 423 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l 423 (466)
+..++++||++.....+..++..- ...|+|||||||||||++++.||..+ +..++.++++.+
T Consensus 178 ~~~l~~~igr~~ei~~~~~~L~~~--------~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l 249 (731)
T TIGR02639 178 NGKIDPLIGREDELERTIQVLCRR--------KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSL 249 (731)
T ss_pred cCCCCcccCcHHHHHHHHHHHhcC--------CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHH
Confidence 446789999998888766543221 12379999999999999999999987 556666666555
Q ss_pred c---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
. .+.++....++.+|+.+.... +.||||||||.|.+.
T Consensus 250 ~a~~~~~g~~e~~l~~i~~~~~~~~-~~ILfiDEih~l~~~ 289 (731)
T TIGR02639 250 LAGTKYRGDFEERLKAVVSEIEKEP-NAILFIDEIHTIVGA 289 (731)
T ss_pred hhhccccchHHHHHHHHHHHHhccC-CeEEEEecHHHHhcc
Confidence 3 244566788999999887554 789999999999864
No 87
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.01 E-value=2.2e-10 Score=121.70 Aligned_cols=98 Identities=20% Similarity=0.180 Sum_probs=66.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD------------------- 414 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~------------------- 414 (466)
+.+|+++||++.+++.|...+.. +..+.++||+||||||||++|+.+|+.+++.
T Consensus 9 P~~f~dliGQe~vv~~L~~a~~~-------~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~ 81 (491)
T PRK14964 9 PSSFKDLVGQDVLVRILRNAFTL-------NKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKN 81 (491)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhc
Confidence 46799999999999888754322 3334579999999999999999999876321
Q ss_pred -----chhhcCCCcccchhHHHHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305 415 -----YAMMTGGDVAPLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 415 -----~~~v~~~~l~~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~ 463 (466)
|+.+++++ .. ++..++.+.+.+.. ..++.|+||||+|.|...-+
T Consensus 82 ~~~~Dv~eidaas--~~---~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~ 133 (491)
T PRK14964 82 SNHPDVIEIDAAS--NT---SVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAF 133 (491)
T ss_pred cCCCCEEEEeccc--CC---CHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHH
Confidence 12222211 11 23445555555432 34568999999999876443
No 88
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.01 E-value=2.3e-10 Score=124.53 Aligned_cols=104 Identities=19% Similarity=0.287 Sum_probs=66.6
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc------------------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY------------------ 415 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~------------------ 415 (466)
+.+|++|||++.++..|..++.. +..+..+|||||+|||||++|+.||+.+++.-
T Consensus 12 P~~f~dviGQe~vv~~L~~~l~~-------~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C 84 (618)
T PRK14951 12 PRSFSEMVGQEHVVQALTNALTQ-------QRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQAC 84 (618)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHH
Confidence 46799999999999988876442 12223579999999999999999999885310
Q ss_pred hhhcCC---Ccccchh---HHHHHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305 416 AMMTGG---DVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 416 ~~v~~~---~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~ 464 (466)
..+..+ |+..+.. ..+..++.+.+.+.. .+++.|+||||+|.|...-+|
T Consensus 85 ~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~N 142 (618)
T PRK14951 85 RDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFN 142 (618)
T ss_pred HHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHH
Confidence 011111 1111111 123345555554332 334789999999999875544
No 89
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=99.00 E-value=5.2e-10 Score=115.61 Aligned_cols=64 Identities=20% Similarity=0.353 Sum_probs=49.7
Q ss_pred eeeCcchHHHHHHHHHh-hccc-----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305 360 IILHPSLQRRIQHLAKA-TANT-----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 423 (466)
Q Consensus 360 vVg~~~~~~~l~~~~~~-~~~~-----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l 423 (466)
|||++++++.+...+.. +... .....+++|+||+||||||||++|++|+..++.+|+.+++..+
T Consensus 14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~ 83 (441)
T TIGR00390 14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF 83 (441)
T ss_pred ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeeccee
Confidence 89999999998654332 1111 1123455899999999999999999999999999999987755
No 90
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=99.00 E-value=1.4e-10 Score=124.67 Aligned_cols=102 Identities=22% Similarity=0.271 Sum_probs=78.1
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch-
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG- 427 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~- 427 (466)
.....|+++||.+..+..+...+..+..+..+ |||+|+|||||+++|++|+..+ +.||+.++|+.+++..
T Consensus 206 ~~~~~f~~iiG~S~~m~~~~~~i~~~A~~~~p------VLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e~ll 279 (526)
T TIGR02329 206 RTRYRLDDLLGASAPMEQVRALVRLYARSDAT------VLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAESLL 279 (526)
T ss_pred ccccchhheeeCCHHHHHHHHHHHHHhCCCCc------EEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCChhHH
Confidence 34467899999999999998888877766554 9999999999999999999876 5799999999886521
Q ss_pred -hHHHHH------------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305 428 -AQAVTK------------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 428 -~e~~~~------------l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.+.++. ..++|+.+. +++||||||+.|....+
T Consensus 280 eseLFG~~~gaftga~~~~~~Gl~e~A~----gGTLfLdeI~~Lp~~~Q 324 (526)
T TIGR02329 280 EAELFGYEEGAFTGARRGGRTGLIEAAH----RGTLFLDEIGEMPLPLQ 324 (526)
T ss_pred HHHhcCCcccccccccccccccchhhcC----CceEEecChHhCCHHHH
Confidence 111111 123444443 78999999999976543
No 91
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=98.99 E-value=6e-10 Score=115.20 Aligned_cols=83 Identities=20% Similarity=0.332 Sum_probs=57.2
Q ss_pred CeeeCcchHHHHHHHHHh-hcc-----ccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---chhH
Q 012305 359 DIILHPSLQRRIQHLAKA-TAN-----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---LGAQ 429 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~-~~~-----~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---~~~e 429 (466)
.|||++.+++.+...+.. +.. ......++.|+||+||||||||++|+.|+..++.+|+.+++..+.. .|.+
T Consensus 16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d 95 (443)
T PRK05201 16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD 95 (443)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCC
Confidence 389999999999775532 111 1111223589999999999999999999999999999998876542 2323
Q ss_pred HHHHHHHHHhhh
Q 012305 430 AVTKIHEIFDWA 441 (466)
Q Consensus 430 ~~~~l~~lf~~A 441 (466)
....++.+|+.|
T Consensus 96 ~e~~ir~L~~~A 107 (443)
T PRK05201 96 VESIIRDLVEIA 107 (443)
T ss_pred HHHHHHHHHHHH
Confidence 334444444443
No 92
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=2e-10 Score=113.30 Aligned_cols=108 Identities=19% Similarity=0.274 Sum_probs=73.4
Q ss_pred CCCCeeeCcchHHHHHHHHHhhcc-ccc----ccc-ccccccccCCCCCCchHHHHHHHHhhC---------CcchhhcC
Q 012305 356 NNGDIILHPSLQRRIQHLAKATAN-TKI----HQA-PFRNMLFYGPPGTGKTMVAREIARKSG---------LDYAMMTG 420 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~-~~~----~~~-p~~~vLl~GppGTGKT~lA~alA~~l~---------~~~~~v~~ 420 (466)
-|+.+|....+++++...+..... ... +.. -.|-+|++||||||||+|+++||.++. ...+.+|+
T Consensus 140 lWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins 219 (423)
T KOG0744|consen 140 LWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS 219 (423)
T ss_pred hHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh
Confidence 356678888888888764433211 111 111 125699999999999999999999982 23456777
Q ss_pred CCccc-chhHHHHHHHHHHhhhhh----ccCceEEEeccccccccccC
Q 012305 421 GDVAP-LGAQAVTKIHEIFDWAKK----SKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 421 ~~l~~-~~~e~~~~l~~lf~~A~~----~~~~~iLflDEid~l~~~r~ 463 (466)
..+.. |-+++...+.++|+.... .+--..|+|||++++...|.
T Consensus 220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~ 267 (423)
T KOG0744|consen 220 HSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAART 267 (423)
T ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHH
Confidence 76654 777887777777765432 23246778999999986653
No 93
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator. Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).
Probab=98.97 E-value=9.6e-11 Score=123.77 Aligned_cols=164 Identities=15% Similarity=0.189 Sum_probs=102.0
Q ss_pred cccceeeeechhhhhhhheeecccCceehhhhhhhhhCCCccccccccCCCchhhhhHHHHHHhhhccccccccCccccc
Q 012305 275 DRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAI 354 (466)
Q Consensus 275 d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (466)
+++.+++++++.......+.+++.| +.+|+.+++....+.....+ ................. ...
T Consensus 71 ~~~~piI~lt~~~~~~~~~~a~~~G---a~dyl~KP~~~~~L~~~i~~-----------~~~~~~l~~~~~~l~~~-~~~ 135 (445)
T TIGR02915 71 APDTKVIVITGNDDRENAVKAIGLG---AYDFYQKPIDPDVLKLIVDR-----------AFHLYTLETENRRLQSA-LGG 135 (445)
T ss_pred CCCCCEEEEecCCCHHHHHHHHHCC---ccEEEeCCCCHHHHHHHHhh-----------hhhhhhhHHHHHHhhhh-hhc
Confidence 4667888888888888888888888 56777777765554321111 11000000000000000 111
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH-
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA- 430 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~- 430 (466)
..+.+++|.......+...+..+..... +++|+|++||||+++|+.++..+ +.+|+.++|..+.+...++
T Consensus 136 ~~~~~lig~s~~~~~l~~~i~~~a~~~~------~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~~~~ 209 (445)
T TIGR02915 136 TALRGLITSSPGMQKICRTIEKIAPSDI------TVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLLESE 209 (445)
T ss_pred ccccceeecCHHHHHHHHHHHHHhCCCC------CEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHHHHH
Confidence 2456789998888888776665544333 49999999999999999999887 4689999999875421110
Q ss_pred -HHH-----------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305 431 -VTK-----------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 431 -~~~-----------l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.+. ..+++..+ .+++||||||+.|....+
T Consensus 210 lfg~~~~~~~~~~~~~~g~~~~a----~~gtl~l~~i~~l~~~~q 250 (445)
T TIGR02915 210 LFGYEKGAFTGAVKQTLGKIEYA----HGGTLFLDEIGDLPLNLQ 250 (445)
T ss_pred hcCCCCCCcCCCccCCCCceeEC----CCCEEEEechhhCCHHHH
Confidence 111 11223323 278999999999986543
No 94
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.97 E-value=4.2e-10 Score=116.21 Aligned_cols=101 Identities=22% Similarity=0.199 Sum_probs=64.4
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch--hhcC-----------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA--MMTG----------- 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~--~v~~----------- 420 (466)
+..|++|||++.+++.+...+.. +..+..+||+||||||||++|+.+++.++.... .-.|
T Consensus 12 P~~~~~iiGq~~~~~~l~~~~~~-------~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~ 84 (363)
T PRK14961 12 PQYFRDIIGQKHIVTAISNGLSL-------GRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEK 84 (363)
T ss_pred CCchhhccChHHHHHHHHHHHHc-------CCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence 46789999999999988765432 222335799999999999999999998853211 0001
Q ss_pred ---CCcccchh---HHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305 421 ---GDVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 421 ---~~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~ 461 (466)
.++..... .....++.+.+.+.. .+++.|+||||+|.|...
T Consensus 85 ~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~ 134 (363)
T PRK14961 85 GLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRH 134 (363)
T ss_pred CCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHH
Confidence 11111110 123445555554432 233579999999998754
No 95
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.97 E-value=4e-10 Score=121.21 Aligned_cols=104 Identities=18% Similarity=0.247 Sum_probs=65.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------chhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-------------YAMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------~~~v~~ 420 (466)
+..|+++||++.++..|...+.. +..+..+|||||||||||++|+.||+.+.+. +..+..
T Consensus 12 P~~f~diiGq~~~v~~L~~~i~~-------~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~ 84 (546)
T PRK14957 12 PQSFAEVAGQQHALNSLVHALET-------QKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINN 84 (546)
T ss_pred cCcHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhc
Confidence 45789999999999887765432 2223458999999999999999999987431 111111
Q ss_pred CCccc---chh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 421 GDVAP---LGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 421 ~~l~~---~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
+...+ +.. -.+..++.+.+.+. ..+++.||||||+|.|....++
T Consensus 85 ~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~n 137 (546)
T PRK14957 85 NSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFN 137 (546)
T ss_pred CCCCceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHH
Confidence 11111 100 11223344444333 2345689999999998765443
No 96
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=98.96 E-value=4.7e-10 Score=119.92 Aligned_cols=102 Identities=21% Similarity=0.205 Sum_probs=67.7
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch----------------
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA---------------- 416 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~---------------- 416 (466)
.+..|+++||++.++..|...+.. +..+.++||+||||||||++|+.+|+.+++..-
T Consensus 16 RP~~f~dliGq~~vv~~L~~ai~~-------~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C 88 (507)
T PRK06645 16 RPSNFAELQGQEVLVKVLSYTILN-------DRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNC 88 (507)
T ss_pred CCCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHH
Confidence 356799999999999988764322 233357999999999999999999999854210
Q ss_pred -hhcC---CCcccch---hHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305 417 -MMTG---GDVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 417 -~v~~---~~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~ 461 (466)
.+.. .++..+. ..++..++.+++.+.. .+++.|+||||+|.|...
T Consensus 89 ~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~ 143 (507)
T PRK06645 89 ISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKG 143 (507)
T ss_pred HHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHH
Confidence 0000 1111111 1234566667666653 234689999999998654
No 97
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.96 E-value=4.4e-10 Score=121.16 Aligned_cols=103 Identities=20% Similarity=0.277 Sum_probs=66.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch-------------hhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA-------------MMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~-------------~v~~ 420 (466)
+.+|++|||++.+++.|...+.. +..+..+|||||||||||++|+.|++.+++... .+..
T Consensus 12 P~~f~divGq~~v~~~L~~~i~~-------~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~ 84 (527)
T PRK14969 12 PKSFSELVGQEHVVRALTNALEQ-------QRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDS 84 (527)
T ss_pred CCcHHHhcCcHHHHHHHHHHHHc-------CCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence 45789999999999988766442 222345799999999999999999999854210 1111
Q ss_pred CCccc---ch---hHHHHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305 421 GDVAP---LG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 421 ~~l~~---~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~ 463 (466)
+.+.+ .. ...+..++.+.+.+.. .+++.|+||||+|.|...-+
T Consensus 85 ~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~ 136 (527)
T PRK14969 85 GRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAF 136 (527)
T ss_pred CCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHH
Confidence 11111 11 1123455666655543 23468999999999976443
No 98
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=1.4e-09 Score=117.14 Aligned_cols=99 Identities=24% Similarity=0.303 Sum_probs=71.7
Q ss_pred CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------chh
Q 012305 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LGA 428 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~~ 428 (466)
|-.|.+.+++++-+.+......+.-..| -+||+||||+|||+++++||+.+|..|+.++.|.+-+ +.+
T Consensus 324 dHYGLekVKeRIlEyLAV~~l~~~~kGp--ILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIG 401 (782)
T COG0466 324 DHYGLEKVKERILEYLAVQKLTKKLKGP--ILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIG 401 (782)
T ss_pred cccCchhHHHHHHHHHHHHHHhccCCCc--EEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccc
Confidence 3457788899987765544333332223 4789999999999999999999999999999877632 222
Q ss_pred HHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
...+.+.+-+..+...+ -+++|||||.|..+
T Consensus 402 amPGrIiQ~mkka~~~N--Pv~LLDEIDKm~ss 432 (782)
T COG0466 402 AMPGKIIQGMKKAGVKN--PVFLLDEIDKMGSS 432 (782)
T ss_pred cCChHHHHHHHHhCCcC--CeEEeechhhccCC
Confidence 33455555666666554 38999999999865
No 99
>PRK10865 protein disaggregation chaperone; Provisional
Probab=98.95 E-value=9.3e-10 Score=124.94 Aligned_cols=101 Identities=19% Similarity=0.301 Sum_probs=74.1
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV 423 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l 423 (466)
+..++.+||++....++.+++.. ... .|+||+||||||||++++.|+..+ +++++.++.+.+
T Consensus 174 ~~~l~~vigr~~ei~~~i~iL~r---~~~-----~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l 245 (857)
T PRK10865 174 QGKLDPVIGRDEEIRRTIQVLQR---RTK-----NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL 245 (857)
T ss_pred cCCCCcCCCCHHHHHHHHHHHhc---CCc-----CceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhh
Confidence 34678899999876666554322 111 369999999999999999999987 556666655554
Q ss_pred c---cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
. .+.++....++.+|+.+.....+.|||||||+.|.+.+
T Consensus 246 ~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~ 287 (857)
T PRK10865 246 VAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAG 287 (857)
T ss_pred hhccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCC
Confidence 2 24456667889999876555557899999999998653
No 100
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.94 E-value=3.8e-10 Score=121.77 Aligned_cols=102 Identities=18% Similarity=0.192 Sum_probs=76.3
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA 428 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~ 428 (466)
....+|+++||.+..+..+...+..++....+ |||+|++||||+++|++++..+ +.+|+.++|..+++...
T Consensus 198 ~~~~~f~~~ig~s~~~~~~~~~~~~~A~~~~p------vlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~~~ 271 (520)
T PRK10820 198 NDDSAFSQIVAVSPKMRQVVEQARKLAMLDAP------LLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVV 271 (520)
T ss_pred cccccccceeECCHHHHHHHHHHHHHhCCCCC------EEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHHHH
Confidence 35678999999999888888777766665444 9999999999999999998877 46899999998865211
Q ss_pred HH--HH-----------HHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 429 QA--VT-----------KIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 429 e~--~~-----------~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
++ ++ ...++|+.+. +++|||||||.|....+
T Consensus 272 e~elFG~~~~~~~~~~~~~~g~~e~a~----~GtL~LdeI~~L~~~~Q 315 (520)
T PRK10820 272 ESELFGHAPGAYPNALEGKKGFFEQAN----GGSVLLDEIGEMSPRMQ 315 (520)
T ss_pred HHHhcCCCCCCcCCcccCCCChhhhcC----CCEEEEeChhhCCHHHH
Confidence 11 00 1123455443 78999999999976543
No 101
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=98.94 E-value=5.4e-10 Score=121.93 Aligned_cols=101 Identities=20% Similarity=0.294 Sum_probs=66.7
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~ 420 (466)
+..|++|||++.+++.|...+.. +..+..+|||||+|||||++|+.|++.+++.- ..+..
T Consensus 12 P~tFddIIGQe~vv~~L~~ai~~-------~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~ 84 (709)
T PRK08691 12 PKTFADLVGQEHVVKALQNALDE-------GRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDA 84 (709)
T ss_pred CCCHHHHcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhc
Confidence 55789999999999988876442 23345699999999999999999999875421 01111
Q ss_pred CCccc---c---hhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305 421 GDVAP---L---GAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 421 ~~l~~---~---~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~ 461 (466)
+.+.+ + ....+..++.+++.+.. ..++.||||||+|.|...
T Consensus 85 g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~ 134 (709)
T PRK08691 85 GRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKS 134 (709)
T ss_pred cCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHH
Confidence 11111 1 01123455666654432 344689999999998654
No 102
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.94 E-value=5.6e-10 Score=121.04 Aligned_cols=100 Identities=19% Similarity=0.294 Sum_probs=66.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD------------------- 414 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~------------------- 414 (466)
+.+|++|||++.++..|...+.. +....++||+||||||||++|+.||+.+.+.
T Consensus 12 P~sf~dIiGQe~v~~~L~~ai~~-------~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~ 84 (624)
T PRK14959 12 PQTFAEVAGQETVKAILSRAAQE-------NRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQ 84 (624)
T ss_pred CCCHHHhcCCHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhc
Confidence 55789999999998888876432 1112379999999999999999999998542
Q ss_pred -----chhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 415 -----YAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 415 -----~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
++.+++.. ..+.+....+...+........+.||||||+|.|....
T Consensus 85 g~hpDv~eId~a~--~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a 135 (624)
T PRK14959 85 GMHVDVVEIDGAS--NRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREA 135 (624)
T ss_pred CCCCceEEEeccc--ccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHH
Confidence 11111110 12223334444444443334457899999999997543
No 103
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.94 E-value=5e-10 Score=119.97 Aligned_cols=96 Identities=17% Similarity=0.184 Sum_probs=63.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD------------------- 414 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~------------------- 414 (466)
+..|++|||++.+++.|..++.. +..+..+|||||||||||++|+++++.+.+.
T Consensus 10 P~~~~dvvGq~~v~~~L~~~i~~-------~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~ 82 (504)
T PRK14963 10 PITFDEVVGQEHVKEVLLAALRQ-------GRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRG 82 (504)
T ss_pred CCCHHHhcChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcC
Confidence 45789999999999888876543 1222346999999999999999999988421
Q ss_pred ----chhhcCCCcccchhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305 415 ----YAMMTGGDVAPLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 415 ----~~~v~~~~l~~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~ 461 (466)
|+.+++. ...++..++.+.+.+.. ...+.||||||+|.+...
T Consensus 83 ~h~dv~el~~~-----~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~ 131 (504)
T PRK14963 83 AHPDVLEIDAA-----SNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKS 131 (504)
T ss_pred CCCceEEeccc-----ccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHH
Confidence 1111211 11123334444443332 344689999999988643
No 104
>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=98.94 E-value=1.3e-09 Score=123.45 Aligned_cols=100 Identities=19% Similarity=0.284 Sum_probs=72.7
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC----------CcchhhcCCCc
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG----------LDYAMMTGGDV 423 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~----------~~~~~v~~~~l 423 (466)
+..++++||+++...++..++.. .. ..|+||+||||||||++++.|+..+. ..++.++.+.+
T Consensus 183 ~~~ld~~iGr~~ei~~~i~~l~r---~~-----~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l 254 (852)
T TIGR03345 183 EGKIDPVLGRDDEIRQMIDILLR---RR-----QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLL 254 (852)
T ss_pred CCCCCcccCCHHHHHHHHHHHhc---CC-----cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhh
Confidence 44678999999876666544211 11 12799999999999999999998872 33444444433
Q ss_pred c---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
. .+.++....++.+|+.+...+.+.|||||||+.|.+.
T Consensus 255 ~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~ 295 (852)
T TIGR03345 255 QAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGA 295 (852)
T ss_pred hcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccC
Confidence 2 2456667899999998876555799999999999863
No 105
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=98.93 E-value=6.3e-10 Score=124.97 Aligned_cols=105 Identities=23% Similarity=0.263 Sum_probs=65.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~ 420 (466)
+.+|++|||++.+++.|...+.. +.....+|||||+|||||++|+.|++.+.+.. ..+..
T Consensus 11 P~~f~eiiGqe~v~~~L~~~i~~-------~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~ 83 (824)
T PRK07764 11 PATFAEVIGQEHVTEPLSTALDS-------GRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAP 83 (824)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHh-------CCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHc
Confidence 45789999999999988776442 11223489999999999999999999985310 11111
Q ss_pred C-----Ccccchh---HHHHHHHHHHhhh---hhccCceEEEeccccccccccCCC
Q 012305 421 G-----DVAPLGA---QAVTKIHEIFDWA---KKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 421 ~-----~l~~~~~---e~~~~l~~lf~~A---~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
+ ++..+.. -.+..++.+.+.+ ....++.|+||||+|.|....+|.
T Consensus 84 g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~Na 139 (824)
T PRK07764 84 GGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNA 139 (824)
T ss_pred CCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHH
Confidence 1 1111111 1133344443322 223457899999999998765543
No 106
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.92 E-value=8e-10 Score=119.91 Aligned_cols=104 Identities=24% Similarity=0.288 Sum_probs=65.4
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~ 420 (466)
+.+|++|||++.+++.|...+.. +..+..+|||||+|||||++|+.||+.+++.. ..++.
T Consensus 9 P~~f~eivGq~~i~~~L~~~i~~-------~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~ 81 (584)
T PRK14952 9 PATFAEVVGQEHVTEPLSSALDA-------GRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAP 81 (584)
T ss_pred CCcHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhc
Confidence 55799999999999998876432 12223479999999999999999999875311 01110
Q ss_pred ---C--Ccccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 421 ---G--DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 421 ---~--~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
+ ++..... .++..++.+.+.+. ...++.|+||||+|.|...-+|
T Consensus 82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~N 136 (584)
T PRK14952 82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFN 136 (584)
T ss_pred ccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHH
Confidence 0 1111101 12334444443332 2345789999999999765444
No 107
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=98.92 E-value=4e-10 Score=114.76 Aligned_cols=94 Identities=19% Similarity=0.151 Sum_probs=69.4
Q ss_pred eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch--hHHHHHH
Q 012305 360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG--AQAVTKI 434 (466)
Q Consensus 360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~--~e~~~~l 434 (466)
+||.+..+..+...+..+.....+ |||+|+|||||+++|++|+..+ +.+|+.|+|+.+.+.. .+.++..
T Consensus 1 liG~S~~m~~~~~~~~~~a~~~~p------VLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~~ 74 (329)
T TIGR02974 1 LIGESNAFLEVLEQVSRLAPLDRP------VLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHE 74 (329)
T ss_pred CCcCCHHHHHHHHHHHHHhCCCCC------EEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhccc
Confidence 478888888888877777665554 9999999999999999999887 4799999999875421 1111111
Q ss_pred -----------HHHHhhhhhccCceEEEeccccccccccC
Q 012305 435 -----------HEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 435 -----------~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.++|..+. +++||||||+.|....+
T Consensus 75 ~g~~~ga~~~~~G~~~~a~----gGtL~Ldei~~L~~~~Q 110 (329)
T TIGR02974 75 AGAFTGAQKRHQGRFERAD----GGTLFLDELATASLLVQ 110 (329)
T ss_pred cccccCcccccCCchhhCC----CCEEEeCChHhCCHHHH
Confidence 23344443 79999999999876543
No 108
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=98.92 E-value=3.8e-10 Score=122.27 Aligned_cols=101 Identities=22% Similarity=0.271 Sum_probs=75.0
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ 429 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e 429 (466)
....|+++||.+..+..+...+..+..+..+ |||+|+||||||++|++|+..+ +.+|+.++|+.+.....+
T Consensus 191 ~~~~~~~liG~s~~~~~~~~~~~~~a~~~~p------vli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~~~~ 264 (534)
T TIGR01817 191 RSGKEDGIIGKSPAMRQVVDQARVVARSNST------VLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLE 264 (534)
T ss_pred ccCccCceEECCHHHHHHHHHHHHHhCcCCC------EEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHHHHH
Confidence 3467899999999999998888777765444 9999999999999999999987 579999999987542111
Q ss_pred H--HHHHH-----------HHHhhhhhccCceEEEeccccccccccC
Q 012305 430 A--VTKIH-----------EIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 430 ~--~~~l~-----------~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
. ++... ++|..+ .+++||||||+.|....+
T Consensus 265 ~~lfg~~~~~~~~~~~~~~g~~~~a----~~GtL~ldei~~L~~~~Q 307 (534)
T TIGR01817 265 SELFGHEKGAFTGAIAQRKGRFELA----DGGTLFLDEIGEISPAFQ 307 (534)
T ss_pred HHHcCCCCCccCCCCcCCCCccccc----CCCeEEEechhhCCHHHH
Confidence 1 11111 122322 278999999999876544
No 109
>CHL00095 clpC Clp protease ATP binding subunit
Probab=98.92 E-value=1.1e-09 Score=124.27 Aligned_cols=99 Identities=20% Similarity=0.300 Sum_probs=76.7
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA 424 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~ 424 (466)
..++.+||.+..++++.+++.. ....|+||+||||||||++++.||..+ +.+++.++.+.+.
T Consensus 176 ~~~~~~igr~~ei~~~~~~L~r--------~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ 247 (821)
T CHL00095 176 GNLDPVIGREKEIERVIQILGR--------RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLL 247 (821)
T ss_pred CCCCCCCCcHHHHHHHHHHHcc--------cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHh
Confidence 3578899999988888776432 123479999999999999999999886 3567777765542
Q ss_pred ---cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 425 ---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 425 ---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
.+.++....+..+|+.+...+ +.|||||||+.|++..
T Consensus 248 ag~~~~ge~e~rl~~i~~~~~~~~-~~ILfiDEih~l~~~g 287 (821)
T CHL00095 248 AGTKYRGEFEERLKRIFDEIQENN-NIILVIDEVHTLIGAG 287 (821)
T ss_pred ccCCCccHHHHHHHHHHHHHHhcC-CeEEEEecHHHHhcCC
Confidence 345667788999999887554 7899999999998654
No 110
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=98.91 E-value=5.4e-10 Score=113.75 Aligned_cols=98 Identities=17% Similarity=0.140 Sum_probs=72.7
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--H
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--A 430 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~ 430 (466)
.++++||.+..+..+.+.+..+.....+ |||+|+|||||+++|++|+..+ +.+|+.++|..+.+...+ .
T Consensus 4 ~~~~liG~S~~~~~~~~~i~~~a~~~~p------VlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~~~~l 77 (326)
T PRK11608 4 YKDNLLGEANSFLEVLEQVSRLAPLDKP------VLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSEL 77 (326)
T ss_pred ccCccEECCHHHHHHHHHHHHHhCCCCC------EEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHHHHHH
Confidence 3678999999999998888887765554 9999999999999999999877 468999999987532111 0
Q ss_pred HHH-----------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305 431 VTK-----------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 431 ~~~-----------l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
++. ..+++..+. +++|||||||.|....+
T Consensus 78 fg~~~~~~~g~~~~~~g~l~~a~----gGtL~l~~i~~L~~~~Q 117 (326)
T PRK11608 78 FGHEAGAFTGAQKRHPGRFERAD----GGTLFLDELATAPMLVQ 117 (326)
T ss_pred ccccccccCCcccccCCchhccC----CCeEEeCChhhCCHHHH
Confidence 111 123344332 78999999999876543
No 111
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.90 E-value=1.1e-09 Score=119.49 Aligned_cols=104 Identities=23% Similarity=0.313 Sum_probs=66.5
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhc-
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMT- 419 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~- 419 (466)
+..|++|||++.++..|...+.. +..+..+|||||+|||||++|+.|++.+++.- ..+.
T Consensus 12 P~~f~~iiGq~~v~~~L~~~i~~-------~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~ 84 (576)
T PRK14965 12 PQTFSDLTGQEHVSRTLQNAIDT-------GRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITE 84 (576)
T ss_pred CCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhc
Confidence 46799999999999888766432 22334589999999999999999999884320 0111
Q ss_pred CC--Ccccch---hHHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 420 GG--DVAPLG---AQAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 420 ~~--~l~~~~---~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
|. ++..+. ...+..++.+.+.+. ...++.|+||||+|.|....+|
T Consensus 85 g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~n 137 (576)
T PRK14965 85 GRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFN 137 (576)
T ss_pred CCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHH
Confidence 11 111111 112334555554443 2345689999999999765443
No 112
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=98.89 E-value=4e-10 Score=116.12 Aligned_cols=101 Identities=23% Similarity=0.243 Sum_probs=74.5
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccchh
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPLGA 428 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~~~ 428 (466)
....++++||.+...+.+.+-+....... .+||++|+|||||+++|+.|+..+ +.||+.+||+++....-
T Consensus 73 ~~~~~~~LIG~~~~~~~~~eqik~~ap~~------~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~ 146 (403)
T COG1221 73 KSEALDDLIGESPSLQELREQIKAYAPSG------LPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQ 146 (403)
T ss_pred cchhhhhhhccCHHHHHHHHHHHhhCCCC------CcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHH
Confidence 34567899999888888777665543333 349999999999999999998554 57999999999876322
Q ss_pred H--HHH-----------HHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 429 Q--AVT-----------KIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 429 e--~~~-----------~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+ -++ .-.++|++|. |++||||||..|.+.-+
T Consensus 147 ~~eLFG~~kGaftGa~~~k~Glfe~A~----GGtLfLDEI~~LP~~~Q 190 (403)
T COG1221 147 EAELFGHEKGAFTGAQGGKAGLFEQAN----GGTLFLDEIHRLPPEGQ 190 (403)
T ss_pred HHHHhccccceeecccCCcCchheecC----CCEEehhhhhhCCHhHH
Confidence 2 122 2345666655 79999999999876543
No 113
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=98.88 E-value=1.5e-09 Score=112.87 Aligned_cols=109 Identities=21% Similarity=0.311 Sum_probs=70.6
Q ss_pred CCCCeeeCcchHHHHHHHHHhhcc-cccc-ccccccccccCCCCCCchHHHHHHHHhhCCcc---------------hhh
Q 012305 356 NNGDIILHPSLQRRIQHLAKATAN-TKIH-QAPFRNMLFYGPPGTGKTMVAREIARKSGLDY---------------AMM 418 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~-~~~~-~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~---------------~~v 418 (466)
.|++|||++.+++.|...+..-.. .... ...+..+||+||||||||++|+.+|+.+.... ..-
T Consensus 3 ~f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~ 82 (394)
T PRK07940 3 VWDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAG 82 (394)
T ss_pred hhhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcC
Confidence 578999999999999887665321 1111 11335799999999999999999998873321 011
Q ss_pred cCCCcccc---h-hHHHHHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305 419 TGGDVAPL---G-AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 419 ~~~~l~~~---~-~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~ 464 (466)
+.+|+... + .-.+..++.+++.+.. .+++.|+||||+|.|.....|
T Consensus 83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aan 135 (394)
T PRK07940 83 THPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAAN 135 (394)
T ss_pred CCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHH
Confidence 11222111 1 1124567777777654 234579999999999765443
No 114
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.88 E-value=1.4e-09 Score=113.59 Aligned_cols=53 Identities=28% Similarity=0.321 Sum_probs=42.3
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL 413 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~ 413 (466)
+..|++|||++.+++.|...+.. +..+..+|||||||||||++|+.+|+.+..
T Consensus 12 P~~~~eiiGq~~~~~~L~~~~~~-------~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 12 PKKFADITAQEHITRTIQNSLRM-------GRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred CCcHhhccChHHHHHHHHHHHHh-------CCcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 45789999999999988765432 222235999999999999999999998854
No 115
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=98.88 E-value=1.3e-09 Score=118.23 Aligned_cols=101 Identities=27% Similarity=0.326 Sum_probs=66.5
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc---------h----hhc-
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY---------A----MMT- 419 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~---------~----~v~- 419 (466)
+.+|++|||++.+++.|...+.. +.....+|||||+|||||++|+.+++.+++.- | .+.
T Consensus 12 P~~f~~viGq~~v~~~L~~~i~~-------~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~ 84 (559)
T PRK05563 12 PQTFEDVVGQEHITKTLKNAIKQ-------GKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITN 84 (559)
T ss_pred CCcHHhccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhc
Confidence 55799999999999988876443 22234589999999999999999999874211 0 011
Q ss_pred C--CCcccchh---HHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305 420 G--GDVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 420 ~--~~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~ 461 (466)
+ .++..+.. .++..++.+.+.+.. ..++.|+||||+|.|...
T Consensus 85 g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~ 134 (559)
T PRK05563 85 GSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTG 134 (559)
T ss_pred CCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHH
Confidence 1 12211111 224455566555442 345789999999998654
No 116
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=98.88 E-value=1.4e-09 Score=117.50 Aligned_cols=101 Identities=23% Similarity=0.253 Sum_probs=63.5
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc--c----------h-hhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD--Y----------A-MMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~--~----------~-~v~~ 420 (466)
+..|+++||++.++..+...+.. +..+..+||+||||||||++|+.+|+.+.+. . | .+..
T Consensus 12 P~~F~dIIGQe~iv~~L~~aI~~-------~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~ 84 (605)
T PRK05896 12 PHNFKQIIGQELIKKILVNAILN-------NKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINT 84 (605)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHc
Confidence 45789999999999888765322 2233569999999999999999999987321 0 0 0000
Q ss_pred ---CCcccch---hHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305 421 ---GDVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 421 ---~~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~ 461 (466)
.++..+. .-++..++.+.+.+.. ..++.|+||||+|.|...
T Consensus 85 ~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~ 134 (605)
T PRK05896 85 NQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTS 134 (605)
T ss_pred CCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHH
Confidence 1111111 0123345555544432 234679999999998654
No 117
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 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 ATPase AAA-2 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 []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=98.87 E-value=2.6e-10 Score=105.51 Aligned_cols=74 Identities=22% Similarity=0.353 Sum_probs=52.1
Q ss_pred ccccccccCCCCCCchHHHHHHHHhhCC----cchhhcCCCcccchhHHHHHHHHHHhhhh---hccCceEEEecccccc
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKSGL----DYAMMTGGDVAPLGAQAVTKIHEIFDWAK---KSKKGLLLFIDEADAF 458 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l~~----~~~~v~~~~l~~~~~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l 458 (466)
|..++||+||+|||||.+|++|+..+.. +++.++++.+.. +.+....+..++..+. ....++||||||||..
T Consensus 2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~-~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa 80 (171)
T PF07724_consen 2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSE-GDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKA 80 (171)
T ss_dssp -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCS-HHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGC
T ss_pred CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccc-cchHHhhhhhhhhcccceeeccchhhhhhHHHhhc
Confidence 5568999999999999999999999985 889999888765 2222222223332211 1222579999999999
Q ss_pred cc
Q 012305 459 LC 460 (466)
Q Consensus 459 ~~ 460 (466)
++
T Consensus 81 ~~ 82 (171)
T PF07724_consen 81 HP 82 (171)
T ss_dssp SH
T ss_pred cc
Confidence 87
No 118
>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=98.87 E-value=3e-09 Score=109.39 Aligned_cols=106 Identities=17% Similarity=0.259 Sum_probs=70.6
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC---------CcchhhcCCC
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---------LDYAMMTGGD 422 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---------~~~~~v~~~~ 422 (466)
.+.+..++++|.+.-.+.|...+...... ..+.+++||||||||||++++.+++.+. ..++.++|..
T Consensus 9 ~~~~~p~~l~gRe~e~~~l~~~l~~~~~~----~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~ 84 (365)
T TIGR02928 9 EPDYVPDRIVHRDEQIEELAKALRPILRG----SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQI 84 (365)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCC
Confidence 44555678999988888887766543321 2234799999999999999999988762 4577788765
Q ss_pred cccc---------------------hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 423 VAPL---------------------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 423 l~~~---------------------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
.... +......+..++......+++.||+|||+|.|...
T Consensus 85 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~ 144 (365)
T TIGR02928 85 LDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGD 144 (365)
T ss_pred CCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccC
Confidence 4210 00111223445555544455789999999999743
No 119
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=98.86 E-value=5.3e-10 Score=118.94 Aligned_cols=188 Identities=17% Similarity=0.200 Sum_probs=112.5
Q ss_pred ccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhC
Q 012305 233 KLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILG 312 (466)
Q Consensus 233 ~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg 312 (466)
...+|+.+.++.++. .+...++..|... ++..+++++++.......+.+.+.| +.+|+.+++.
T Consensus 45 ~~~~DlvllD~~lp~-~dgl~~l~~ir~~-------------~~~~pvIvlt~~~~~~~~~~a~~~G---a~~~l~KP~~ 107 (469)
T PRK10923 45 SKTPDVLLSDIRMPG-MDGLALLKQIKQR-------------HPMLPVIIMTAHSDLDAAVSAYQQG---AFDYLPKPFD 107 (469)
T ss_pred cCCCCEEEECCCCCC-CCHHHHHHHHHhh-------------CCCCeEEEEECCCCHHHHHHHHhcC---cceEEecCCc
Confidence 445677776655543 2444455444432 3456777888877777777777777 4566666655
Q ss_pred CCccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccc
Q 012305 313 QPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLF 392 (466)
Q Consensus 313 ~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl 392 (466)
...+... +...+........ .. .......+.+++|.+.....+...+..+..... ++||
T Consensus 108 ~~~L~~~-----------i~~~l~~~~~~~~---~~-~~~~~~~~~~lig~s~~~~~l~~~~~~~~~~~~------~vli 166 (469)
T PRK10923 108 IDEAVAL-----------VERAISHYQEQQQ---PR-NIQVNGPTTDIIGEAPAMQDVFRIIGRLSRSSI------SVLI 166 (469)
T ss_pred HHHHHHH-----------HHHHHHHHHHHHh---hh-hhhhccccccceecCHHHHHHHHHHHHHhccCC------eEEE
Confidence 4443221 1111111000000 00 011123456799998888888776665554433 3999
Q ss_pred cCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh--HHHHHH-----------HHHHhhhhhccCceEEEecccc
Q 012305 393 YGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA--QAVTKI-----------HEIFDWAKKSKKGLLLFIDEAD 456 (466)
Q Consensus 393 ~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~--e~~~~l-----------~~lf~~A~~~~~~~iLflDEid 456 (466)
+|++|||||++|++++..+ +.+|+.++|+.+..... ...+.. .+.|..+ .+++|||||||
T Consensus 167 ~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~~~~~lfg~~~g~~~~~~~~~~g~~~~a----~~Gtl~l~~i~ 242 (469)
T PRK10923 167 NGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANTIRQGRFEQA----DGGTLFLDEIG 242 (469)
T ss_pred EeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHHHHHHhcCCCCCCCCCCCcCCCCCeeEC----CCCEEEEeccc
Confidence 9999999999999999987 47899999998753111 111111 1223332 27899999999
Q ss_pred cccccc
Q 012305 457 AFLCDN 462 (466)
Q Consensus 457 ~l~~~r 462 (466)
.|....
T Consensus 243 ~l~~~~ 248 (469)
T PRK10923 243 DMPLDV 248 (469)
T ss_pred cCCHHH
Confidence 887543
No 120
>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=98.86 E-value=2.7e-09 Score=121.43 Aligned_cols=99 Identities=19% Similarity=0.293 Sum_probs=71.8
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV 423 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l 423 (466)
...++.+||++....++..++.. . ...|+||+||||||||++++.|+..+ +++++.++.+.+
T Consensus 169 ~~~~~~~igr~~ei~~~~~~l~r---~-----~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l 240 (852)
T TIGR03346 169 EGKLDPVIGRDEEIRRTIQVLSR---R-----TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGAL 240 (852)
T ss_pred CCCCCcCCCcHHHHHHHHHHHhc---C-----CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHH
Confidence 34678899999876666554322 1 12369999999999999999999886 445555554443
Q ss_pred c---cchhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305 424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
. .+.++....+..+|+.+.....+.|||||||+.|.+
T Consensus 241 ~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~ 280 (852)
T TIGR03346 241 IAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVG 280 (852)
T ss_pred hhcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhc
Confidence 1 244556678889998886555579999999999985
No 121
>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=98.86 E-value=2.4e-09 Score=92.19 Aligned_cols=74 Identities=30% Similarity=0.479 Sum_probs=55.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCc---chhhcCCCccc---------------chhHHHHHHHHHHhhhhhccCceE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLD---YAMMTGGDVAP---------------LGAQAVTKIHEIFDWAKKSKKGLL 449 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~---~~~v~~~~l~~---------------~~~e~~~~l~~lf~~A~~~~~~~i 449 (466)
.+++|+||||||||++++.++..++.. ++.++++.... ...........++..+.... +++
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~v 81 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLK-PDV 81 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcC-CCE
Confidence 479999999999999999999999664 66666654322 11223455677888887655 699
Q ss_pred EEecccccccccc
Q 012305 450 LFIDEADAFLCDN 462 (466)
Q Consensus 450 LflDEid~l~~~r 462 (466)
|||||++.+....
T Consensus 82 iiiDei~~~~~~~ 94 (148)
T smart00382 82 LILDEITSLLDAE 94 (148)
T ss_pred EEEECCcccCCHH
Confidence 9999999987643
No 122
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=98.85 E-value=1.3e-09 Score=110.53 Aligned_cols=62 Identities=24% Similarity=0.377 Sum_probs=46.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC-----CcchhhcCCCc
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMTGGDV 423 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~~~~l 423 (466)
+..|++++|++.+...+..++.. +.. .++|||||||||||++|+++++.+. .+++.+++.++
T Consensus 11 P~~~~~~~g~~~~~~~L~~~~~~------~~~--~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~ 77 (337)
T PRK12402 11 PALLEDILGQDEVVERLSRAVDS------PNL--PHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADF 77 (337)
T ss_pred CCcHHHhcCCHHHHHHHHHHHhC------CCC--ceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhh
Confidence 44689999999998888776432 112 2699999999999999999999873 34566676554
No 123
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=98.85 E-value=1.2e-09 Score=117.54 Aligned_cols=98 Identities=22% Similarity=0.347 Sum_probs=74.7
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--H
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--A 430 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~ 430 (466)
.+.++||.+..+..+...+..++....+ |||+|++|||||++|++|+..+ +.+|+.++|..+.....+ .
T Consensus 185 ~~~~iig~s~~~~~~~~~i~~~a~~~~p------VlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~~e~~l 258 (509)
T PRK05022 185 KEGEMIGQSPAMQQLKKEIEVVAASDLN------VLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESEL 258 (509)
T ss_pred cCCceeecCHHHHHHHHHHHHHhCCCCc------EEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHHHHHHh
Confidence 5678999999999999888887776554 9999999999999999999987 579999999988642111 1
Q ss_pred HHHH-----------HHHHhhhhhccCceEEEeccccccccccC
Q 012305 431 VTKI-----------HEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 431 ~~~l-----------~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
++.. .+.|..+. +++|||||||.|....+
T Consensus 259 fG~~~g~~~ga~~~~~g~~~~a~----gGtL~ldeI~~L~~~~Q 298 (509)
T PRK05022 259 FGHVKGAFTGAISNRSGKFELAD----GGTLFLDEIGELPLALQ 298 (509)
T ss_pred cCccccccCCCcccCCcchhhcC----CCEEEecChhhCCHHHH
Confidence 1111 12344333 78999999999976543
No 124
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=98.84 E-value=4.1e-10 Score=119.25 Aligned_cols=165 Identities=17% Similarity=0.170 Sum_probs=97.5
Q ss_pred cccceeeeechhhhhhhheeecccCceehhhhhhhhhCCCccccccccCCCchhhhhHHHHHHhhhccccccccCccccc
Q 012305 275 DRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAI 354 (466)
Q Consensus 275 d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (466)
++..+++++++.......+.+.+.| +.+|+.+++....+..... ......................
T Consensus 74 ~~~~pvI~lt~~~~~~~~~~a~~~G---a~d~l~KP~~~~~L~~~i~-----------~~l~~~~l~~~~~~l~~~l~~~ 139 (457)
T PRK11361 74 ETRTPVILMTAYAEVETAVEALRCG---AFDYVIKPFDLDELNLIVQ-----------RALQLQSMKKEIRHLHQALSTS 139 (457)
T ss_pred CCCCCEEEEeCCCCHHHHHHHHHCC---ccEEEecccCHHHHHHHHh-----------hhccccccchhhhhhhhhhhcc
Confidence 3556777788887777777777777 5556666554333221111 0000000000000001111122
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH-
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA- 430 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~- 430 (466)
..+.+++|.+.....+...+..+..... ++|++|++||||+++|++++..+ +.+|+.++|..+.+...++
T Consensus 140 ~~~~~ii~~S~~~~~~~~~~~~~a~~~~------~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~~~~~ 213 (457)
T PRK11361 140 WQWGHILTNSPAMMDICKDTAKIALSQA------SVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESE 213 (457)
T ss_pred ccccceecccHHHhHHHHHHHHHcCCCc------EEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHHHHHH
Confidence 3456788988877777766666555444 39999999999999999998876 5789999999875421110
Q ss_pred -HHH-----------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305 431 -VTK-----------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 431 -~~~-----------l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.+. ..+++..+. +++|||||||.|....+
T Consensus 214 lfg~~~~~~~~~~~~~~g~~~~a~----~gtl~ld~i~~l~~~~q 254 (457)
T PRK11361 214 LFGHEKGAFTGAQTLRQGLFERAN----EGTLLLDEIGEMPLVLQ 254 (457)
T ss_pred hcCCCCCCCCCCCCCCCCceEECC----CCEEEEechhhCCHHHH
Confidence 000 012333332 68999999999976543
No 125
>PRK06893 DNA replication initiation factor; Validated
Probab=98.84 E-value=3e-09 Score=102.93 Aligned_cols=96 Identities=9% Similarity=0.089 Sum_probs=57.6
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL 426 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~ 426 (466)
...+..+|+++|+.+...- +..+...... .....++||||||||||+|++++|+.+ +.++..++......
T Consensus 8 ~~~~~~~fd~f~~~~~~~~-~~~~~~~~~~-----~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~- 80 (229)
T PRK06893 8 HQIDDETLDNFYADNNLLL-LDSLRKNFID-----LQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY- 80 (229)
T ss_pred CCCCcccccccccCChHHH-HHHHHHHhhc-----cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhh-
Confidence 3456778999998776542 2223222211 112358999999999999999999886 33333333321111
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
....+++... ..++||||||+.+.++
T Consensus 81 ------~~~~~~~~~~---~~dlLilDDi~~~~~~ 106 (229)
T PRK06893 81 ------FSPAVLENLE---QQDLVCLDDLQAVIGN 106 (229)
T ss_pred ------hhHHHHhhcc---cCCEEEEeChhhhcCC
Confidence 1112333332 3679999999987644
No 126
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=98.83 E-value=2.2e-09 Score=119.71 Aligned_cols=100 Identities=22% Similarity=0.245 Sum_probs=74.3
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch--h
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG--A 428 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~--~ 428 (466)
...|+++||.+..+..+...+..+.....+ |||+|+||||||++|++|+..+ +.+|+.++|..+.... .
T Consensus 372 n~~~~~liG~S~~~~~~~~~~~~~a~~~~p------VLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~~~~~ 445 (686)
T PRK15429 372 DSEFGEIIGRSEAMYSVLKQVEMVAQSDST------VLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLES 445 (686)
T ss_pred cccccceeecCHHHHHHHHHHHHHhCCCCC------EEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChhHhhh
Confidence 357889999999999988877776655444 9999999999999999999877 5799999999875311 1
Q ss_pred HHH-----------HHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 429 QAV-----------TKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 429 e~~-----------~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
+.+ ....+.|+.+. +++||||||+.|...-+
T Consensus 446 ~lfg~~~~~~~g~~~~~~g~le~a~----~GtL~Ldei~~L~~~~Q 487 (686)
T PRK15429 446 DLFGHERGAFTGASAQRIGRFELAD----KSSLFLDEVGDMPLELQ 487 (686)
T ss_pred hhcCcccccccccccchhhHHHhcC----CCeEEEechhhCCHHHH
Confidence 111 11223444443 78999999999876543
No 127
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=98.83 E-value=2.5e-09 Score=113.30 Aligned_cols=52 Identities=23% Similarity=0.296 Sum_probs=42.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
+.+|++|||++.++..|...+.. +..+.++|||||||||||++|+.+++.+.
T Consensus 13 P~~~~diiGq~~~v~~L~~~i~~-------~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~ 64 (451)
T PRK06305 13 PQTFSEILGQDAVVAVLKNALRF-------NRAAHAYLFSGIRGTGKTTLARIFAKALN 64 (451)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence 45799999999999888765432 22334699999999999999999999873
No 128
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.82 E-value=2.9e-09 Score=109.98 Aligned_cols=100 Identities=22% Similarity=0.293 Sum_probs=65.3
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-------cc
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-------PL 426 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-------~~ 426 (466)
+..|+++||++.+.+.+...+.. +..+.++|||||||+|||++++.+++.++.......+.++. ..
T Consensus 13 P~~~~~iig~~~~~~~l~~~i~~-------~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~ 85 (367)
T PRK14970 13 PQTFDDVVGQSHITNTLLNAIEN-------NHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAA 85 (367)
T ss_pred CCcHHhcCCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccc
Confidence 45789999999998887765432 23345799999999999999999999885422111111110 01
Q ss_pred hhHHHHHHHHHHhhhhh---ccCceEEEecccccccc
Q 012305 427 GAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLC 460 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~ 460 (466)
.......+..+++.+.. .+.+.||||||+|.+..
T Consensus 86 ~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~ 122 (367)
T PRK14970 86 SNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSS 122 (367)
T ss_pred cCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCH
Confidence 11123455666665443 23357999999998864
No 129
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=98.82 E-value=1.9e-09 Score=119.19 Aligned_cols=100 Identities=19% Similarity=0.263 Sum_probs=74.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH-
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ- 429 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e- 429 (466)
..+|++++|.+..+..+...+..+.....+ |||+|+|||||+++|++|+..+ +.+|+.++|+.++....+
T Consensus 321 ~~~~~~l~g~s~~~~~~~~~~~~~a~~~~p------vli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~~~~ 394 (638)
T PRK11388 321 SHTFDHMPQDSPQMRRLIHFGRQAAKSSFP------VLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALAE 394 (638)
T ss_pred cccccceEECCHHHHHHHHHHHHHhCcCCC------EEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHHHHH
Confidence 346899999999999888877777665444 9999999999999999999987 479999999988641111
Q ss_pred -HHH--------HHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 430 -AVT--------KIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 430 -~~~--------~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
..+ ...+.|+.+. +++||||||+.|....+
T Consensus 395 elfg~~~~~~~~~~~g~~~~a~----~GtL~ldei~~l~~~~Q 433 (638)
T PRK11388 395 EFLGSDRTDSENGRLSKFELAH----GGTLFLEKVEYLSPELQ 433 (638)
T ss_pred HhcCCCCcCccCCCCCceeECC----CCEEEEcChhhCCHHHH
Confidence 000 0112343332 78999999999876544
No 130
>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=98.82 E-value=3.2e-09 Score=101.62 Aligned_cols=92 Identities=16% Similarity=0.256 Sum_probs=59.7
Q ss_pred ccccCCCCeee--CcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc
Q 012305 352 EAIKNNGDIIL--HPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL 426 (466)
Q Consensus 352 ~~~~~l~~vVg--~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~ 426 (466)
....+|++++. +......+..++ . .....+++||||||||||++++++++.+ +.+++.++|..+...
T Consensus 9 ~~~~~~~~~~~~~~~~~~~~l~~~~---~-----~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~ 80 (226)
T TIGR03420 9 PDDPTFDNFYAGGNAELLAALRQLA---A-----GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQA 80 (226)
T ss_pred CCchhhcCcCcCCcHHHHHHHHHHH---h-----cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHh
Confidence 34567888883 223444444432 1 1223579999999999999999999887 456777777655321
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
. ..++.... ..++|||||+|.+...
T Consensus 81 ~-------~~~~~~~~---~~~lLvIDdi~~l~~~ 105 (226)
T TIGR03420 81 D-------PEVLEGLE---QADLVCLDDVEAIAGQ 105 (226)
T ss_pred H-------HHHHhhcc---cCCEEEEeChhhhcCC
Confidence 1 23333322 2469999999998653
No 131
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.81 E-value=2.9e-09 Score=113.64 Aligned_cols=102 Identities=23% Similarity=0.284 Sum_probs=63.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------chhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-------------YAMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------~~~v~~ 420 (466)
+..|+++||++.++..|...+.. +.....+|||||||||||++|+.+|..+++. +..+.+
T Consensus 12 P~~f~diiGq~~i~~~L~~~i~~-------~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~ 84 (486)
T PRK14953 12 PKFFKEVIGQEIVVRILKNAVKL-------QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDK 84 (486)
T ss_pred CCcHHHccChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhc
Confidence 45789999999999988765432 2222347899999999999999999987421 111222
Q ss_pred CCccc---------chhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 421 GDVAP---------LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 421 ~~l~~---------~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
+..++ .+.+....+...+......+.+.|+||||+|.|....
T Consensus 85 g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a 135 (486)
T PRK14953 85 GSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEA 135 (486)
T ss_pred CCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHH
Confidence 22111 1222222333333333333456899999999987543
No 132
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=98.81 E-value=6.8e-09 Score=107.92 Aligned_cols=103 Identities=16% Similarity=0.245 Sum_probs=67.3
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCccc--
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAP-- 425 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~-- 425 (466)
+....+.++|.+.-...|...+..... +..+.+++||||||||||++++.+++.+ +..++.++|.....
T Consensus 25 ~~~~P~~l~~Re~e~~~l~~~l~~~~~----~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~ 100 (394)
T PRK00411 25 PDYVPENLPHREEQIEELAFALRPALR----GSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRY 100 (394)
T ss_pred CCCcCCCCCCHHHHHHHHHHHHHHHhC----CCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHH
Confidence 334456688887777777665543222 1223479999999999999999999877 46688888865321
Q ss_pred -----------------chhHHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305 426 -----------------LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 426 -----------------~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
.+......+..+++.....+++.||+|||+|.+.
T Consensus 101 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~ 151 (394)
T PRK00411 101 AIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLF 151 (394)
T ss_pred HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhh
Confidence 0111112233444444444557899999999987
No 133
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=98.79 E-value=4.1e-09 Score=114.28 Aligned_cols=102 Identities=20% Similarity=0.238 Sum_probs=65.1
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhh-c
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMM-T 419 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v-~ 419 (466)
+..|++|||++.++..|...+.. +..+..+|||||||||||++|++|++.++..- ..+ +
T Consensus 12 P~~f~diiGqe~iv~~L~~~i~~-------~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~ 84 (563)
T PRK06647 12 PRDFNSLEGQDFVVETLKHSIES-------NKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDN 84 (563)
T ss_pred CCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHc
Confidence 55789999999999988776532 22334599999999999999999999885320 001 1
Q ss_pred CC--Ccccchh---HHHHHHHHHHhhhh---hccCceEEEecccccccccc
Q 012305 420 GG--DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 420 ~~--~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r 462 (466)
+. ++..+.+ .....++.+.+.+. ...++.|+||||+|.|....
T Consensus 85 ~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a 135 (563)
T PRK06647 85 DNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSA 135 (563)
T ss_pred CCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHH
Confidence 11 1111111 12334455543332 23457899999999997543
No 134
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=4.6e-09 Score=107.27 Aligned_cols=73 Identities=26% Similarity=0.476 Sum_probs=59.8
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc---cchhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA---PLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~---~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~ 461 (466)
||||.||+|+|||+||+.||+.++.||++.+|..+. +.|-+-.+.|.+|+..|.- ....+||||||+|.+...
T Consensus 228 NvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~~ 306 (564)
T KOG0745|consen 228 NVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITKK 306 (564)
T ss_pred cEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhccc
Confidence 799999999999999999999999999999999885 3455556777888776542 112489999999998743
No 135
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=98.78 E-value=1.6e-09 Score=96.41 Aligned_cols=83 Identities=27% Similarity=0.458 Sum_probs=60.9
Q ss_pred eeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC---cchhhcCCCcccchhHHHHHHHHH
Q 012305 361 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL---DYAMMTGGDVAPLGAQAVTKIHEI 437 (466)
Q Consensus 361 Vg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~---~~~~v~~~~l~~~~~e~~~~l~~l 437 (466)
||.+..++.+..-+..+.....+ |||+|+|||||+++|+.|+...+. +|+.++|..+. ..+
T Consensus 1 vG~S~~~~~l~~~l~~~a~~~~p------vli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~----------~~~ 64 (138)
T PF14532_consen 1 VGKSPAMRRLRRQLERLAKSSSP------VLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP----------AEL 64 (138)
T ss_dssp --SCHHHHHHHHHHHHHHCSSS-------EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC----------HHH
T ss_pred CCCCHHHHHHHHHHHHHhCCCCc------EEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc----------HHH
Confidence 57888888888887777766555 999999999999999999998853 56666666543 334
Q ss_pred HhhhhhccCceEEEeccccccccccC
Q 012305 438 FDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 438 f~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
++.+ .+++|||++||.|....+
T Consensus 65 l~~a----~~gtL~l~~i~~L~~~~Q 86 (138)
T PF14532_consen 65 LEQA----KGGTLYLKNIDRLSPEAQ 86 (138)
T ss_dssp HHHC----TTSEEEEECGCCS-HHHH
T ss_pred HHHc----CCCEEEECChHHCCHHHH
Confidence 4544 388999999999976543
No 136
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=98.78 E-value=5.1e-09 Score=114.19 Aligned_cols=102 Identities=22% Similarity=0.239 Sum_probs=68.4
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc-------C------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT-------G------ 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~-------~------ 420 (466)
+.+|++|||++.+++.|...+.. +..+..+|||||+|||||++|+.||+.+.+.....+ |
T Consensus 20 P~~f~dliGq~~~v~~L~~~~~~-------gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C 92 (598)
T PRK09111 20 PQTFDDLIGQEAMVRTLTNAFET-------GRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHC 92 (598)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHH
Confidence 45799999999999998875432 233457999999999999999999998854321111 1
Q ss_pred --------CCcccch---hHHHHHHHHHHhhhhh---ccCceEEEecccccccccc
Q 012305 421 --------GDVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 421 --------~~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r 462 (466)
.|+..+. .-.+..++.+++.+.. ..++.||||||+|.|...-
T Consensus 93 ~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a 148 (598)
T PRK09111 93 QAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAA 148 (598)
T ss_pred HHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHH
Confidence 1111111 1124456666666543 3357899999999997543
No 137
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=98.77 E-value=3.3e-09 Score=102.13 Aligned_cols=90 Identities=16% Similarity=0.276 Sum_probs=57.8
Q ss_pred cccccCCCCeeeCc--chHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc
Q 012305 351 VEAIKNNGDIILHP--SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP 425 (466)
Q Consensus 351 ~~~~~~l~~vVg~~--~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~ 425 (466)
...+.+|+++++.. .+...+..+. . ...+..+++|+||||||||++++++++.+ +.+++.+++.++..
T Consensus 11 ~~~~~~~d~f~~~~~~~~~~~l~~~~---~----~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~ 83 (227)
T PRK08903 11 PPPPPTFDNFVAGENAELVARLRELA---A----GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLL 83 (227)
T ss_pred CCChhhhcccccCCcHHHHHHHHHHH---h----ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHH
Confidence 34567889988433 2333333322 1 12233579999999999999999999876 56777777755321
Q ss_pred chhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
.+.. ...+++|||||+|.+.+.
T Consensus 84 -----------~~~~---~~~~~~liiDdi~~l~~~ 105 (227)
T PRK08903 84 -----------AFDF---DPEAELYAVDDVERLDDA 105 (227)
T ss_pred -----------HHhh---cccCCEEEEeChhhcCch
Confidence 1111 122679999999987543
No 138
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=98.77 E-value=5.6e-09 Score=111.98 Aligned_cols=104 Identities=21% Similarity=0.262 Sum_probs=65.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc--------hhhcC-----
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY--------AMMTG----- 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~--------~~v~~----- 420 (466)
+.+|+++||++.+++.|...+.. +..+..+|||||||||||++|+.+++.+...- ..-+|
T Consensus 10 P~~fdeiiGqe~v~~~L~~~I~~-------grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~ 82 (535)
T PRK08451 10 PKHFDELIGQESVSKTLSLALDN-------NRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALE 82 (535)
T ss_pred CCCHHHccCcHHHHHHHHHHHHc-------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhh
Confidence 45789999999999888876532 22334579999999999999999999873210 00000
Q ss_pred ---CCcccchhH---HHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 421 ---GDVAPLGAQ---AVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 421 ---~~l~~~~~e---~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
.++...... +...++.+.+... ..+++.|+||||+|.|...-++
T Consensus 83 ~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~N 135 (535)
T PRK08451 83 NRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFN 135 (535)
T ss_pred cCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHH
Confidence 011111111 1344555554422 2244689999999999765443
No 139
>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=98.76 E-value=1.5e-08 Score=88.27 Aligned_cols=71 Identities=35% Similarity=0.480 Sum_probs=48.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHHHHHH---HHHHhhhhhccCceEEEecccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQAVTKI---HEIFDWAKKSKKGLLLFIDEADAF 458 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~~~~l---~~lf~~A~~~~~~~iLflDEid~l 458 (466)
++++|+||||||||++++.++..+ +.+++.+++.............. ...+........+++|||||++.+
T Consensus 20 ~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDe~~~~ 96 (151)
T cd00009 20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSL 96 (151)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCCeEEEEeChhhh
Confidence 479999999999999999999998 78888888776543211111000 111122222334789999999976
No 140
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.76 E-value=6e-09 Score=114.25 Aligned_cols=101 Identities=22% Similarity=0.283 Sum_probs=68.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh----hcCC--------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM----MTGG-------- 421 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~----v~~~-------- 421 (466)
+..|+++||++.++..|...+.. +....++|||||||||||++|+.+|+.+++.... ..|+
T Consensus 12 P~~f~~liGq~~i~~~L~~~l~~-------~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i 84 (620)
T PRK14948 12 PQRFDELVGQEAIATTLKNALIS-------NRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAI 84 (620)
T ss_pred CCcHhhccChHHHHHHHHHHHHc-------CCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHH
Confidence 45789999999999998876543 1122479999999999999999999998542110 1111
Q ss_pred ------Ccccc---hhHHHHHHHHHHhhhhhc---cCceEEEeccccccccc
Q 012305 422 ------DVAPL---GAQAVTKIHEIFDWAKKS---KKGLLLFIDEADAFLCD 461 (466)
Q Consensus 422 ------~l~~~---~~e~~~~l~~lf~~A~~~---~~~~iLflDEid~l~~~ 461 (466)
++..+ ....+..++.+++.+... .++.||||||+|.|...
T Consensus 85 ~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~ 136 (620)
T PRK14948 85 AAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTA 136 (620)
T ss_pred hcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHH
Confidence 11111 112345677777666532 44689999999998654
No 141
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.76 E-value=4.9e-09 Score=114.68 Aligned_cols=52 Identities=21% Similarity=0.339 Sum_probs=41.7
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
+.+|++|||++.+++.|...+.. +.....+|||||||||||++|+.|++.++
T Consensus 12 P~~~~eiiGq~~~~~~L~~~i~~-------~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 12 SQTFAELVGQEHVVQTLRNAIAE-------GRVAHAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred CCCHHHhcCCHHHHHHHHHHHHh-------CCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 45789999999999988765432 11223579999999999999999999874
No 142
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=98.76 E-value=6.8e-09 Score=110.20 Aligned_cols=106 Identities=15% Similarity=0.181 Sum_probs=66.9
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA 424 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~ 424 (466)
...+.++|+++|..+.....+..+.....++ +.++.+++||||||||||+|++++++.+ +..++.+++.++.
T Consensus 114 ~l~~~~tfd~fv~g~~n~~a~~~~~~~~~~~---~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~ 190 (450)
T PRK00149 114 PLNPKYTFDNFVVGKSNRLAHAAALAVAENP---GKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFT 190 (450)
T ss_pred CCCCCCcccccccCCCcHHHHHHHHHHHhCc---CccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH
Confidence 4567789999775556555555444443332 2344569999999999999999999987 4556677766543
Q ss_pred cchhHHH--HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 425 PLGAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 425 ~~~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
....... .....+.+.. ...++||||||+.+.++
T Consensus 191 ~~~~~~~~~~~~~~~~~~~---~~~dlLiiDDi~~l~~~ 226 (450)
T PRK00149 191 NDFVNALRNNTMEEFKEKY---RSVDVLLIDDIQFLAGK 226 (450)
T ss_pred HHHHHHHHcCcHHHHHHHH---hcCCEEEEehhhhhcCC
Confidence 2111111 1112222222 23679999999998654
No 143
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=98.76 E-value=1e-07 Score=107.16 Aligned_cols=100 Identities=24% Similarity=0.286 Sum_probs=68.2
Q ss_pred CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------chh
Q 012305 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LGA 428 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~~ 428 (466)
+.+|...+++++...+......... ....++|+||||||||++++.++..++.+|+.++++.+.. +.+
T Consensus 323 ~~~g~~~vK~~i~~~l~~~~~~~~~--~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~~~~~g 400 (784)
T PRK10787 323 DHYGLERVKDRILEYLAVQSRVNKI--KGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIG 400 (784)
T ss_pred hccCHHHHHHHHHHHHHHHHhcccC--CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccchhccCC
Confidence 4789999999987655543322211 1235999999999999999999999999998888766432 111
Q ss_pred HHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
...+.+...+..+.. .+.||||||||.+..+.
T Consensus 401 ~~~G~~~~~l~~~~~--~~~villDEidk~~~~~ 432 (784)
T PRK10787 401 SMPGKLIQKMAKVGV--KNPLFLLDEIDKMSSDM 432 (784)
T ss_pred CCCcHHHHHHHhcCC--CCCEEEEEChhhccccc
Confidence 122333344444332 24589999999998764
No 144
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=98.76 E-value=5.1e-09 Score=115.28 Aligned_cols=102 Identities=25% Similarity=0.315 Sum_probs=66.3
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh---hcC----------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM---MTG---------- 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~---v~~---------- 420 (466)
+..|++|||++.+++.|...+.. +..+..+|||||||||||++|+.+|+.+.+.-.. -.|
T Consensus 14 P~~f~dIiGQe~~v~~L~~aI~~-------~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~ 86 (725)
T PRK07133 14 PKTFDDIVGQDHIVQTLKNIIKS-------NKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNS 86 (725)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCC
Confidence 45789999999999888776432 2233458999999999999999999987432100 001
Q ss_pred CCcccchh---HHHHHHHHHHhhhhh---ccCceEEEecccccccccc
Q 012305 421 GDVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 421 ~~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r 462 (466)
.++....+ .++..++.+.+.+.. .+++.|+||||+|.|....
T Consensus 87 ~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A 134 (725)
T PRK07133 87 LDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSA 134 (725)
T ss_pred CcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHH
Confidence 01111111 124445666665553 3456899999999987543
No 145
>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=98.76 E-value=2.8e-09 Score=115.27 Aligned_cols=62 Identities=23% Similarity=0.396 Sum_probs=47.3
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCC
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGD 422 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~ 422 (466)
.+.+|+++||++..++.+...+ ... .+.++|||||||||||++|++++..+ +.+|+.++|..
T Consensus 60 rp~~f~~iiGqs~~i~~l~~al---~~~-----~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~ 131 (531)
T TIGR02902 60 RPKSFDEIIGQEEGIKALKAAL---CGP-----NPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATT 131 (531)
T ss_pred CcCCHHHeeCcHHHHHHHHHHH---hCC-----CCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcccc
Confidence 4567899999999998887542 111 12479999999999999999998753 35788888864
No 146
>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=98.75 E-value=7.4e-09 Score=105.98 Aligned_cols=101 Identities=28% Similarity=0.343 Sum_probs=64.4
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch-------------hh-c
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA-------------MM-T 419 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~-------------~v-~ 419 (466)
+..|+++||++..++.+...+.. +..+..+|||||||+|||++|+.+++.+..+-. .+ .
T Consensus 10 p~~~~~iig~~~~~~~l~~~~~~-------~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~ 82 (355)
T TIGR02397 10 PQTFEDVIGQEHIVQTLKNAIKN-------GRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINS 82 (355)
T ss_pred CCcHhhccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence 45789999999999988765432 223346899999999999999999988742200 00 0
Q ss_pred C--CCcccc---hhHHHHHHHHHHhhhhhc---cCceEEEeccccccccc
Q 012305 420 G--GDVAPL---GAQAVTKIHEIFDWAKKS---KKGLLLFIDEADAFLCD 461 (466)
Q Consensus 420 ~--~~l~~~---~~e~~~~l~~lf~~A~~~---~~~~iLflDEid~l~~~ 461 (466)
+ .++..+ .......++.+++.+... +.+.||||||+|.|...
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~ 132 (355)
T TIGR02397 83 GSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKS 132 (355)
T ss_pred CCCCCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHH
Confidence 1 111111 111233456666655432 33579999999988643
No 147
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=98.74 E-value=9.6e-09 Score=108.64 Aligned_cols=110 Identities=16% Similarity=0.236 Sum_probs=66.3
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhcccc-ccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTK-IHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP 425 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~-~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~ 425 (466)
..++..+|+++|..+........+.....+.. .++.++.+++||||||||||+|++++++.+ +..++.+++.++..
T Consensus 103 ~l~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~ 182 (445)
T PRK12422 103 ELDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTE 182 (445)
T ss_pred CCCccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHH
Confidence 35677899999855555544333333322221 223355679999999999999999999877 56666666654432
Q ss_pred chhHHHH-HHHHHHhhhhhccCceEEEeccccccccc
Q 012305 426 LGAQAVT-KIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 426 ~~~e~~~-~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
....... .....|... ....++||||||+.+.++
T Consensus 183 ~~~~~l~~~~~~~f~~~--~~~~dvLiIDDiq~l~~k 217 (445)
T PRK12422 183 HLVSAIRSGEMQRFRQF--YRNVDALFIEDIEVFSGK 217 (445)
T ss_pred HHHHHHhcchHHHHHHH--cccCCEEEEcchhhhcCC
Confidence 1111110 001122221 233689999999998653
No 148
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.74 E-value=7.9e-09 Score=112.93 Aligned_cols=53 Identities=25% Similarity=0.288 Sum_probs=42.3
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL 413 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~ 413 (466)
+.+|++|||++.++..|...+.. +..+..+||+||||||||++|+.+|+.+.+
T Consensus 12 P~~f~eivGQe~i~~~L~~~i~~-------~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 12 PSKFADITAQEHITHTIQNSLRM-------DRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 55789999999999988765321 222235999999999999999999999854
No 149
>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=98.74 E-value=6.6e-09 Score=99.92 Aligned_cols=104 Identities=20% Similarity=0.281 Sum_probs=60.3
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcccc
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPL 426 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~ 426 (466)
++.++|+++|-.+.....+..+.....++.. .+..++||||+|+|||+|.+++++.. +..++.+++.++...
T Consensus 2 n~~~tFdnfv~g~~N~~a~~~~~~ia~~~~~---~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~ 78 (219)
T PF00308_consen 2 NPKYTFDNFVVGESNELAYAAAKAIAENPGE---RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIRE 78 (219)
T ss_dssp -TT-SCCCS--TTTTHHHHHHHHHHHHSTTT---SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHH
T ss_pred CCCCccccCCcCCcHHHHHHHHHHHHhcCCC---CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHH
Confidence 4567899997656555555443333333222 23348999999999999999998875 445566655544321
Q ss_pred hhHHH--HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 427 GAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 427 ~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
..+.. ..+..+.+.. ...++|+||+++.+..+
T Consensus 79 ~~~~~~~~~~~~~~~~~---~~~DlL~iDDi~~l~~~ 112 (219)
T PF00308_consen 79 FADALRDGEIEEFKDRL---RSADLLIIDDIQFLAGK 112 (219)
T ss_dssp HHHHHHTTSHHHHHHHH---CTSSEEEEETGGGGTTH
T ss_pred HHHHHHcccchhhhhhh---hcCCEEEEecchhhcCc
Confidence 11111 1122232322 23689999999998754
No 150
>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=98.72 E-value=1.2e-08 Score=106.94 Aligned_cols=106 Identities=16% Similarity=0.205 Sum_probs=65.0
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA 424 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~ 424 (466)
..++..+|+++|..+.....+..+.....++ +..+.+++||||||||||+|++++++.+ +..++.+++.++.
T Consensus 102 ~l~~~~tfd~fi~g~~n~~a~~~~~~~~~~~---~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~ 178 (405)
T TIGR00362 102 PLNPKYTFDNFVVGKSNRLAHAAALAVAENP---GKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFT 178 (405)
T ss_pred CCCCCCcccccccCCcHHHHHHHHHHHHhCc---CccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHH
Confidence 3566788999664455444444443333332 2334569999999999999999999887 4567777766543
Q ss_pred cchhHHH--HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 425 PLGAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 425 ~~~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
....... ..+..+.+..+ ..++||||||+.+.++
T Consensus 179 ~~~~~~~~~~~~~~~~~~~~---~~dlLiiDDi~~l~~~ 214 (405)
T TIGR00362 179 NDFVNALRNNKMEEFKEKYR---SVDLLLIDDIQFLAGK 214 (405)
T ss_pred HHHHHHHHcCCHHHHHHHHH---hCCEEEEehhhhhcCC
Confidence 2111100 11222222222 2579999999988654
No 151
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=98.72 E-value=1.6e-08 Score=112.98 Aligned_cols=99 Identities=18% Similarity=0.241 Sum_probs=69.4
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcC-------CCcc
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG-------GDVA 424 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~-------~~l~ 424 (466)
..++.+||.+.....+..++... . ..|+||+||||||||++++.++... +.|+...++ +.+.
T Consensus 183 g~~~~liGR~~ei~~~i~iL~r~--~------~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~ll 254 (758)
T PRK11034 183 GGIDPLIGREKELERAIQVLCRR--R------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL 254 (758)
T ss_pred CCCCcCcCCCHHHHHHHHHHhcc--C------CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHh
Confidence 35678999998888887754441 1 1368999999999999999999875 333332222 2211
Q ss_pred ---cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 425 ---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 425 ---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
.+.++....++.+|+.+.... ++||||||||.|.+.+
T Consensus 255 aG~~~~Ge~e~rl~~l~~~l~~~~-~~ILfIDEIh~L~g~g 294 (758)
T PRK11034 255 AGTKYRGDFEKRFKALLKQLEQDT-NSILFIDEIHTIIGAG 294 (758)
T ss_pred cccchhhhHHHHHHHHHHHHHhcC-CCEEEeccHHHHhccC
Confidence 123455667888888887654 6899999999997654
No 152
>PRK12377 putative replication protein; Provisional
Probab=98.71 E-value=1e-08 Score=100.28 Aligned_cols=100 Identities=20% Similarity=0.166 Sum_probs=57.3
Q ss_pred ccCCCCeeeCcchH-HHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305 354 IKNNGDIILHPSLQ-RRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ 429 (466)
Q Consensus 354 ~~~l~~vVg~~~~~-~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e 429 (466)
..+|++++....-. ..+..+.....+... ...+++|+||||||||+|+.+|++.+ |.+++.++..++......
T Consensus 70 ~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~---~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~ 146 (248)
T PRK12377 70 KCSFANYQVQNDGQRYALSQAKSIADELMT---GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHE 146 (248)
T ss_pred cCCcCCcccCChhHHHHHHHHHHHHHHHHh---cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHH
Confidence 44677776433222 223322223222221 12479999999999999999999988 566666655554331111
Q ss_pred HH---HHHHHHHhhhhhccCceEEEeccccccc
Q 012305 430 AV---TKIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 430 ~~---~~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
+. .....++... ...++|+|||++...
T Consensus 147 ~~~~~~~~~~~l~~l---~~~dLLiIDDlg~~~ 176 (248)
T PRK12377 147 SYDNGQSGEKFLQEL---CKVDLLVLDEIGIQR 176 (248)
T ss_pred HHhccchHHHHHHHh---cCCCEEEEcCCCCCC
Confidence 11 0112333333 336899999997653
No 153
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=98.71 E-value=1.5e-08 Score=111.92 Aligned_cols=110 Identities=16% Similarity=0.229 Sum_probs=71.1
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCC
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGG 421 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~ 421 (466)
...+..+.+++.++-...|..++...-. ...|...++|||+||||||++++.+...+ +..|+.|+|.
T Consensus 749 ~~DYVPD~LPhREeEIeeLasfL~paIk---gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm 825 (1164)
T PTZ00112 749 QLDVVPKYLPCREKEIKEVHGFLESGIK---QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM 825 (1164)
T ss_pred CcccCCCcCCChHHHHHHHHHHHHHHHh---cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence 3444556787777777777665554322 12232335699999999999999998776 2456788985
Q ss_pred Cccc------------------chhHHHHHHHHHHhhhhh-ccCceEEEeccccccccccCC
Q 012305 422 DVAP------------------LGAQAVTKIHEIFDWAKK-SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 422 ~l~~------------------~~~e~~~~l~~lf~~A~~-~~~~~iLflDEid~l~~~r~~ 464 (466)
.+.. .+..+...+..+|..... .....||||||||.|..+.++
T Consensus 826 ~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QD 887 (1164)
T PTZ00112 826 NVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQK 887 (1164)
T ss_pred ccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHH
Confidence 5321 122233456677765532 333579999999999865443
No 154
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=98.71 E-value=1.4e-08 Score=107.50 Aligned_cols=106 Identities=18% Similarity=0.253 Sum_probs=66.2
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA 424 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~ 424 (466)
..++..+|+++|..+.....+..+.....++ +. +.+++||||||||||+|++++++.+ +..++.+++.++.
T Consensus 97 ~l~~~~tFdnFv~g~~n~~a~~~~~~~~~~~---~~-~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~ 172 (440)
T PRK14088 97 PLNPDYTFENFVVGPGNSFAYHAALEVAKNP---GR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFL 172 (440)
T ss_pred CCCCCCcccccccCCchHHHHHHHHHHHhCc---CC-CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH
Confidence 4567889999986566655555444443322 11 4469999999999999999999986 3466777766543
Q ss_pred cchhHHH--HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 425 PLGAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 425 ~~~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
.....+. ..+..+....+ ...++|||||++.+.++
T Consensus 173 ~~~~~~~~~~~~~~f~~~~~--~~~dvLlIDDi~~l~~~ 209 (440)
T PRK14088 173 NDLVDSMKEGKLNEFREKYR--KKVDVLLIDDVQFLIGK 209 (440)
T ss_pred HHHHHHHhcccHHHHHHHHH--hcCCEEEEechhhhcCc
Confidence 2111111 11122222111 12679999999988654
No 155
>PRK15115 response regulator GlrR; Provisional
Probab=98.70 E-value=5.1e-09 Score=110.62 Aligned_cols=182 Identities=18% Similarity=0.269 Sum_probs=104.4
Q ss_pred cchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhCC
Q 012305 234 LTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQ 313 (466)
Q Consensus 234 ~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~ 313 (466)
...|+...++.++. .....++..+... .++.+++++++.......+..++.| +.+|+.+++..
T Consensus 48 ~~~dlvilD~~lp~-~~g~~ll~~l~~~-------------~~~~pvIvlt~~~~~~~~~~a~~~G---a~~~l~KP~~~ 110 (444)
T PRK15115 48 EKVDLVISDLRMDE-MDGMQLFAEIQKV-------------QPGMPVIILTAHGSIPDAVAATQQG---VFSFLTKPVDR 110 (444)
T ss_pred CCCCEEEEcCCCCC-CCHHHHHHHHHhc-------------CCCCcEEEEECCCCHHHHHHHHhcC---hhhhccCCCCH
Confidence 44566665554432 2344444444332 3456777777777666666667776 56677666554
Q ss_pred CccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcccccccccccccccc
Q 012305 314 PSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFY 393 (466)
Q Consensus 314 p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~ 393 (466)
..+.. .+....... . . .........++|.+.....+...+..+..... +++|+
T Consensus 111 ~~L~~-----------~l~~~~~~~----~---~---~~~~~~~~~lig~s~~~~~~~~~~~~~a~~~~------~vli~ 163 (444)
T PRK15115 111 DALYK-----------AIDDALEQS----A---P---ATDERWREAIVTRSPLMLRLLEQARMVAQSDV------SVLIN 163 (444)
T ss_pred HHHHH-----------HHHHHHHhh----h---c---ccccchhhcccccCHHHHHHHHHHHhhccCCC------eEEEE
Confidence 33311 111111110 0 0 00011123477777666665554444433322 49999
Q ss_pred CCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHH-----------HHHHhhhhhccCceEEEeccccc
Q 012305 394 GPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKI-----------HEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 394 GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l-----------~~lf~~A~~~~~~~iLflDEid~ 457 (466)
|++|||||++|+.++..+ +.+|+.++|..+.....+. .+.. .+++..+ .+++|||||||.
T Consensus 164 Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a----~~gtl~l~~i~~ 239 (444)
T PRK15115 164 GQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHARGAFTGAVSNREGLFQAA----EGGTLFLDEIGD 239 (444)
T ss_pred cCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHHHHhcCCCcCCCCCCccCCCCcEEEC----CCCEEEEEcccc
Confidence 999999999999999887 4789999999875421111 1111 1123322 268999999999
Q ss_pred cccccC
Q 012305 458 FLCDNQ 463 (466)
Q Consensus 458 l~~~r~ 463 (466)
|....+
T Consensus 240 l~~~~q 245 (444)
T PRK15115 240 MPAPLQ 245 (444)
T ss_pred CCHHHH
Confidence 876644
No 156
>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=98.69 E-value=1.3e-08 Score=100.49 Aligned_cols=34 Identities=35% Similarity=0.569 Sum_probs=31.6
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD 422 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~ 422 (466)
++||+||||||||++|+.||..+|.+|+.++|..
T Consensus 23 ~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~ 56 (262)
T TIGR02640 23 PVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDA 56 (262)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCc
Confidence 4999999999999999999999999999998864
No 157
>PRK06620 hypothetical protein; Validated
Probab=98.69 E-value=2.4e-08 Score=95.71 Aligned_cols=88 Identities=16% Similarity=0.198 Sum_probs=56.3
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHhhcccccccccc-ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhH
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF-RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQ 429 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~-~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e 429 (466)
..+..+|+++|..+.....+..+......+ ...|+ ++++||||||||||++++++++..+..|+. ....
T Consensus 9 ~~~~~tfd~Fvvg~~N~~a~~~~~~~~~~~--~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~--~~~~------ 78 (214)
T PRK06620 9 TSSKYHPDEFIVSSSNDQAYNIIKNWQCGF--GVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYIIK--DIFF------ 78 (214)
T ss_pred CCCCCCchhhEecccHHHHHHHHHHHHHcc--ccCCCcceEEEECCCCCCHHHHHHHHHhccCCEEcc--hhhh------
Confidence 456678999887776666555554443221 12342 679999999999999999999987653322 1100
Q ss_pred HHHHHHHHHhhhhhccCceEEEecccccc
Q 012305 430 AVTKIHEIFDWAKKSKKGLLLFIDEADAF 458 (466)
Q Consensus 430 ~~~~l~~lf~~A~~~~~~~iLflDEid~l 458 (466)
....+ ...++|+||||+.+
T Consensus 79 ----~~~~~------~~~d~lliDdi~~~ 97 (214)
T PRK06620 79 ----NEEIL------EKYNAFIIEDIENW 97 (214)
T ss_pred ----chhHH------hcCCEEEEeccccc
Confidence 00111 12579999999954
No 158
>PRK08084 DNA replication initiation factor; Provisional
Probab=98.69 E-value=1.7e-08 Score=98.07 Aligned_cols=95 Identities=11% Similarity=0.093 Sum_probs=55.1
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC---CcchhhcCCCcccch
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---LDYAMMTGGDVAPLG 427 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---~~~~~v~~~~l~~~~ 427 (466)
..+..+|++++-. .....+..+....... ...+++||||||||||++++++++.+. ..+..++......
T Consensus 15 ~~~~~~fd~f~~~-~n~~a~~~l~~~~~~~-----~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~-- 86 (235)
T PRK08084 15 LPDDETFASFYPG-DNDSLLAALQNALRQE-----HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW-- 86 (235)
T ss_pred CCCcCCccccccC-ccHHHHHHHHHHHhCC-----CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh--
Confidence 4556688888733 3333343333322211 123799999999999999999998763 3333333322111
Q ss_pred hHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
....+++... ...+||||||+.+.++
T Consensus 87 -----~~~~~~~~~~---~~dlliiDdi~~~~~~ 112 (235)
T PRK08084 87 -----FVPEVLEGME---QLSLVCIDNIECIAGD 112 (235)
T ss_pred -----hhHHHHHHhh---hCCEEEEeChhhhcCC
Confidence 1122222222 1468999999998654
No 159
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=98.68 E-value=1.6e-08 Score=101.75 Aligned_cols=101 Identities=25% Similarity=0.395 Sum_probs=63.2
Q ss_pred CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC------------------------Cc
Q 012305 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG------------------------LD 414 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~------------------------~~ 414 (466)
+++++......+........ ..| ..+||+||||||||++|.+||+.+. .+
T Consensus 2 ~~~~~~~~~~~l~~~~~~~~-----~~~-halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d 75 (325)
T COG0470 2 ELVPWQEAVKRLLVQALESG-----RLP-HALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPD 75 (325)
T ss_pred CcccchhHHHHHHHHHHhcC-----CCC-ceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCc
Confidence 45666666666654433211 122 1399999999999999999999985 35
Q ss_pred chhhcCCCcccc--hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305 415 YAMMTGGDVAPL--GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 415 ~~~v~~~~l~~~--~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
|+.++.++.... ..+.+..+...+..-...++.-|+||||+|.|..+.+|+
T Consensus 76 ~lel~~s~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~na 128 (325)
T COG0470 76 FLELNPSDLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANA 128 (325)
T ss_pred eEEecccccCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHH
Confidence 566665554332 233333333333322222457899999999998766543
No 160
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=98.68 E-value=1.1e-08 Score=103.04 Aligned_cols=94 Identities=28% Similarity=0.511 Sum_probs=59.3
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC-----cchhhcCCCcccchhH
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL-----DYAMMTGGDVAPLGAQ 429 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~-----~~~~v~~~~l~~~~~e 429 (466)
..|++++|++++...+...+.. +..| ++|||||||||||++++.+++.+.. .++.+++++.. +..
T Consensus 14 ~~~~~~~g~~~~~~~l~~~i~~------~~~~--~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~--~~~ 83 (319)
T PRK00440 14 RTLDEIVGQEEIVERLKSYVKE------KNMP--HLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDER--GID 83 (319)
T ss_pred CcHHHhcCcHHHHHHHHHHHhC------CCCC--eEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecccccc--chH
Confidence 4688999999988888766432 1122 6999999999999999999998732 23444433321 111
Q ss_pred HHHHHHHHHhhhhhc----cCceEEEecccccccc
Q 012305 430 AVTKIHEIFDWAKKS----KKGLLLFIDEADAFLC 460 (466)
Q Consensus 430 ~~~~l~~lf~~A~~~----~~~~iLflDEid~l~~ 460 (466)
... ..+...+... ..+.+|||||+|.+..
T Consensus 84 ~~~--~~i~~~~~~~~~~~~~~~vviiDe~~~l~~ 116 (319)
T PRK00440 84 VIR--NKIKEFARTAPVGGAPFKIIFLDEADNLTS 116 (319)
T ss_pred HHH--HHHHHHHhcCCCCCCCceEEEEeCcccCCH
Confidence 110 1122222211 2256999999999864
No 161
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=2.9e-08 Score=102.39 Aligned_cols=103 Identities=18% Similarity=0.325 Sum_probs=69.2
Q ss_pred CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC-----cchhhcCCCcc-------
Q 012305 357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL-----DYAMMTGGDVA------- 424 (466)
Q Consensus 357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~-----~~~~v~~~~l~------- 424 (466)
.+.+.+.++....+.. .+.+.-.+..| .|+++|||||||||.+++.+..++.. .++.|||-...
T Consensus 16 P~~l~~Re~ei~~l~~---~l~~~~~~~~p-~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~ 91 (366)
T COG1474 16 PEELPHREEEINQLAS---FLAPALRGERP-SNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLS 91 (366)
T ss_pred cccccccHHHHHHHHH---HHHHHhcCCCC-ccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHH
Confidence 3445455554444444 44444443334 46999999999999999999999833 37888886642
Q ss_pred ----------cchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 425 ----------PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 425 ----------~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
..|......+..+++.........||+|||+|.|..+.+
T Consensus 92 ~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~ 140 (366)
T COG1474 92 KILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDG 140 (366)
T ss_pred HHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccc
Confidence 223333444556666666666689999999999987654
No 162
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=98.67 E-value=1.8e-08 Score=97.30 Aligned_cols=92 Identities=20% Similarity=0.338 Sum_probs=69.3
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ 429 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e 429 (466)
+...+++++|.+..++.|..-...+.. +.|..|+||||++|||||++++++...+ |+.++.|...++.
T Consensus 22 ~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~----G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~----- 92 (249)
T PF05673_consen 22 DPIRLDDLIGIERQKEALIENTEQFLQ----GLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLG----- 92 (249)
T ss_pred CCCCHHHhcCHHHHHHHHHHHHHHHHc----CCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhc-----
Confidence 345678999999998888765444333 4566799999999999999999999877 6666777665553
Q ss_pred HHHHHHHHHhhhhhccCceEEEecccc
Q 012305 430 AVTKIHEIFDWAKKSKKGLLLFIDEAD 456 (466)
Q Consensus 430 ~~~~l~~lf~~A~~~~~~~iLflDEid 456 (466)
.+..+++..+..+..-|||||+..
T Consensus 93 ---~l~~l~~~l~~~~~kFIlf~DDLs 116 (249)
T PF05673_consen 93 ---DLPELLDLLRDRPYKFILFCDDLS 116 (249)
T ss_pred ---cHHHHHHHHhcCCCCEEEEecCCC
Confidence 445677776666667999999854
No 163
>PHA02244 ATPase-like protein
Probab=98.66 E-value=2.2e-08 Score=102.29 Aligned_cols=93 Identities=28% Similarity=0.305 Sum_probs=56.1
Q ss_pred eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc-cc-chh-HHHHHH--
Q 012305 360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-AP-LGA-QAVTKI-- 434 (466)
Q Consensus 360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l-~~-~~~-e~~~~l-- 434 (466)
.||.......+...+..+..... +|||+||||||||++|++||..++.+|+.+++..- .. .|. ......
T Consensus 98 ~ig~sp~~~~~~~ri~r~l~~~~------PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~d 171 (383)
T PHA02244 98 KIASNPTFHYETADIAKIVNANI------PVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHE 171 (383)
T ss_pred ccCCCHHHHHHHHHHHHHHhcCC------CEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccc
Confidence 45666665544443333322222 49999999999999999999999999998874210 00 000 000011
Q ss_pred HHHHhhhhhccCceEEEeccccccccc
Q 012305 435 HEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 435 ~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
..++.. ...|++||||||+.+.++
T Consensus 172 gpLl~A---~~~GgvLiLDEId~a~p~ 195 (383)
T PHA02244 172 TPFYEA---FKKGGLFFIDEIDASIPE 195 (383)
T ss_pred hHHHHH---hhcCCEEEEeCcCcCCHH
Confidence 112222 234899999999977554
No 164
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=98.65 E-value=1.3e-08 Score=111.68 Aligned_cols=62 Identities=21% Similarity=0.378 Sum_probs=47.1
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV 423 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l 423 (466)
+.+|+++||++.....+...+ .... +.+++|+||||||||++|+.+++.+ +.+|+.++|..+
T Consensus 150 p~~~~~iiGqs~~~~~l~~~i---a~~~-----~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l 221 (615)
T TIGR02903 150 PRAFSEIVGQERAIKALLAKV---ASPF-----PQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL 221 (615)
T ss_pred cCcHHhceeCcHHHHHHHHHH---hcCC-----CCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhc
Confidence 457899999999888765432 2111 2369999999999999999998766 346888888765
No 165
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=98.64 E-value=2e-08 Score=108.73 Aligned_cols=107 Identities=11% Similarity=0.149 Sum_probs=66.0
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA 424 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~ 424 (466)
..+..++|+++|..+.....+..+.....+.. ..+..++|||++|||||+|+++|++.+ ++.++++++.++.
T Consensus 280 ~L~~~~TFDnFvvG~sN~~A~aaa~avae~~~---~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~ 356 (617)
T PRK14086 280 RLNPKYTFDTFVIGASNRFAHAAAVAVAEAPA---KAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFT 356 (617)
T ss_pred CCCCCCCHhhhcCCCccHHHHHHHHHHHhCcc---ccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH
Confidence 34667899999866665544433333333221 123349999999999999999999976 4667777776654
Q ss_pred cchhHHH--HHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 425 PLGAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 425 ~~~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
....... ..+..+... ....++||||||+.+.++.
T Consensus 357 ~el~~al~~~~~~~f~~~---y~~~DLLlIDDIq~l~gke 393 (617)
T PRK14086 357 NEFINSIRDGKGDSFRRR---YREMDILLVDDIQFLEDKE 393 (617)
T ss_pred HHHHHHHHhccHHHHHHH---hhcCCEEEEehhccccCCH
Confidence 2111111 111122222 2336899999999987643
No 166
>PRK08116 hypothetical protein; Validated
Probab=98.64 E-value=2e-08 Score=99.51 Aligned_cols=101 Identities=18% Similarity=0.178 Sum_probs=58.9
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA 430 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~ 430 (466)
..+|++++..+.....+..+..++.+.........+++|||+||||||+|+.+|++.+ +.+++.++.+++......+
T Consensus 81 ~~tFdnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~ 160 (268)
T PRK08116 81 NSTFENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKST 160 (268)
T ss_pred hcchhcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHH
Confidence 3467777654444434443333333322211222469999999999999999999987 6777777765543211111
Q ss_pred H-----HHHHHHHhhhhhccCceEEEeccccc
Q 012305 431 V-----TKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 431 ~-----~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
. .....+++.. ...++|+|||++.
T Consensus 161 ~~~~~~~~~~~~~~~l---~~~dlLviDDlg~ 189 (268)
T PRK08116 161 YKSSGKEDENEIIRSL---VNADLLILDDLGA 189 (268)
T ss_pred HhccccccHHHHHHHh---cCCCEEEEecccC
Confidence 0 1122333333 2257999999965
No 167
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=98.64 E-value=1.7e-08 Score=101.14 Aligned_cols=101 Identities=17% Similarity=0.226 Sum_probs=82.3
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG 427 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~ 427 (466)
..+..+|+.+|+.+..++.+..-+..++..+.+ +||.|.+||||.++|++-+..+ ..+|+.+||..++...
T Consensus 197 ~~~~~~F~~~v~~S~~mk~~v~qA~k~AmlDAP------LLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe~~ 270 (511)
T COG3283 197 AQDVSGFEQIVAVSPKMKHVVEQAQKLAMLDAP------LLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPEDA 270 (511)
T ss_pred cccccchHHHhhccHHHHHHHHHHHHhhccCCC------eEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCCchhH
Confidence 346678999999999998888777777777666 9999999999999999988777 6899999999987633
Q ss_pred hHH--------HHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 428 AQA--------VTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 428 ~e~--------~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
.++ .....++|++|. ++++|||||+.|++.
T Consensus 271 aEsElFG~apg~~gk~GffE~An----gGTVlLDeIgEmSp~ 308 (511)
T COG3283 271 AESELFGHAPGDEGKKGFFEQAN----GGTVLLDEIGEMSPR 308 (511)
T ss_pred hHHHHhcCCCCCCCccchhhhcc----CCeEEeehhhhcCHH
Confidence 322 133468999886 899999999999864
No 168
>PRK08727 hypothetical protein; Validated
Probab=98.64 E-value=3.4e-08 Score=95.85 Aligned_cols=95 Identities=17% Similarity=0.213 Sum_probs=57.6
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG 427 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~ 427 (466)
..+..+|+++|+.++. .+..+..... . ..+..++||||||||||+++++++..+ |..++.++..++
T Consensus 12 ~~~~~~f~~f~~~~~n--~~~~~~~~~~-~----~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~---- 80 (233)
T PRK08727 12 YPSDQRFDSYIAAPDG--LLAQLQALAA-G----QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAA---- 80 (233)
T ss_pred CCCcCChhhccCCcHH--HHHHHHHHHh-c----cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHh----
Confidence 4556688998876653 2222211111 1 112349999999999999999998776 444444443221
Q ss_pred hHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
...+...++... ...+|+|||++.+..+.
T Consensus 81 ---~~~~~~~~~~l~---~~dlLiIDDi~~l~~~~ 109 (233)
T PRK08727 81 ---AGRLRDALEALE---GRSLVALDGLESIAGQR 109 (233)
T ss_pred ---hhhHHHHHHHHh---cCCEEEEeCcccccCCh
Confidence 223334444433 36799999999887543
No 169
>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=98.64 E-value=1.4e-08 Score=95.95 Aligned_cols=45 Identities=36% Similarity=0.547 Sum_probs=35.7
Q ss_pred CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
|.+|+|++.++..+.-.+.- ..|+||+||||||||++|+.+..-+
T Consensus 2 f~dI~GQe~aKrAL~iAAaG----------~h~lLl~GppGtGKTmlA~~l~~lL 46 (206)
T PF01078_consen 2 FSDIVGQEEAKRALEIAAAG----------GHHLLLIGPPGTGKTMLARRLPSLL 46 (206)
T ss_dssp TCCSSSTHHHHHHHHHHHHC----------C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred hhhhcCcHHHHHHHHHHHcC----------CCCeEEECCCCCCHHHHHHHHHHhC
Confidence 78999999999988754321 1379999999999999999999877
No 170
>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=98.64 E-value=2.9e-09 Score=94.37 Aligned_cols=73 Identities=27% Similarity=0.404 Sum_probs=45.9
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchh--HHHHHHHHHHhh-----hhhccCceEEEeccccccccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGA--QAVTKIHEIFDW-----AKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~--e~~~~l~~lf~~-----A~~~~~~~iLflDEid~l~~~ 461 (466)
+|||+||||||||++++.+|..++.++..+++........ .........+.| ......+++||||||+...+.
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a~~~ 80 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRAPPE 80 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG--HH
T ss_pred CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccCCHH
Confidence 4899999999999999999999999999988876432110 000000111111 101124799999999976543
No 171
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=98.64 E-value=1.4e-08 Score=100.58 Aligned_cols=102 Identities=27% Similarity=0.354 Sum_probs=71.5
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC----c--chhhcCCCcccch
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL----D--YAMMTGGDVAPLG 427 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~----~--~~~v~~~~l~~~~ 427 (466)
+..++++|++.+....+..+ ...++.| |+|||||||||||+...+.++.+-. . +..++.++ +.|
T Consensus 37 P~~l~dv~~~~ei~st~~~~------~~~~~lP--h~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd--~rg 106 (360)
T KOG0990|consen 37 PPFLGIVIKQEPIWSTENRY------SGMPGLP--HLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASD--DRG 106 (360)
T ss_pred CchhhhHhcCCchhhHHHHh------ccCCCCC--cccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccC--ccC
Confidence 34578899999988888766 3333444 9999999999999999999998832 2 34555554 234
Q ss_pred hHHHHHHHHHHhhhhhc------cCceEEEeccccccccccCCC
Q 012305 428 AQAVTKIHEIFDWAKKS------KKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 428 ~e~~~~l~~lf~~A~~~------~~~~iLflDEid~l~~~r~~~ 465 (466)
.+.+..-...|...+.. ....+++|||+|+|..+-|+.
T Consensus 107 id~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnA 150 (360)
T KOG0990|consen 107 IDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNA 150 (360)
T ss_pred CcchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHH
Confidence 44445555566555421 236899999999999876654
No 172
>PRK05642 DNA replication initiation factor; Validated
Probab=98.61 E-value=3.8e-08 Score=95.60 Aligned_cols=99 Identities=9% Similarity=0.063 Sum_probs=59.6
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL 426 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~ 426 (466)
...+..+|+++|.... . .....+..+.. ....+++.+++||||+|||||+|++++++.+ +..++.++..++...
T Consensus 11 ~~~~~~tfdnF~~~~~-~-~a~~~~~~~~~-~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~ 87 (234)
T PRK05642 11 RLRDDATFANYYPGAN-A-AALGYVERLCE-ADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDR 87 (234)
T ss_pred CCCCcccccccCcCCh-H-HHHHHHHHHhh-ccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhh
Confidence 3456678999884332 2 22222222211 1112344679999999999999999998765 556666665544321
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
...+.+... ..++|+|||++.+.++
T Consensus 88 -------~~~~~~~~~---~~d~LiiDDi~~~~~~ 112 (234)
T PRK05642 88 -------GPELLDNLE---QYELVCLDDLDVIAGK 112 (234)
T ss_pred -------hHHHHHhhh---hCCEEEEechhhhcCC
Confidence 123333333 2569999999987654
No 173
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=98.61 E-value=3.5e-08 Score=104.97 Aligned_cols=106 Identities=23% Similarity=0.292 Sum_probs=71.5
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG 420 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~ 420 (466)
+..|+++||++.+.+.|...+..- .-...+||+||-|||||++||.+|+.+++.- -.++-
T Consensus 12 P~~F~evvGQe~v~~~L~nal~~~-------ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~ 84 (515)
T COG2812 12 PKTFDDVVGQEHVVKTLSNALENG-------RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINE 84 (515)
T ss_pred cccHHHhcccHHHHHHHHHHHHhC-------cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhc
Confidence 557999999999999998765442 2223599999999999999999999884431 01222
Q ss_pred ---CCcccchh---HHHHHHHHHHhh---hhhccCceEEEeccccccccccCCCC
Q 012305 421 ---GDVAPLGA---QAVTKIHEIFDW---AKKSKKGLLLFIDEADAFLCDNQDFI 466 (466)
Q Consensus 421 ---~~l~~~~~---e~~~~l~~lf~~---A~~~~~~~iLflDEid~l~~~r~~~l 466 (466)
.|+..+.. .++..++.+.+. +....++.|++|||++.|+..-+|.|
T Consensus 85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNAL 139 (515)
T COG2812 85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNAL 139 (515)
T ss_pred CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHH
Confidence 22222211 123445555544 33455689999999999987766543
No 174
>PRK08939 primosomal protein DnaI; Reviewed
Probab=98.59 E-value=2.4e-08 Score=100.66 Aligned_cols=70 Identities=20% Similarity=0.305 Sum_probs=46.8
Q ss_pred ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHHHHHHhhhhhccCceEEEecccccc
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKIHEIFDWAKKSKKGLLLFIDEADAF 458 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l 458 (466)
..++++||||||||||+|+.+|++.+ |.++..++.+++......+ ...+...++.. ....+|+|||++.-
T Consensus 155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l---~~~dlLiIDDiG~e 229 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAV---KEAPVLMLDDIGAE 229 (306)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHh---cCCCEEEEecCCCc
Confidence 34689999999999999999999998 6666666655543211111 11223333333 33689999999864
No 175
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=98.59 E-value=5e-08 Score=103.44 Aligned_cols=105 Identities=16% Similarity=0.272 Sum_probs=63.4
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcccchh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPLGA 428 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~~~ 428 (466)
..+|+++|..+.....+..+..... .++.++.+++|||++|||||+|++++++.+ +..++.+++.++.....
T Consensus 111 ~~tFdnFv~g~~n~~A~~aa~~~a~---~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~ 187 (450)
T PRK14087 111 ENTFENFVIGSSNEQAFIAVQTVSK---NPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAV 187 (450)
T ss_pred ccchhcccCCCcHHHHHHHHHHHHh---CcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHH
Confidence 4789998865555444433322222 223345569999999999999999999865 46677777766543221
Q ss_pred HHHHHH-HHHHhhhhhccCceEEEeccccccccc
Q 012305 429 QAVTKI-HEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 429 e~~~~l-~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
.+.... ..+...-......++|+||||+.+.++
T Consensus 188 ~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~k 221 (450)
T PRK14087 188 DILQKTHKEIEQFKNEICQNDVLIIDDVQFLSYK 221 (450)
T ss_pred HHHHHhhhHHHHHHHHhccCCEEEEeccccccCC
Confidence 111110 111111122234689999999988654
No 176
>PRK07952 DNA replication protein DnaC; Validated
Probab=98.58 E-value=5.2e-08 Score=95.13 Aligned_cols=100 Identities=18% Similarity=0.180 Sum_probs=60.7
Q ss_pred ccCCCCeeeCc-chHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305 354 IKNNGDIILHP-SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ 429 (466)
Q Consensus 354 ~~~l~~vVg~~-~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e 429 (466)
..+|++++..+ .....+..+.....+... ...+++|+|+||||||+|+.+|+..+ |.+++.++.+++......
T Consensus 68 ~~tFdnf~~~~~~q~~al~~a~~~~~~~~~---~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~ 144 (244)
T PRK07952 68 NCSFENYRVECEGQMNALSKARQYVEEFDG---NIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKD 144 (244)
T ss_pred CCccccccCCCchHHHHHHHHHHHHHhhcc---CCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHH
Confidence 45677775433 333344444444433221 12479999999999999999999988 667777766554321111
Q ss_pred H----HHHHHHHHhhhhhccCceEEEeccccccc
Q 012305 430 A----VTKIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 430 ~----~~~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
. ......+++... ..++|+|||++...
T Consensus 145 ~~~~~~~~~~~~l~~l~---~~dlLvIDDig~~~ 175 (244)
T PRK07952 145 TFSNSETSEEQLLNDLS---NVDLLVIDEIGVQT 175 (244)
T ss_pred HHhhccccHHHHHHHhc---cCCEEEEeCCCCCC
Confidence 1 111223444332 36899999999865
No 177
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=98.57 E-value=4.7e-08 Score=105.39 Aligned_cols=71 Identities=28% Similarity=0.434 Sum_probs=49.3
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhh---hhhccCceEEEeccccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDW---AKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~---A~~~~~~~iLflDEid~l~ 459 (466)
+-+||+||||-||||||+.+|++.|+.++.||.+|--. +..-...+..++.. .....++.+|+|||||.-.
T Consensus 327 KilLL~GppGlGKTTLAHViAkqaGYsVvEINASDeRt-~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~ 400 (877)
T KOG1969|consen 327 KILLLCGPPGLGKTTLAHVIAKQAGYSVVEINASDERT-APMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP 400 (877)
T ss_pred ceEEeecCCCCChhHHHHHHHHhcCceEEEeccccccc-HHHHHHHHHHHHhhccccccCCCcceEEEecccCCc
Confidence 56889999999999999999999999999999987421 11111122222211 1112457899999999743
No 178
>TIGR01818 ntrC nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.
Probab=98.56 E-value=1.9e-08 Score=106.74 Aligned_cols=189 Identities=16% Similarity=0.200 Sum_probs=107.3
Q ss_pred cchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhCC
Q 012305 234 LTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQ 313 (466)
Q Consensus 234 ~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~ 313 (466)
...|+.+.++.++. .....++..|... ++..+++++++.......+..++.| +.+|+.+++..
T Consensus 41 ~~~DlVllD~~~p~-~~g~~ll~~l~~~-------------~~~~~vIvlt~~~~~~~~~~a~~~G---a~~~l~KP~~~ 103 (463)
T TIGR01818 41 GQPDLLITDVRMPG-EDGLDLLPQIKKR-------------HPQLPVIVMTAHSDLDTAVAAYQRG---AFEYLPKPFDL 103 (463)
T ss_pred CCCCEEEEcCCCCC-CCHHHHHHHHHHh-------------CCCCeEEEEeCCCCHHHHHHHHHcC---cceeecCCCCH
Confidence 45677666654432 2344444444332 3456677777777766666667776 55666666554
Q ss_pred CccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcccccccccccccccc
Q 012305 314 PSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFY 393 (466)
Q Consensus 314 p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~ 393 (466)
..+... +............ .............++|.+.....+...+..+..... ++++.
T Consensus 104 ~~L~~~-----------i~~~l~~~~~~~~---~~~~~~~~~~~~~lig~s~~~~~v~~~i~~~a~~~~------~vli~ 163 (463)
T TIGR01818 104 DEAVTL-----------VERALAHAQEQVA---LPADAGEAEDSAELIGEAPAMQEVFRAIGRLSRSDI------TVLIN 163 (463)
T ss_pred HHHHHH-----------HHHHHHHHHHHHh---hhhhhhccccccceeecCHHHHHHHHHHHHHhCcCC------eEEEE
Confidence 333221 1111110000000 000000111234688988887777766555544433 39999
Q ss_pred CCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--HHHHH-----------HHHHhhhhhccCceEEEeccccc
Q 012305 394 GPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--AVTKI-----------HEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 394 GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~~~~l-----------~~lf~~A~~~~~~~iLflDEid~ 457 (466)
|++||||+++|++++..+ +.+|+.++|+.+.....+ ..+.. .+.+..+ .+++||||||+.
T Consensus 164 Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a----~~gtl~l~ei~~ 239 (463)
T TIGR01818 164 GESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLIESELFGHEKGAFTGANTRRQGRFEQA----DGGTLFLDEIGD 239 (463)
T ss_pred CCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHHHHHhcCCCCCCCCCcccCCCCcEEEC----CCCeEEEEchhh
Confidence 999999999999999886 568999999987531111 01111 1122222 278999999999
Q ss_pred cccccC
Q 012305 458 FLCDNQ 463 (466)
Q Consensus 458 l~~~r~ 463 (466)
|....+
T Consensus 240 l~~~~q 245 (463)
T TIGR01818 240 MPLDAQ 245 (463)
T ss_pred CCHHHH
Confidence 876543
No 179
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=98.53 E-value=5.6e-08 Score=95.53 Aligned_cols=69 Identities=29% Similarity=0.366 Sum_probs=46.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHHHH---HHHHHHhhhhhccCceEEEeccccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQAVT---KIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~~~---~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
.|++||||||||||+||-+|++.+ |.++..++.+++......+.. ....+... .....+|||||++...
T Consensus 106 ~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~---l~~~dlLIiDDlG~~~ 180 (254)
T COG1484 106 ENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRE---LKKVDLLIIDDIGYEP 180 (254)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHH---hhcCCEEEEecccCcc
Confidence 589999999999999999999988 667777776665432211111 11122221 2337899999999854
No 180
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.53 E-value=6.7e-08 Score=106.03 Aligned_cols=102 Identities=19% Similarity=0.251 Sum_probs=65.4
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh--------------hc
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM--------------MT 419 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~--------------v~ 419 (466)
+.+|++|||++.+++.|...+.. +..+..+|||||+|+|||++|+.+++.+.+.... ++
T Consensus 13 P~~f~~viGq~~~~~~L~~~i~~-------~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~ 85 (614)
T PRK14971 13 PSTFESVVGQEALTTTLKNAIAT-------NKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFN 85 (614)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHh
Confidence 45789999999999988766432 2223458999999999999999999987431100 00
Q ss_pred -C--CCcccch---hHHHHHHHHHHhhhhh---ccCceEEEecccccccccc
Q 012305 420 -G--GDVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 420 -~--~~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r 462 (466)
+ .++..+. ..+...++.+.+.+.. ...+.|+||||+|.|....
T Consensus 86 ~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a 137 (614)
T PRK14971 86 EQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAA 137 (614)
T ss_pred cCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHH
Confidence 0 0111111 1123456666655543 2346799999999997543
No 181
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=1.1e-07 Score=99.34 Aligned_cols=75 Identities=28% Similarity=0.507 Sum_probs=62.9
Q ss_pred ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC--cccchhHHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305 384 QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD--VAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 384 ~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~--l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
..|..+|||.||||+|||.||-.+|..++.||+.+-.++ ++.........+.+.|+.|.+++ -+||++|+|+.|+
T Consensus 535 ~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~-lsiivvDdiErLi 611 (744)
T KOG0741|consen 535 RSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSP-LSIIVVDDIERLL 611 (744)
T ss_pred cCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCc-ceEEEEcchhhhh
Confidence 446789999999999999999999999999999875432 33345555678999999999876 8999999999986
No 182
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=98.52 E-value=3.4e-08 Score=100.62 Aligned_cols=96 Identities=24% Similarity=0.346 Sum_probs=62.0
Q ss_pred CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC-ccc---chhHHHHHH
Q 012305 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAP---LGAQAVTKI 434 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~-l~~---~~~e~~~~l 434 (466)
.++|.++....+...+. --+++||-||||||||++++.+|..++.+|+.+.|.+ +.+ +|.......
T Consensus 25 ~~~g~~~~~~~~l~a~~----------~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~ 94 (329)
T COG0714 25 VVVGDEEVIELALLALL----------AGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAAL 94 (329)
T ss_pred eeeccHHHHHHHHHHHH----------cCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhh
Confidence 37776666655543211 1135999999999999999999999999999999974 322 222222222
Q ss_pred ---HHHHhhhhhccCce---EEEeccccccccccCC
Q 012305 435 ---HEIFDWAKKSKKGL---LLFIDEADAFLCDNQD 464 (466)
Q Consensus 435 ---~~lf~~A~~~~~~~---iLflDEid~l~~~r~~ 464 (466)
.+.|.+....-... +||+|||+...++-++
T Consensus 95 ~~~~~~~~~~~gpl~~~~~~ill~DEInra~p~~q~ 130 (329)
T COG0714 95 LLEPGEFRFVPGPLFAAVRVILLLDEINRAPPEVQN 130 (329)
T ss_pred hccCCeEEEecCCcccccceEEEEeccccCCHHHHH
Confidence 33344433211123 9999999998765443
No 183
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.51 E-value=1.3e-07 Score=103.64 Aligned_cols=61 Identities=21% Similarity=0.389 Sum_probs=47.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
+..+++++|++..+..|..++...... ..+.+.++|+||||||||++++.|++.++..+..
T Consensus 80 P~~ldel~~~~~ki~~l~~~l~~~~~~---~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~E 140 (637)
T TIGR00602 80 PETQHELAVHKKKIEEVETWLKAQVLE---NAPKRILLITGPSGCGKSTTIKILSKELGIQVQE 140 (637)
T ss_pred CCCHHHhcCcHHHHHHHHHHHHhcccc---cCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHH
Confidence 557899999999999887765543222 2222348999999999999999999999877655
No 184
>PRK08181 transposase; Validated
Probab=98.51 E-value=3.5e-08 Score=97.63 Aligned_cols=71 Identities=25% Similarity=0.320 Sum_probs=47.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
.|++|+||||||||+|+.+|+..+ |+.++.++..++......+ ...+..++... ....+|+|||++.+..+
T Consensus 107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l---~~~dLLIIDDlg~~~~~ 182 (269)
T PRK08181 107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKL---DKFDLLILDDLAYVTKD 182 (269)
T ss_pred ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHH---hcCCEEEEeccccccCC
Confidence 479999999999999999998766 6666666655543311111 11223344433 33689999999987654
No 185
>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=98.51 E-value=2.7e-09 Score=93.28 Aligned_cols=75 Identities=28% Similarity=0.410 Sum_probs=41.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhcCC-Cccc---chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGG-DVAP---LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~-~l~~---~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
||||.|+||+|||++++++|+.+|.+|..|.+. |+.+ .|......-.+-|.+....--..|||+|||....++-+
T Consensus 1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNrappktQ 79 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRAPPKTQ 79 (131)
T ss_dssp -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-HHHH
T ss_pred CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccCCHHHH
Confidence 699999999999999999999999999988874 4432 11100000012232222111127999999999876644
No 186
>PRK06526 transposase; Provisional
Probab=98.50 E-value=4.7e-08 Score=96.07 Aligned_cols=70 Identities=26% Similarity=0.336 Sum_probs=45.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--HHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--AVTKIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~~~~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
.|++|+||||||||+++.+|+..+ |..+..++..++...... ..+.+...+.. .....+|+|||++.+..
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~---l~~~dlLIIDD~g~~~~ 173 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVK---LGRYPLLIVDEVGYIPF 173 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHH---hccCCEEEEcccccCCC
Confidence 579999999999999999998876 666666655544321111 11122222222 23368999999998653
No 187
>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=98.49 E-value=2e-08 Score=101.34 Aligned_cols=73 Identities=26% Similarity=0.292 Sum_probs=51.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----chhHH-----H----HHHHHHHhhhhhccCceEEEecc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----LGAQA-----V----TKIHEIFDWAKKSKKGLLLFIDE 454 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----~~~e~-----~----~~l~~lf~~A~~~~~~~iLflDE 454 (466)
++|||.||||||||++++.||..++.+++.|+|..... .|... . .-..+.+.+|. ..+++||+||
T Consensus 65 ~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~--~~g~illlDE 142 (327)
T TIGR01650 65 RRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWAL--QHNVALCFDE 142 (327)
T ss_pred CcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHH--hCCeEEEech
Confidence 46999999999999999999999999999998865322 22111 0 01123344443 3368899999
Q ss_pred cccccccc
Q 012305 455 ADAFLCDN 462 (466)
Q Consensus 455 id~l~~~r 462 (466)
+|...++-
T Consensus 143 in~a~p~~ 150 (327)
T TIGR01650 143 YDAGRPDV 150 (327)
T ss_pred hhccCHHH
Confidence 99876543
No 188
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=98.46 E-value=4.1e-08 Score=103.50 Aligned_cols=187 Identities=17% Similarity=0.121 Sum_probs=104.8
Q ss_pred cchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhCC
Q 012305 234 LTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQ 313 (466)
Q Consensus 234 ~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~ 313 (466)
...|+...++.++. .....++..|... +++.++++++++......+.+.+.| +.+|+.+++..
T Consensus 48 ~~~DlvilD~~m~~-~~G~~~~~~ir~~-------------~~~~~vi~lt~~~~~~~~~~a~~~g---a~~~l~Kp~~~ 110 (441)
T PRK10365 48 QVFDLVLCDVRMAE-MDGIATLKEIKAL-------------NPAIPVLIMTAYSSVETAVEALKTG---ALDYLIKPLDF 110 (441)
T ss_pred CCCCEEEEeCCCCC-CCHHHHHHHHHhh-------------CCCCeEEEEECCCCHHHHHHHHHhh---hHHHhcCCCCH
Confidence 45677666654432 2333444433332 4567788888877766666666666 67777665543
Q ss_pred CccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcccccccccccccccc
Q 012305 314 PSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFY 393 (466)
Q Consensus 314 p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~ 393 (466)
..+.. .+...+......... .. ........++|.+.....+...+..+.... .+++|+
T Consensus 111 ~~L~~-----------~l~~~l~~~~~~~~~--~~---~~~~~~~~lig~s~~~~~~~~~i~~~~~~~------~~vli~ 168 (441)
T PRK10365 111 DNLQA-----------TLEKALAHTHSIDAE--TP---AVTASQFGMVGKSPAMQHLLSEIALVAPSE------ATVLIH 168 (441)
T ss_pred HHHHH-----------HHHHHHHHHHHHHHh--hh---hhhccccceEecCHHHHHHHHHHhhccCCC------CeEEEE
Confidence 32211 111111110000000 00 001111347787777666655444444332 249999
Q ss_pred CCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHH-----------HHHHhhhhhccCceEEEeccccc
Q 012305 394 GPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKI-----------HEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 394 GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l-----------~~lf~~A~~~~~~~iLflDEid~ 457 (466)
|++||||++++++++..+ +.+|+.++|+.+.....+. .+.. .+++..+ .+++||||||+.
T Consensus 169 ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a----~~gtl~ldei~~ 244 (441)
T PRK10365 169 GDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVEA----DGGTLFLDEIGD 244 (441)
T ss_pred ecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCHHHHHHHhcCCCCCCcCCCCcCCCCceeEC----CCCEEEEecccc
Confidence 999999999999998877 4789999999875311110 0100 1122222 278999999999
Q ss_pred cccccC
Q 012305 458 FLCDNQ 463 (466)
Q Consensus 458 l~~~r~ 463 (466)
|....+
T Consensus 245 l~~~~q 250 (441)
T PRK10365 245 ISPMMQ 250 (441)
T ss_pred CCHHHH
Confidence 976543
No 189
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=98.46 E-value=1.6e-07 Score=95.43 Aligned_cols=86 Identities=23% Similarity=0.387 Sum_probs=60.7
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcccchhH
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAPLGAQ 429 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~~~~e 429 (466)
.+....+++|||..+.+...-++..+...+-.+ +.+||.||||||||.+|-++++.+| .||+.++++.+......
T Consensus 18 ~~~~~~~GlVGQ~~AReAagiiv~mIk~~K~aG---r~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS~e~k 94 (398)
T PF06068_consen 18 EARYIADGLVGQEKAREAAGIIVDMIKEGKIAG---RAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYSSEVK 94 (398)
T ss_dssp -B-SEETTEES-HHHHHHHHHHHHHHHTT--TT----EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-BTTC-
T ss_pred CEeeccccccChHHHHHHHHHHHHHHhcccccC---cEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeeecccC
Confidence 344455789999999999988887776655332 5699999999999999999999996 79999999998665544
Q ss_pred HHHHHHHHHhh
Q 012305 430 AVTKIHEIFDW 440 (466)
Q Consensus 430 ~~~~l~~lf~~ 440 (466)
.-..+.+.|+.
T Consensus 95 KTE~L~qa~Rr 105 (398)
T PF06068_consen 95 KTEALTQAFRR 105 (398)
T ss_dssp HHHHHHHHHHC
T ss_pred chHHHHHHHHH
Confidence 33445555553
No 190
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=98.45 E-value=4.5e-08 Score=100.05 Aligned_cols=52 Identities=13% Similarity=0.195 Sum_probs=41.2
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
...+.|.+|||+++++..|...+ .+ ....+|||+||+|||||++++.++..+
T Consensus 11 ~~~~pf~~ivGq~~~k~al~~~~---~~-----p~~~~vli~G~~GtGKs~~ar~~~~~l 62 (350)
T CHL00081 11 RPVFPFTAIVGQEEMKLALILNV---ID-----PKIGGVMIMGDRGTGKSTTIRALVDLL 62 (350)
T ss_pred CCCCCHHHHhChHHHHHHHHHhc---cC-----CCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence 45678999999999988876431 11 122579999999999999999998877
No 191
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=98.44 E-value=4.8e-08 Score=99.51 Aligned_cols=50 Identities=20% Similarity=0.266 Sum_probs=39.2
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
...|.+|||++.++..+.-.+. +.. ..|+||+||||||||+++++++.-+
T Consensus 4 ~~~f~~i~Gq~~~~~~l~~~~~---~~~-----~~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 4 PFPFSAIVGQEEMKQAMVLTAI---DPG-----IGGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred CCCHHHhCCHHHHHHHHHHHHh---ccC-----CCcEEEEcCCCCCHHHHHHHHHHHC
Confidence 4578899999999887764211 011 2379999999999999999999988
No 192
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=98.42 E-value=2.1e-07 Score=94.11 Aligned_cols=101 Identities=22% Similarity=0.223 Sum_probs=62.6
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc---c-chh-HH
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA---P-LGA-QA 430 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~---~-~~~-e~ 430 (466)
.|++|||++.+++.+...+.. +..+..+|||||+|+|||++|+.++..+-+....-+.+|+. + .+. -.
T Consensus 2 ~~~~i~g~~~~~~~l~~~~~~-------~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~ 74 (313)
T PRK05564 2 SFHTIIGHENIKNRIKNSIIK-------NRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIG 74 (313)
T ss_pred ChhhccCcHHHHHHHHHHHHc-------CCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCC
Confidence 478999999998888765421 22334579999999999999999999762211111111211 1 010 12
Q ss_pred HHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305 431 VTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 431 ~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~ 463 (466)
...++.+.+.+.. .+...|+|||++|.|...-.
T Consensus 75 v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~~a~ 110 (313)
T PRK05564 75 VDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTEQAQ 110 (313)
T ss_pred HHHHHHHHHHHhcCcccCCceEEEEechhhcCHHHH
Confidence 3345555554332 23467999999999875443
No 193
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=98.42 E-value=2.3e-07 Score=95.37 Aligned_cols=52 Identities=21% Similarity=0.284 Sum_probs=41.6
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
+..++++||+..+...+...+.. +..+..+||+||+|+|||++|+.+++.+.
T Consensus 19 P~~~~~l~Gh~~a~~~L~~a~~~-------grl~ha~L~~G~~G~GKttlA~~lA~~Ll 70 (351)
T PRK09112 19 PSENTRLFGHEEAEAFLAQAYRE-------GKLHHALLFEGPEGIGKATLAFHLANHIL 70 (351)
T ss_pred CCchhhccCcHHHHHHHHHHHHc-------CCCCeeEeeECCCCCCHHHHHHHHHHHHc
Confidence 44678899999999988876432 22334599999999999999999999883
No 194
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=98.40 E-value=4.5e-07 Score=91.08 Aligned_cols=88 Identities=23% Similarity=0.360 Sum_probs=66.1
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcccch
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAPLG 427 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~~~ 427 (466)
...+...-+.+|||.++.+..--++..+...+.. -+++||.||||||||.+|-.|++.+| .||+.++++.+-...
T Consensus 31 ng~~k~~~dG~VGQ~~AReAaGvIv~mik~gk~a---GrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEiYS~E 107 (450)
T COG1224 31 NGKAKFIGDGLVGQEEAREAAGVIVKMIKQGKMA---GRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLE 107 (450)
T ss_pred CCCEeEcCCcccchHHHHHhhhHHHHHHHhCccc---ccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeeccceeeeec
Confidence 3344555578999999999887777766655433 35799999999999999999999995 789999999986654
Q ss_pred hHHHHHHHHHHhh
Q 012305 428 AQAVTKIHEIFDW 440 (466)
Q Consensus 428 ~e~~~~l~~lf~~ 440 (466)
...-..+.+.|+.
T Consensus 108 ~kKTE~L~qa~Rr 120 (450)
T COG1224 108 VKKTEALTQALRR 120 (450)
T ss_pred ccHHHHHHHHHHH
Confidence 4333344455543
No 195
>PRK13531 regulatory ATPase RavA; Provisional
Probab=98.40 E-value=1.1e-07 Score=100.32 Aligned_cols=97 Identities=13% Similarity=0.194 Sum_probs=56.8
Q ss_pred CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC--cchhhcCC--Cccc-chhHHHH
Q 012305 358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGG--DVAP-LGAQAVT 432 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~--~l~~-~~~e~~~ 432 (466)
..|+|.+++++.+...+. +. .||||+||||||||++|++|+..++. +|..+.+. .... +|..+..
T Consensus 20 ~~i~gre~vI~lll~aal----ag------~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG~l~i~ 89 (498)
T PRK13531 20 KGLYERSHAIRLCLLAAL----SG------ESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQ 89 (498)
T ss_pred hhccCcHHHHHHHHHHHc----cC------CCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcCcHHHh
Confidence 348899988887765421 11 36999999999999999999998753 34433332 1111 1111111
Q ss_pred HH--HHHHhhhhh--ccCceEEEeccccccccccCC
Q 012305 433 KI--HEIFDWAKK--SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 433 ~l--~~lf~~A~~--~~~~~iLflDEid~l~~~r~~ 464 (466)
.. .+-|..... .....|||+|||..+.++-++
T Consensus 90 ~~~~~g~f~r~~~G~L~~A~lLfLDEI~rasp~~Qs 125 (498)
T PRK13531 90 ALKDEGRYQRLTSGYLPEAEIVFLDEIWKAGPAILN 125 (498)
T ss_pred hhhhcCchhhhcCCccccccEEeecccccCCHHHHH
Confidence 11 122221110 001348999999988766543
No 196
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=98.39 E-value=2.8e-07 Score=95.15 Aligned_cols=52 Identities=19% Similarity=0.261 Sum_probs=41.3
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+..+++|||++.+++.|...+.. +..+..+||+||+|+||+++|..+|+.+
T Consensus 14 ~P~~~~~iiGq~~~~~~L~~~~~~-------~rl~HA~Lf~Gp~G~GK~~lA~~~A~~L 65 (365)
T PRK07471 14 HPRETTALFGHAAAEAALLDAYRS-------GRLHHAWLIGGPQGIGKATLAYRMARFL 65 (365)
T ss_pred CCCchhhccChHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence 345678999999999988765332 2233459999999999999999999988
No 197
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=98.37 E-value=8.6e-07 Score=88.26 Aligned_cols=100 Identities=21% Similarity=0.289 Sum_probs=69.6
Q ss_pred CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC---------CcchhhcCCCccc---
Q 012305 358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---------LDYAMMTGGDVAP--- 425 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---------~~~~~v~~~~l~~--- 425 (466)
+.+||.+.+...+..+...+..++....| |+||+|++|+|||++++.+++... .|++.+..+.-+.
T Consensus 34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp--~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~ 111 (302)
T PF05621_consen 34 DRWIGYPRAKEALDRLEELLEYPKRHRMP--NLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERR 111 (302)
T ss_pred CCeecCHHHHHHHHHHHHHHhCCcccCCC--ceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHH
Confidence 56899999999999988888888887777 899999999999999999987762 2444444333211
Q ss_pred ------------c-hhHHHHH-HHHHHhhhhhccCceEEEecccccccc
Q 012305 426 ------------L-GAQAVTK-IHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 426 ------------~-~~e~~~~-l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
+ ....... ...+....+..+ ..+|+|||++.++.
T Consensus 112 ~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~-vrmLIIDE~H~lLa 159 (302)
T PF05621_consen 112 FYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLG-VRMLIIDEFHNLLA 159 (302)
T ss_pred HHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcC-CcEEEeechHHHhc
Confidence 0 0011111 222334444444 67999999999763
No 198
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=98.34 E-value=4e-07 Score=92.25 Aligned_cols=49 Identities=20% Similarity=0.230 Sum_probs=40.2
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.|++|||++.++..+...+.. +..+..+||+||+|+||+++|.++++.+
T Consensus 2 ~f~~iiGq~~~~~~L~~~i~~-------~rl~ha~Lf~G~~G~Gk~~~A~~~a~~l 50 (314)
T PRK07399 2 LFANLIGQPLAIELLTAAIKQ-------NRIAPAYLFAGPEGVGRKLAALCFIEGL 50 (314)
T ss_pred cHHHhCCHHHHHHHHHHHHHh-------CCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence 478999999999988876433 2223479999999999999999999887
No 199
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=98.34 E-value=2e-07 Score=102.98 Aligned_cols=48 Identities=23% Similarity=0.252 Sum_probs=37.2
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.|..|||++.++..+.-.+ + +.. ..+|||+||||||||++|++|+..+
T Consensus 2 pf~~ivGq~~~~~al~~~a--v-~~~-----~g~vli~G~~GtgKs~lar~l~~~l 49 (633)
T TIGR02442 2 PFTAIVGQEDLKLALLLNA--V-DPR-----IGGVLIRGEKGTAKSTAARGLAALL 49 (633)
T ss_pred CcchhcChHHHHHHHHHHh--h-CCC-----CCeEEEEcCCCCcHHHHHHHHHHhC
Confidence 5788999999887765321 1 111 1369999999999999999999888
No 200
>PRK06835 DNA replication protein DnaC; Validated
Probab=98.33 E-value=3.4e-07 Score=93.18 Aligned_cols=69 Identities=29% Similarity=0.445 Sum_probs=46.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH----HHHHHHHHhhhhhccCceEEEeccccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA----VTKIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~----~~~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
.+++||||||||||+|+.+||+.+ |..++.++.+++....... .......++.. ...++|+|||++...
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l---~~~DLLIIDDlG~e~ 259 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLL---INCDLLIIDDLGTEK 259 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHh---ccCCEEEEeccCCCC
Confidence 579999999999999999999987 6777777766654322111 00111112322 225899999998764
No 201
>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=98.33 E-value=7.9e-08 Score=89.50 Aligned_cols=69 Identities=32% Similarity=0.465 Sum_probs=43.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHHHHHHhhhhhccCceEEEeccccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
.|++|+||||||||++|.++++.+ |.++..++.+++......+ ......++.... ...+|||||++...
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~---~~dlLilDDlG~~~ 121 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLK---RVDLLILDDLGYEP 121 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH---TSSCEEEETCTSS-
T ss_pred eEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccc---cccEecccccceee
Confidence 579999999999999999998877 6777666665543211110 111222333322 26799999998654
No 202
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=2.9e-07 Score=95.91 Aligned_cols=48 Identities=33% Similarity=0.447 Sum_probs=39.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
...|.||+|++..++.+.-.. ....|+||+||||||||++|+.+..-+
T Consensus 175 ~~D~~DV~GQ~~AKrAleiAA----------AGgHnLl~~GpPGtGKTmla~Rl~~lL 222 (490)
T COG0606 175 APDFKDVKGQEQAKRALEIAA----------AGGHNLLLVGPPGTGKTMLASRLPGLL 222 (490)
T ss_pred CcchhhhcCcHHHHHHHHHHH----------hcCCcEEEecCCCCchHHhhhhhcccC
Confidence 347899999999999987542 122479999999999999999987666
No 203
>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=98.31 E-value=3.7e-07 Score=85.29 Aligned_cols=76 Identities=21% Similarity=0.389 Sum_probs=45.5
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCCc--c-----------hhh---cCCCcccc---h-hHHHHHHHHHHhhhhh---
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGLD--Y-----------AMM---TGGDVAPL---G-AQAVTKIHEIFDWAKK--- 443 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~~--~-----------~~v---~~~~l~~~---~-~e~~~~l~~lf~~A~~--- 443 (466)
+..+|||||||+|||++++.+++.+... . ..+ +..|+... + .-....++.+.+.+..
T Consensus 14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~~ 93 (188)
T TIGR00678 14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTPQ 93 (188)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCcc
Confidence 3569999999999999999999887321 0 000 01111100 0 0112344444444433
Q ss_pred ccCceEEEecccccccccc
Q 012305 444 SKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 444 ~~~~~iLflDEid~l~~~r 462 (466)
.+...||||||+|.|....
T Consensus 94 ~~~~kviiide~~~l~~~~ 112 (188)
T TIGR00678 94 ESGRRVVIIEDAERMNEAA 112 (188)
T ss_pred cCCeEEEEEechhhhCHHH
Confidence 3456899999999987643
No 204
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=98.28 E-value=1.7e-07 Score=100.33 Aligned_cols=47 Identities=34% Similarity=0.491 Sum_probs=36.1
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
..|.+|+|+..++..+...+ ....+++|+||||||||++++.++..+
T Consensus 189 ~d~~dv~Gq~~~~~al~~aa----------~~g~~vlliG~pGsGKTtlar~l~~ll 235 (499)
T TIGR00368 189 LDLKDIKGQQHAKRALEIAA----------AGGHNLLLFGPPGSGKTMLASRLQGIL 235 (499)
T ss_pred CCHHHhcCcHHHHhhhhhhc----------cCCCEEEEEecCCCCHHHHHHHHhccc
Confidence 36889999988876665432 112369999999999999999998754
No 205
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=98.27 E-value=7.9e-07 Score=85.12 Aligned_cols=91 Identities=19% Similarity=0.356 Sum_probs=69.4
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ 429 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e 429 (466)
+...+.+++|-+..++.|..-...+.. +.|-.||||+|.-||||+++++++.+.+ |...+.|+-.++.
T Consensus 55 ~~i~L~~l~Gvd~qk~~L~~NT~~F~~----G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~----- 125 (287)
T COG2607 55 DPIDLADLVGVDRQKEALVRNTEQFAE----GLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLA----- 125 (287)
T ss_pred CCcCHHHHhCchHHHHHHHHHHHHHHc----CCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHh-----
Confidence 345678899999999988765444433 4555699999999999999999998887 5566666666553
Q ss_pred HHHHHHHHHhhhhhccCceEEEeccc
Q 012305 430 AVTKIHEIFDWAKKSKKGLLLFIDEA 455 (466)
Q Consensus 430 ~~~~l~~lf~~A~~~~~~~iLflDEi 455 (466)
.+-.+++..+..+...|||+|+.
T Consensus 126 ---~Lp~l~~~Lr~~~~kFIlFcDDL 148 (287)
T COG2607 126 ---TLPDLVELLRARPEKFILFCDDL 148 (287)
T ss_pred ---hHHHHHHHHhcCCceEEEEecCC
Confidence 44567777777777899999975
No 206
>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=98.24 E-value=6.8e-07 Score=87.69 Aligned_cols=74 Identities=27% Similarity=0.416 Sum_probs=53.9
Q ss_pred ccccCCCCCCchHHHHHHH------HhhCCcchhhcCCCcccchhH--HHHHHHHHHhhhhh-------ccCceEEEecc
Q 012305 390 MLFYGPPGTGKTMVAREIA------RKSGLDYAMMTGGDVAPLGAQ--AVTKIHEIFDWAKK-------SKKGLLLFIDE 454 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA------~~l~~~~~~v~~~~l~~~~~e--~~~~l~~lf~~A~~-------~~~~~iLflDE 454 (466)
+||.||+|.||+.+|+.|- +.+..+|+.+||..+-..+.- ..+.+++.|..+.. +..|++|||||
T Consensus 211 ~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadggmlflde 290 (531)
T COG4650 211 ILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGGMLFLDE 290 (531)
T ss_pred eEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCceEehHh
Confidence 9999999999999999984 234778999999887432221 23455566655443 34479999999
Q ss_pred ccccccccC
Q 012305 455 ADAFLCDNQ 463 (466)
Q Consensus 455 id~l~~~r~ 463 (466)
|+.+..+.+
T Consensus 291 igelgadeq 299 (531)
T COG4650 291 IGELGADEQ 299 (531)
T ss_pred hhhcCccHH
Confidence 999876544
No 207
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=98.24 E-value=1.3e-06 Score=91.73 Aligned_cols=95 Identities=25% Similarity=0.310 Sum_probs=55.2
Q ss_pred CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc--ch---hhcCC------Cc--
Q 012305 357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD--YA---MMTGG------DV-- 423 (466)
Q Consensus 357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~--~~---~v~~~------~l-- 423 (466)
++++++.+...+.+...+. ..++++|+||||||||++|+.||..++.. +. .+... ++
T Consensus 174 l~d~~i~e~~le~l~~~L~----------~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~ 243 (459)
T PRK11331 174 LNDLFIPETTIETILKRLT----------IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQ 243 (459)
T ss_pred hhcccCCHHHHHHHHHHHh----------cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhc
Confidence 5666666666655543322 12479999999999999999999988432 11 11111 11
Q ss_pred --cc--chhHH-HHHHHHHHhhhhhcc-CceEEEeccccccccc
Q 012305 424 --AP--LGAQA-VTKIHEIFDWAKKSK-KGLLLFIDEADAFLCD 461 (466)
Q Consensus 424 --~~--~~~e~-~~~l~~lf~~A~~~~-~~~iLflDEid~l~~~ 461 (466)
.+ .+..- .+.+..++..|...+ .+.+||||||+.....
T Consensus 244 G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~ 287 (459)
T PRK11331 244 GYRPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLS 287 (459)
T ss_pred ccCCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHH
Confidence 01 11110 112334455555432 4789999999986543
No 208
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=98.24 E-value=1.2e-06 Score=90.80 Aligned_cols=106 Identities=18% Similarity=0.220 Sum_probs=65.5
Q ss_pred ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305 350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA 424 (466)
Q Consensus 350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~ 424 (466)
...+.++|+++|..+...-...-......++ +.++..++||||+|+|||+|.+++++.. +..|+.++..++.
T Consensus 79 ~l~~~ytFdnFv~g~~N~~A~aa~~~va~~~---g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~ 155 (408)
T COG0593 79 GLNPKYTFDNFVVGPSNRLAYAAAKAVAENP---GGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFT 155 (408)
T ss_pred cCCCCCchhheeeCCchHHHHHHHHHHHhcc---CCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHH
Confidence 4678889999998888776665444433333 2244569999999999999999999987 2234444443332
Q ss_pred c-chhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
. +.......-..-|.. .+ .-++|+||+|+.+.++
T Consensus 156 ~~~v~a~~~~~~~~Fk~--~y-~~dlllIDDiq~l~gk 190 (408)
T COG0593 156 NDFVKALRDNEMEKFKE--KY-SLDLLLIDDIQFLAGK 190 (408)
T ss_pred HHHHHHHHhhhHHHHHH--hh-ccCeeeechHhHhcCC
Confidence 1 110000000111111 12 2579999999999876
No 209
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.23 E-value=5.6e-07 Score=78.32 Aligned_cols=71 Identities=27% Similarity=0.397 Sum_probs=43.5
Q ss_pred ccccccCCCCCCchHHHHHHHHhh--------CCcchhhcCCCccc----------------ch-hHHHHHHHHHHhhhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS--------GLDYAMMTGGDVAP----------------LG-AQAVTKIHEIFDWAK 442 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l--------~~~~~~v~~~~l~~----------------~~-~e~~~~l~~lf~~A~ 442 (466)
+.++++||||+|||++++.++..+ ..+++.++++.... .. .........+.+...
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~ 84 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALD 84 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHH
T ss_pred cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHH
Confidence 368999999999999999999887 45555555433221 00 011222234444444
Q ss_pred hccCceEEEeccccccc
Q 012305 443 KSKKGLLLFIDEADAFL 459 (466)
Q Consensus 443 ~~~~~~iLflDEid~l~ 459 (466)
..+ ..+|+|||+|.+.
T Consensus 85 ~~~-~~~lviDe~~~l~ 100 (131)
T PF13401_consen 85 RRR-VVLLVIDEADHLF 100 (131)
T ss_dssp HCT-EEEEEEETTHHHH
T ss_pred hcC-CeEEEEeChHhcC
Confidence 433 4699999999973
No 210
>PRK06921 hypothetical protein; Provisional
Probab=98.23 E-value=6.3e-07 Score=88.74 Aligned_cols=68 Identities=21% Similarity=0.198 Sum_probs=41.6
Q ss_pred cccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
..+++|+||||||||+|+.+|++.+ |.+++.++..++..............+.. ....++|+|||++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~---~~~~dlLiIDDl~~ 188 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNR---MKKVEVLFIDDLFK 188 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHHHHHHHHHHH---hcCCCEEEEecccc
Confidence 3579999999999999999999876 44555555433221111111111222222 23368999999943
No 211
>PRK09087 hypothetical protein; Validated
Probab=98.22 E-value=1.9e-06 Score=83.31 Aligned_cols=60 Identities=20% Similarity=0.235 Sum_probs=40.3
Q ss_pred cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
..+..+|+++|..+.....+..+.... .++...++||||+|||||+|+++++...+..|+
T Consensus 14 ~~~~~~~~~Fi~~~~N~~a~~~l~~~~------~~~~~~l~l~G~~GsGKThLl~~~~~~~~~~~i 73 (226)
T PRK09087 14 HDPAYGRDDLLVTESNRAAVSLVDHWP------NWPSPVVVLAGPVGSGKTHLASIWREKSDALLI 73 (226)
T ss_pred CCCCCChhceeecCchHHHHHHHHhcc------cCCCCeEEEECCCCCCHHHHHHHHHHhcCCEEe
Confidence 455678999987555554444332211 112234999999999999999999987655443
No 212
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=1.7e-06 Score=95.84 Aligned_cols=98 Identities=22% Similarity=0.328 Sum_probs=73.1
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA 424 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~ 424 (466)
..++-|||.+.-+.++-+++..- ++. |-+|.|+||+|||.++..||... +..++.++.+.+.
T Consensus 167 gklDPvIGRd~EI~r~iqIL~RR--~KN------NPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~Lv 238 (786)
T COG0542 167 GKLDPVIGRDEEIRRTIQILSRR--TKN------NPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLV 238 (786)
T ss_pred CCCCCCcChHHHHHHHHHHHhcc--CCC------CCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHh
Confidence 35688999988887776654321 222 57899999999999999999876 3333444433332
Q ss_pred ---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 425 ---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 425 ---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
.+.++-..+++.+.+.....+ +.|||||||+.+.+-
T Consensus 239 AGakyRGeFEeRlk~vl~ev~~~~-~vILFIDEiHtiVGA 277 (786)
T COG0542 239 AGAKYRGEFEERLKAVLKEVEKSK-NVILFIDEIHTIVGA 277 (786)
T ss_pred ccccccCcHHHHHHHHHHHHhcCC-CeEEEEechhhhcCC
Confidence 255677889999999999887 899999999998754
No 213
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=2.1e-06 Score=92.68 Aligned_cols=96 Identities=17% Similarity=0.246 Sum_probs=69.4
Q ss_pred CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC----CcchhhcCCCcccchhHH-HH
Q 012305 358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG----LDYAMMTGGDVAPLGAQA-VT 432 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~----~~~~~v~~~~l~~~~~e~-~~ 432 (466)
.++|..++.++.... . .-++.....++||+||+|||||.|+++++.++. ..+..++|+.+.....+. -.
T Consensus 408 ~d~i~~~s~kke~~n--~----~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk 481 (952)
T KOG0735|consen 408 HDFIQVPSYKKENAN--Q----ELSPVFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQK 481 (952)
T ss_pred Cceeecchhhhhhhh--h----hcccccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHH
Confidence 567777777776654 1 112233346899999999999999999999984 345678888875433332 23
Q ss_pred HHHHHHhhhhhccCceEEEecccccccc
Q 012305 433 KIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 433 ~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
.+..+|..+..+. |+||+||++|.+.+
T Consensus 482 ~l~~vfse~~~~~-PSiIvLDdld~l~~ 508 (952)
T KOG0735|consen 482 FLNNVFSEALWYA-PSIIVLDDLDCLAS 508 (952)
T ss_pred HHHHHHHHHHhhC-CcEEEEcchhhhhc
Confidence 4667777777666 89999999999986
No 214
>PRK09183 transposase/IS protein; Provisional
Probab=98.19 E-value=6.3e-07 Score=88.41 Aligned_cols=72 Identities=25% Similarity=0.387 Sum_probs=45.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-chh-HHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-LGA-QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-~~~-e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
.+++|+||||||||+++.+|+... |+.+..+++.++.. +.. .....+...+... ....++|+|||++.+..+
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~--~~~~dlLiiDdlg~~~~~ 179 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRG--VMAPRLLIIDEIGYLPFS 179 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHH--hcCCCEEEEcccccCCCC
Confidence 479999999999999999997664 66666665554431 110 1111233344332 123679999999876443
No 215
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=98.18 E-value=1.1e-06 Score=89.61 Aligned_cols=101 Identities=18% Similarity=0.159 Sum_probs=62.5
Q ss_pred CCCeee-CcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhc---
Q 012305 357 NGDIIL-HPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMT--- 419 (466)
Q Consensus 357 l~~vVg-~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~--- 419 (466)
|+.|+| ++.+++.+...+.. +..+..+|||||+|+|||++|+.+++.+-.+- -.+.
T Consensus 4 ~~~i~~~q~~~~~~L~~~~~~-------~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~ 76 (329)
T PRK08058 4 WEQLTALQPVVVKMLQNSIAK-------NRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGN 76 (329)
T ss_pred HHHHHhhHHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCC
Confidence 566888 88888888765422 33334679999999999999999998872210 0111
Q ss_pred CCCcccc---hh-HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305 420 GGDVAPL---GA-QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 420 ~~~l~~~---~~-e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~ 464 (466)
.+|+... +. -....++.+.+.+. ..+.+.|+|||++|.|...-+|
T Consensus 77 hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~N 128 (329)
T PRK08058 77 HPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAAN 128 (329)
T ss_pred CCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHH
Confidence 1122111 11 12345566655544 2334679999999999765443
No 216
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=2.1e-06 Score=85.82 Aligned_cols=82 Identities=22% Similarity=0.365 Sum_probs=60.2
Q ss_pred eeeCcchHHHHHHHHH-hhcc-----ccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC---cccchhHH
Q 012305 360 IILHPSLQRRIQHLAK-ATAN-----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD---VAPLGAQA 430 (466)
Q Consensus 360 vVg~~~~~~~l~~~~~-~~~~-----~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~---l~~~~~e~ 430 (466)
|||+.++++.+.-.++ .++. .......|+|+|+.||+|+|||.+|+.||+-.|.||+.+-..- +++.|.+-
T Consensus 17 IIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATKfTEVGYVGrDV 96 (444)
T COG1220 17 IIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVGYVGRDV 96 (444)
T ss_pred hcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeeeeeecccccccH
Confidence 8999999998865332 2111 1223455789999999999999999999999999999987654 45566666
Q ss_pred HHHHHHHHhhh
Q 012305 431 VTKIHEIFDWA 441 (466)
Q Consensus 431 ~~~l~~lf~~A 441 (466)
.+.++++.+.+
T Consensus 97 esivRDLve~a 107 (444)
T COG1220 97 ESIIRDLVEIA 107 (444)
T ss_pred HHHHHHHHHHH
Confidence 66666666543
No 217
>PF13173 AAA_14: AAA domain
Probab=98.16 E-value=1.8e-06 Score=75.69 Aligned_cols=69 Identities=20% Similarity=0.221 Sum_probs=46.8
Q ss_pred cccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
.++|+||.|||||++++.++..+. .+++.+++.+.......... +...+.... .....+||||||..+.
T Consensus 4 ~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~i~iDEiq~~~ 74 (128)
T PF13173_consen 4 IIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD-LLEYFLELI-KPGKKYIFIDEIQYLP 74 (128)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh-hHHHHHHhh-ccCCcEEEEehhhhhc
Confidence 488999999999999999998886 77888888776442211111 222222111 1236899999998863
No 218
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=98.15 E-value=3.8e-07 Score=93.11 Aligned_cols=48 Identities=19% Similarity=0.249 Sum_probs=37.3
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.|..|||+++++..+.-.+ + ++. ..++||.|+||||||+++++|+..+
T Consensus 2 pf~~ivgq~~~~~al~~~~--~-~~~-----~g~vli~G~~G~gKttl~r~~~~~~ 49 (337)
T TIGR02030 2 PFTAIVGQDEMKLALLLNV--I-DPK-----IGGVMVMGDRGTGKSTAVRALAALL 49 (337)
T ss_pred CccccccHHHHHHHHHHHh--c-CCC-----CCeEEEEcCCCCCHHHHHHHHHHhh
Confidence 5788999999988764321 1 111 2479999999999999999999877
No 219
>PHA00729 NTP-binding motif containing protein
Probab=98.11 E-value=2.1e-06 Score=82.49 Aligned_cols=25 Identities=32% Similarity=0.488 Sum_probs=23.3
Q ss_pred ccccccCCCCCCchHHHHHHHHhhC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
.+++|+|+||||||++|.+|+..++
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHH
Confidence 4799999999999999999999876
No 220
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=3.8e-06 Score=91.46 Aligned_cols=76 Identities=29% Similarity=0.504 Sum_probs=66.2
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~ 464 (466)
..+||+|+||||||++.+++|.++|.+++.++|..+.. ....+...+...|..++.+. +.||||-..|-|..++++
T Consensus 432 ~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~-pavifl~~~dvl~id~dg 508 (953)
T KOG0736|consen 432 PSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCS-PAVLFLRNLDVLGIDQDG 508 (953)
T ss_pred eEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcC-ceEEEEeccceeeecCCC
Confidence 47999999999999999999999999999999987754 45566788899999999876 899999999998866553
No 221
>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=98.11 E-value=2.6e-06 Score=78.13 Aligned_cols=96 Identities=24% Similarity=0.300 Sum_probs=54.4
Q ss_pred eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch------------h---hcCCCcccc
Q 012305 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA------------M---MTGGDVAPL 426 (466)
Q Consensus 362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~------------~---v~~~~l~~~ 426 (466)
|++.+.+.|..++.. +..+..+||+||+|+||+++|..+++.+-..-. . .+.+|+...
T Consensus 1 gq~~~~~~L~~~~~~-------~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~ 73 (162)
T PF13177_consen 1 GQEEIIELLKNLIKS-------GRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIII 73 (162)
T ss_dssp S-HHHHHHHHHHHHC-------TC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEE
T ss_pred CcHHHHHHHHHHHHc-------CCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEE
Confidence 455555555544221 233345899999999999999999998821111 1 112222111
Q ss_pred hh------HHHHHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305 427 GA------QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 427 ~~------e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~ 464 (466)
.. -....++.+.+++.. ...+.|++||++|.|...-+|
T Consensus 74 ~~~~~~~~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~N 120 (162)
T PF13177_consen 74 KPDKKKKSIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQN 120 (162)
T ss_dssp ETTTSSSSBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHH
T ss_pred ecccccchhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHH
Confidence 11 123455555555443 334689999999999876544
No 222
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=98.06 E-value=1.3e-06 Score=93.54 Aligned_cols=93 Identities=23% Similarity=0.334 Sum_probs=66.2
Q ss_pred eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCccc--chhHHHHHHHHH
Q 012305 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAP--LGAQAVTKIHEI 437 (466)
Q Consensus 362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~--~~~e~~~~l~~l 437 (466)
+.+.....+...+..+..++.+ +|++|.|||||..++++|+..++ .+|+.|||+.++. .+.+-++.+.+.
T Consensus 317 ~~d~s~a~l~rk~~rv~~~~~p------vll~GEtGtGKe~laraiH~~s~~~gpfvAvNCaAip~~liesELFGy~~Ga 390 (606)
T COG3284 317 LLDPSRATLLRKAERVAATDLP------VLLQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIESELFGYVAGA 390 (606)
T ss_pred ccCHHHHHHHHHHHHHhhcCCC------eEecCCcchhHHHHHHHHHhcccccCCeEEEEeccchHHhhhHHHhccCccc
Confidence 4455555555555566555554 99999999999999999998884 6899999999876 333334444455
Q ss_pred Hhhhhh--------ccCceEEEecccccccc
Q 012305 438 FDWAKK--------SKKGLLLFIDEADAFLC 460 (466)
Q Consensus 438 f~~A~~--------~~~~~iLflDEid~l~~ 460 (466)
|..+.. ...+++||||||+.|.-
T Consensus 391 fTga~~kG~~g~~~~A~gGtlFldeIgd~p~ 421 (606)
T COG3284 391 FTGARRKGYKGKLEQADGGTLFLDEIGDMPL 421 (606)
T ss_pred cccchhccccccceecCCCccHHHHhhhchH
Confidence 544332 22369999999999853
No 223
>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=97.94 E-value=9.2e-06 Score=72.47 Aligned_cols=32 Identities=31% Similarity=0.491 Sum_probs=25.2
Q ss_pred cccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG 420 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~ 420 (466)
.++|+||||||||+++..++... +.+++.+++
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~ 35 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDI 35 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEEC
Confidence 37899999999999999998877 445555444
No 224
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=97.94 E-value=1.6e-05 Score=78.24 Aligned_cols=71 Identities=25% Similarity=0.431 Sum_probs=55.2
Q ss_pred ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCccc
Q 012305 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAP 425 (466)
Q Consensus 352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~ 425 (466)
.+...-+.+||+..+.+...-++..+...+-. -+.+||.||||||||.+|-+++.++| .||+.+.|+.+..
T Consensus 32 ~~~~~~~g~vGQ~~AReAagiivdlik~Kkma---GravLlaGppgtGKTAlAlaisqELG~kvPFcpmvgSEvyS 104 (456)
T KOG1942|consen 32 NAVEVAAGFVGQENAREAAGIIVDLIKSKKMA---GRAVLLAGPPGTGKTALALAISQELGPKVPFCPMVGSEVYS 104 (456)
T ss_pred CeeecccccccchhhhhhhhHHHHHHHhhhcc---CcEEEEecCCCCchhHHHHHHHHHhCCCCCcccccchhhhh
Confidence 34444578999999988876666655544333 35699999999999999999999995 7899999988754
No 225
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=97.92 E-value=7.2e-06 Score=83.62 Aligned_cols=78 Identities=19% Similarity=0.280 Sum_probs=48.9
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCCc--c-----------hhhc---CCCcccc---h---hHHHHHHHHHHhhhhh-
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGLD--Y-----------AMMT---GGDVAPL---G---AQAVTKIHEIFDWAKK- 443 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~~--~-----------~~v~---~~~l~~~---~---~e~~~~l~~lf~~A~~- 443 (466)
+..+||+||+|+|||++|+.+|+.+... . -.+. -+|+..+ + .-.+..++.+.+.+..
T Consensus 22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~ 101 (328)
T PRK05707 22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQT 101 (328)
T ss_pred ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhc
Confidence 3469999999999999999999988321 0 0111 1122111 1 1124456666555443
Q ss_pred --ccCceEEEeccccccccccCC
Q 012305 444 --SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 444 --~~~~~iLflDEid~l~~~r~~ 464 (466)
.+.+.|+|||++|.|...-.|
T Consensus 102 ~~~~~~kv~iI~~a~~m~~~aaN 124 (328)
T PRK05707 102 AQLGGRKVVLIEPAEAMNRNAAN 124 (328)
T ss_pred cccCCCeEEEECChhhCCHHHHH
Confidence 334689999999999865544
No 226
>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=97.90 E-value=2.9e-05 Score=76.24 Aligned_cols=24 Identities=29% Similarity=0.519 Sum_probs=22.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
.++|+||||+|||++++.+++.+.
T Consensus 45 ~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 45 FILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred EEEEEcCCCCCHHHHHHHHHHhcC
Confidence 488999999999999999998874
No 227
>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=97.89 E-value=9.9e-06 Score=82.87 Aligned_cols=63 Identities=16% Similarity=0.113 Sum_probs=45.5
Q ss_pred CCC-CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC-------cchhhcC
Q 012305 356 NNG-DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL-------DYAMMTG 420 (466)
Q Consensus 356 ~l~-~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~-------~~~~v~~ 420 (466)
-|+ +++|.++.+..+...+....... ....+.++|+||||||||++|++|++.++. +++.+.+
T Consensus 48 ~F~~~~~G~~~~i~~lv~~l~~~a~g~--~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~ 118 (361)
T smart00763 48 FFDHDFFGMEEAIERFVNYFKSAAQGL--EERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW 118 (361)
T ss_pred ccchhccCcHHHHHHHHHHHHHHHhcC--CCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence 355 79999888777766544443221 112245899999999999999999999954 6666666
No 228
>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=97.84 E-value=4.5e-05 Score=66.70 Aligned_cols=52 Identities=23% Similarity=0.247 Sum_probs=37.9
Q ss_pred CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+.||+-+.+.|-..+...-....+..| .-+.|+||||||||.+++.||+.+
T Consensus 26 ~l~GQhla~~~v~~ai~~~l~~~~p~Kp-LVlSfHG~tGtGKn~v~~liA~~l 77 (127)
T PF06309_consen 26 NLFGQHLAVEVVVNAIKGHLANPNPRKP-LVLSFHGWTGTGKNFVSRLIAEHL 77 (127)
T ss_pred HccCcHHHHHHHHHHHHHHHcCCCCCCC-EEEEeecCCCCcHHHHHHHHHHHH
Confidence 4889998888886655443333333333 345599999999999999999996
No 229
>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]
Probab=97.83 E-value=3.3e-05 Score=76.37 Aligned_cols=97 Identities=16% Similarity=0.157 Sum_probs=58.9
Q ss_pred eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCC--Cccc------c
Q 012305 360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGG--DVAP------L 426 (466)
Q Consensus 360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~--~l~~------~ 426 (466)
+.||.-+++.|-..+....++..+..| ..+-|+|+|||||..+++.||+++ ..+|+..--+ +++. +
T Consensus 84 lfGQHla~~~Vv~alk~~~~n~~p~KP-LvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~Y 162 (344)
T KOG2170|consen 84 LFGQHLAKQLVVNALKSHWANPNPRKP-LVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIEDY 162 (344)
T ss_pred hhchHHHHHHHHHHHHHHhcCCCCCCC-eEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHHH
Confidence 678888888776654443333333333 335589999999999999999988 3444432211 2221 1
Q ss_pred hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~ 461 (466)
..+....++ +.+..+. .+|+++||+|.|.+.
T Consensus 163 k~eL~~~v~---~~v~~C~-rslFIFDE~DKmp~g 193 (344)
T KOG2170|consen 163 KEELKNRVR---GTVQACQ-RSLFIFDEVDKLPPG 193 (344)
T ss_pred HHHHHHHHH---HHHHhcC-CceEEechhhhcCHh
Confidence 112222223 3333344 689999999998753
No 230
>PRK09862 putative ATP-dependent protease; Provisional
Probab=97.78 E-value=6.9e-06 Score=87.96 Aligned_cols=47 Identities=36% Similarity=0.487 Sum_probs=34.1
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
..|.+++|+..++..+... -....+++|+||||||||++++.|+..+
T Consensus 188 ~d~~~v~Gq~~~~~al~la----------a~~G~~llliG~~GsGKTtLak~L~gll 234 (506)
T PRK09862 188 HDLSDVIGQEQGKRGLEIT----------AAGGHNLLLIGPPGTGKTMLASRINGLL 234 (506)
T ss_pred cCeEEEECcHHHHhhhhee----------ccCCcEEEEECCCCCcHHHHHHHHhccC
Confidence 3677788877666554321 1122479999999999999999998766
No 231
>smart00350 MCM minichromosome maintenance proteins.
Probab=97.78 E-value=5.5e-06 Score=89.42 Aligned_cols=101 Identities=18% Similarity=0.167 Sum_probs=53.8
Q ss_pred CCeeeCcchHHHHHHHH-Hhhccccccccc---cccccccCCCCCCchHHHHHHHHhhCC-cchhh---cCCCccc-chh
Q 012305 358 GDIILHPSLQRRIQHLA-KATANTKIHQAP---FRNMLFYGPPGTGKTMVAREIARKSGL-DYAMM---TGGDVAP-LGA 428 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~-~~~~~~~~~~~p---~~~vLl~GppGTGKT~lA~alA~~l~~-~~~~v---~~~~l~~-~~~ 428 (466)
..++|+..++..+.-.+ .........+.. ..||||+|+||||||++++.++..+.. .|+.. ++..+.. ...
T Consensus 203 p~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~~ 282 (509)
T smart00350 203 PSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTR 282 (509)
T ss_pred ccccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccceE
Confidence 35778887765553322 111111111111 237999999999999999999998743 33321 2211211 000
Q ss_pred HH----HHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 429 QA----VTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 429 e~----~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
+. .....+.+..| .+++|+|||++.|..+-
T Consensus 283 ~~~~g~~~~~~G~l~~A----~~Gil~iDEi~~l~~~~ 316 (509)
T smart00350 283 DPETREFTLEGGALVLA----DNGVCCIDEFDKMDDSD 316 (509)
T ss_pred ccCcceEEecCccEEec----CCCEEEEechhhCCHHH
Confidence 00 00011222222 26899999999987543
No 232
>PRK14974 cell division protein FtsY; Provisional
Probab=97.77 E-value=6.3e-05 Score=76.85 Aligned_cols=73 Identities=23% Similarity=0.297 Sum_probs=47.1
Q ss_pred cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAK 442 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~ 442 (466)
+.-++|+||||+||||++..||..+ |..++.++++.+-. .+.+....+...++++.
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~ 219 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAK 219 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHH
Confidence 3568999999999999999998776 55666665543210 11111122334445554
Q ss_pred hccCceEEEecccccccc
Q 012305 443 KSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 443 ~~~~~~iLflDEid~l~~ 460 (466)
..+ .++||||.++.+..
T Consensus 220 ~~~-~DvVLIDTaGr~~~ 236 (336)
T PRK14974 220 ARG-IDVVLIDTAGRMHT 236 (336)
T ss_pred hCC-CCEEEEECCCccCC
Confidence 433 67999999998754
No 233
>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=97.77 E-value=2.2e-05 Score=76.80 Aligned_cols=50 Identities=28% Similarity=0.497 Sum_probs=37.5
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
+.+|+.++++.+....+..+ ......| |+|||||+|+||-|.+.+|-+++
T Consensus 9 pksl~~l~~~~e~~~~Lksl------~~~~d~P--Hll~yGPSGaGKKTrimclL~el 58 (351)
T KOG2035|consen 9 PKSLDELIYHEELANLLKSL------SSTGDFP--HLLVYGPSGAGKKTRIMCLLREL 58 (351)
T ss_pred cchhhhcccHHHHHHHHHHh------cccCCCC--eEEEECCCCCCchhhHHHHHHHH
Confidence 34567788877777776654 1222234 89999999999999999998887
No 234
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=97.76 E-value=3.6e-05 Score=76.93 Aligned_cols=35 Identities=29% Similarity=0.464 Sum_probs=29.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhh----C-CcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS----G-LDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l----~-~~~~~v~~~~ 422 (466)
+.++|+||+|+||||++..|+..+ | ..+..++++.
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~ 234 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT 234 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence 468899999999999999998766 3 6777777765
No 235
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=2.9e-05 Score=83.49 Aligned_cols=79 Identities=32% Similarity=0.593 Sum_probs=65.6
Q ss_pred ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 384 QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 384 ~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
..|+++++++||||||||++++.++.. +..+..+++..+. .+.+++...++.+|.++.... ++++|+||+|.+.+.+
T Consensus 15 ~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~-~~ii~~d~~~~~~~~~ 92 (494)
T COG0464 15 IEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLA-PSIIFIDEIDALAPKR 92 (494)
T ss_pred CCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhC-CCeEeechhhhcccCc
Confidence 456688999999999999999999999 6655666666544 466778889999999999877 4999999999999887
Q ss_pred CC
Q 012305 463 QD 464 (466)
Q Consensus 463 ~~ 464 (466)
..
T Consensus 93 ~~ 94 (494)
T COG0464 93 SS 94 (494)
T ss_pred cc
Confidence 54
No 236
>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=97.76 E-value=1.1e-05 Score=69.42 Aligned_cols=30 Identities=37% Similarity=0.784 Sum_probs=26.1
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
|+|+|||||||||+|+.|+..+|.+++.++
T Consensus 2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d 31 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERLGFPVISMD 31 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHTCEEEEEH
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCeEEEec
Confidence 789999999999999999999987765443
No 237
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=97.70 E-value=4.5e-06 Score=91.46 Aligned_cols=73 Identities=21% Similarity=0.241 Sum_probs=47.2
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCC--cchhhcCCCccc--chhHH-HHHH--------HHHHhhhhhccCceEEEec
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGGDVAP--LGAQA-VTKI--------HEIFDWAKKSKKGLLLFID 453 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~~l~~--~~~e~-~~~l--------~~lf~~A~~~~~~~iLflD 453 (466)
..||||.|+||||||+++++|+..++. +|+.+.++.... .|.-. ...+ .+++..+ .++|||||
T Consensus 16 ~g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A----~~GvL~lD 91 (589)
T TIGR02031 16 LGGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEA----PRGVLYVD 91 (589)
T ss_pred cceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeC----CCCcEecc
Confidence 358999999999999999999998854 587777532221 11100 0000 1122222 26899999
Q ss_pred cccccccccC
Q 012305 454 EADAFLCDNQ 463 (466)
Q Consensus 454 Eid~l~~~r~ 463 (466)
||+.+.++-+
T Consensus 92 Ei~rl~~~~q 101 (589)
T TIGR02031 92 MANLLDDGLS 101 (589)
T ss_pred chhhCCHHHH
Confidence 9999876544
No 238
>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=97.69 E-value=2e-05 Score=67.00 Aligned_cols=63 Identities=24% Similarity=0.306 Sum_probs=37.3
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~ 460 (466)
|+||||||+|||++++.|+..+...+.......+-. . ..-.+.++.-. .-.++++||+.....
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~-~----~~~~~~w~gY~---~q~vvi~DD~~~~~~ 63 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYT-R----NPGDKFWDGYQ---GQPVVIIDDFGQDND 63 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEe-C----CCccchhhccC---CCcEEEEeecCcccc
Confidence 579999999999999999888743321111111100 0 01123343332 246899999887653
No 239
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=97.69 E-value=2.7e-05 Score=74.90 Aligned_cols=22 Identities=41% Similarity=0.691 Sum_probs=19.8
Q ss_pred ccccccCCCCCCchHHHHHHHH
Q 012305 388 RNMLFYGPPGTGKTMVAREIAR 409 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~ 409 (466)
..+||||+||||||++|+.++.
T Consensus 13 ~~~liyG~~G~GKtt~a~~~~~ 34 (220)
T TIGR01618 13 NMYLIYGKPGTGKTSTIKYLPG 34 (220)
T ss_pred cEEEEECCCCCCHHHHHHhcCC
Confidence 4599999999999999999974
No 240
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=97.67 E-value=2.7e-05 Score=83.93 Aligned_cols=62 Identities=21% Similarity=0.374 Sum_probs=44.7
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v 418 (466)
+.++++++.+..-++.|+.++..... ...+.+-+||+||||||||++++.||+++|..+..-
T Consensus 15 P~~~~eLavhkkKv~eV~~wl~~~~~---~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew 76 (519)
T PF03215_consen 15 PKTLDELAVHKKKVEEVRSWLEEMFS---GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEW 76 (519)
T ss_pred CCCHHHhhccHHHHHHHHHHHHHHhc---cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEe
Confidence 34567888888777777665554222 222334688899999999999999999998766553
No 241
>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=97.65 E-value=7.5e-05 Score=70.77 Aligned_cols=72 Identities=22% Similarity=0.398 Sum_probs=45.5
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCC---cchhhcCCCccc------------------------------------chh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGL---DYAMMTGGDVAP------------------------------------LGA 428 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~---~~~~v~~~~l~~------------------------------------~~~ 428 (466)
.++++|||.|+|||++++.+...+.. ..+.+.+..... ...
T Consensus 21 ~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 100 (234)
T PF01637_consen 21 QHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLADELSEALGISIPSITLEKISKDLSE 100 (234)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHHHCCTSTTEEEECTS-G
T ss_pred cEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhhhcccccchhhhhcchh
Confidence 46999999999999999999988821 222222211100 001
Q ss_pred HHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305 429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
.....+..+++.........||+|||++.+.
T Consensus 101 ~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~ 131 (234)
T PF01637_consen 101 DSFSALERLLEKLKKKGKKVIIVIDEFQYLA 131 (234)
T ss_dssp G-G--HHHHHHHHHHCHCCEEEEEETGGGGG
T ss_pred hHHHHHHHHHHHHHhcCCcEEEEEecHHHHh
Confidence 1234456666666655545999999999998
No 242
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=97.65 E-value=1.5e-05 Score=89.63 Aligned_cols=69 Identities=20% Similarity=0.124 Sum_probs=41.6
Q ss_pred cccccCCCCCCchHHHHHHHHhhC-------CcchhhcCCCccc-chhHH--HHHHHHHHhhhhhccCceEEEecccccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSG-------LDYAMMTGGDVAP-LGAQA--VTKIHEIFDWAKKSKKGLLLFIDEADAF 458 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~-------~~~~~v~~~~l~~-~~~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l 458 (466)
||||+|+||||||.+++.++..+. .+++.+.+..... ....+ .....+.+..| .+++|+|||++.|
T Consensus 494 hVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~vgLTa~~~~~d~~tG~~~le~GaLvlA----dgGtL~IDEidkm 569 (915)
T PTZ00111 494 NVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAVVLA----NGGVCCIDELDKC 569 (915)
T ss_pred eEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccccccchhhhcccccCcccccCCcEEEc----CCCeEEecchhhC
Confidence 899999999999999999998763 2333333222111 00000 00111222222 2689999999998
Q ss_pred ccc
Q 012305 459 LCD 461 (466)
Q Consensus 459 ~~~ 461 (466)
..+
T Consensus 570 s~~ 572 (915)
T PTZ00111 570 HNE 572 (915)
T ss_pred CHH
Confidence 754
No 243
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=97.64 E-value=4.9e-05 Score=71.93 Aligned_cols=71 Identities=21% Similarity=0.280 Sum_probs=43.3
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAKK 443 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~~ 443 (466)
+.++|+||+|+||||++-.||..+ +..+..++++..-. ...+....+...++....
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~ 81 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRK 81 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhh
Confidence 468899999999999999998777 56666666544310 000112233444555443
Q ss_pred ccCceEEEeccccccc
Q 012305 444 SKKGLLLFIDEADAFL 459 (466)
Q Consensus 444 ~~~~~iLflDEid~l~ 459 (466)
.+ .++||||-.+...
T Consensus 82 ~~-~D~vlIDT~Gr~~ 96 (196)
T PF00448_consen 82 KG-YDLVLIDTAGRSP 96 (196)
T ss_dssp TT-SSEEEEEE-SSSS
T ss_pred cC-CCEEEEecCCcch
Confidence 23 6899999887654
No 244
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=97.63 E-value=5.1e-05 Score=76.30 Aligned_cols=73 Identities=23% Similarity=0.282 Sum_probs=59.5
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc--------------------c-cchhHHHHHHHHHHhhhhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV--------------------A-PLGAQAVTKIHEIFDWAKK 443 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l--------------------~-~~~~e~~~~l~~lf~~A~~ 443 (466)
-.+||+|.+||||||.+-.||..+ |++++...|+.+ . ..|.+..+.....++.|..
T Consensus 140 ~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~Aka 219 (340)
T COG0552 140 FVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQAAKA 219 (340)
T ss_pred EEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHHHH
Confidence 468999999999999999999988 777776666554 1 2566677778888888887
Q ss_pred ccCceEEEeccccccccc
Q 012305 444 SKKGLLLFIDEADAFLCD 461 (466)
Q Consensus 444 ~~~~~iLflDEid~l~~~ 461 (466)
.+ .++||||-++.|..+
T Consensus 220 r~-~DvvliDTAGRLhnk 236 (340)
T COG0552 220 RG-IDVVLIDTAGRLHNK 236 (340)
T ss_pred cC-CCEEEEeCcccccCc
Confidence 66 899999999999764
No 245
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=97.63 E-value=4.9e-05 Score=68.88 Aligned_cols=23 Identities=39% Similarity=0.650 Sum_probs=21.6
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+.++|+||+|||+++..++..+
T Consensus 7 ki~ITG~PGvGKtTl~~ki~e~L 29 (179)
T COG1618 7 KIFITGRPGVGKTTLVLKIAEKL 29 (179)
T ss_pred EEEEeCCCCccHHHHHHHHHHHH
Confidence 58999999999999999999888
No 246
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=97.62 E-value=0.0001 Score=77.85 Aligned_cols=71 Identities=27% Similarity=0.391 Sum_probs=47.9
Q ss_pred ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-----------------ch----hHHHHHHHHHHhhh
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-----------------LG----AQAVTKIHEIFDWA 441 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-----------------~~----~e~~~~l~~lf~~A 441 (466)
++..++|+|+||+|||+++..||..+ |..+..++++..-+ ++ .+....+...++.+
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~ 173 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF 173 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh
Confidence 45679999999999999999999877 56677776655321 11 11122234444444
Q ss_pred hhccCceEEEeccccccc
Q 012305 442 KKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 442 ~~~~~~~iLflDEid~l~ 459 (466)
.. ..+||||..+.+.
T Consensus 174 ~~---~DvVIIDTAGr~~ 188 (437)
T PRK00771 174 KK---ADVIIVDTAGRHA 188 (437)
T ss_pred hc---CCEEEEECCCccc
Confidence 32 4899999998765
No 247
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=97.61 E-value=5.9e-05 Score=69.73 Aligned_cols=31 Identities=35% Similarity=0.370 Sum_probs=23.6
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTG 420 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~ 420 (466)
+|++||||||||+++..++... |.+++.++.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~ 35 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL 35 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 7899999999999998886654 555555443
No 248
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=97.60 E-value=5.3e-05 Score=81.55 Aligned_cols=64 Identities=13% Similarity=0.129 Sum_probs=45.0
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-CCcchhhcC
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-GLDYAMMTG 420 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-~~~~~~v~~ 420 (466)
..|+|++|.++.+++|-..+......... .-+.++|+||||+|||+|++.|++.+ .++++.+.+
T Consensus 73 ~fF~d~yGlee~ieriv~~l~~Aa~gl~~--~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~kg 137 (644)
T PRK15455 73 PAFEEFYGMEEAIEQIVSYFRHAAQGLEE--KKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLKA 137 (644)
T ss_pred cchhcccCcHHHHHHHHHHHHHHHHhcCC--CCceEEEecCCCCCchHHHHHHHHHHHhCcceeecC
Confidence 35788999999998877654322222111 22468899999999999999999988 345555444
No 249
>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=97.59 E-value=7e-05 Score=74.45 Aligned_cols=53 Identities=21% Similarity=0.231 Sum_probs=31.0
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
...|.+++.+..-..+...++..+-.... ++||+||||||||++++.+-..++
T Consensus 6 ~~~~~~~~VpT~dt~r~~~ll~~l~~~~~------pvLl~G~~GtGKT~li~~~l~~l~ 58 (272)
T PF12775_consen 6 EMPFNEILVPTVDTVRYSYLLDLLLSNGR------PVLLVGPSGTGKTSLIQNFLSSLD 58 (272)
T ss_dssp -------T---HHHHHHHHHHHHHHHCTE------EEEEESSTTSSHHHHHHHHHHCST
T ss_pred ccccceEEeCcHHHHHHHHHHHHHHHcCC------cEEEECCCCCchhHHHHhhhccCC
Confidence 34556666665555566666665544333 399999999999999988776653
No 250
>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=97.59 E-value=8.8e-05 Score=77.28 Aligned_cols=67 Identities=19% Similarity=0.303 Sum_probs=39.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN 462 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r 462 (466)
.|+++.||||||||+++.+|+... +..+|+-+. ....+..+.. .........++|+|||+..+.-++
T Consensus 210 ~Nli~lGp~GTGKThla~~l~~~~----a~~sG~f~T--~a~Lf~~L~~--~~lg~v~~~DlLI~DEvgylp~~~ 276 (449)
T TIGR02688 210 YNLIELGPKGTGKSYIYNNLSPYV----ILISGGTIT--VAKLFYNIST--RQIGLVGRWDVVAFDEVATLKFAK 276 (449)
T ss_pred CcEEEECCCCCCHHHHHHHHhHHH----HHHcCCcCc--HHHHHHHHHH--HHHhhhccCCEEEEEcCCCCcCCc
Confidence 479999999999999999987762 122221110 1111111111 111223347899999999965443
No 251
>PRK00131 aroK shikimate kinase; Reviewed
Probab=97.57 E-value=3.8e-05 Score=69.95 Aligned_cols=31 Identities=29% Similarity=0.519 Sum_probs=27.4
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
..+|+|+||||||||++++.|+..+|.+|+.
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l~~~~~d 34 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRLGYDFID 34 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEE
Confidence 3579999999999999999999999887653
No 252
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=97.57 E-value=3.6e-05 Score=84.66 Aligned_cols=82 Identities=21% Similarity=0.217 Sum_probs=54.7
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc----chhhcCCCccc----
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD----YAMMTGGDVAP---- 425 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~----~~~v~~~~l~~---- 425 (466)
..-+++++|+.++...+...+.. .+|++|+||||||||+++++++..++.. ++.+.-+...+
T Consensus 14 ~~~~~~viG~~~a~~~l~~a~~~----------~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~ 83 (608)
T TIGR00764 14 ERLIDQVIGQEEAVEIIKKAAKQ----------KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRI 83 (608)
T ss_pred hhhHhhccCHHHHHHHHHHHHHc----------CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHH
Confidence 34568899999999888765432 1379999999999999999999999654 22333332222
Q ss_pred ---chhHHHHHHHHHHhhhhhcc
Q 012305 426 ---LGAQAVTKIHEIFDWAKKSK 445 (466)
Q Consensus 426 ---~~~e~~~~l~~lf~~A~~~~ 445 (466)
....+...+...|..|++..
T Consensus 84 ~~v~~~~g~~~~~~~~~~~~~~~ 106 (608)
T TIGR00764 84 VEVPAGEGREIVEDYKKKAFKQP 106 (608)
T ss_pred HHHHHhhchHHHHHHHHHhhccc
Confidence 11223445666777776533
No 253
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.57 E-value=6.5e-05 Score=77.66 Aligned_cols=36 Identities=28% Similarity=0.492 Sum_probs=27.2
Q ss_pred ccccccCCCCCCchHHHHHHHHhh----C-CcchhhcCCCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS----G-LDYAMMTGGDV 423 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l----~-~~~~~v~~~~l 423 (466)
..++|+||||+||||++..|+..+ | ..+..++++.+
T Consensus 138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~ 178 (374)
T PRK14722 138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSY 178 (374)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccc
Confidence 469999999999999999998764 3 34555555443
No 254
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.57 E-value=5.3e-05 Score=71.56 Aligned_cols=72 Identities=25% Similarity=0.302 Sum_probs=40.0
Q ss_pred cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--ch---hHHHHHHHHHHhhhhh--------ccCceEEEe
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--LG---AQAVTKIHEIFDWAKK--------SKKGLLLFI 452 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--~~---~e~~~~l~~lf~~A~~--------~~~~~iLfl 452 (466)
.+++.||||||||++.+.+...+ |..++.+....-.- +. +-....++.++..... ..+..+|||
T Consensus 20 ~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vliV 99 (196)
T PF13604_consen 20 VSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPNGDDEGRPELPKKDVLIV 99 (196)
T ss_dssp EEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECCEECCSSCC-TSTSEEEE
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCcccccccccCCcccEEEE
Confidence 47889999999999999987666 44444443221110 00 0011234444433222 234589999
Q ss_pred cccccccc
Q 012305 453 DEADAFLC 460 (466)
Q Consensus 453 DEid~l~~ 460 (466)
||+..+..
T Consensus 100 DEasmv~~ 107 (196)
T PF13604_consen 100 DEASMVDS 107 (196)
T ss_dssp SSGGG-BH
T ss_pred ecccccCH
Confidence 99988753
No 255
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=97.56 E-value=0.00013 Score=70.68 Aligned_cols=88 Identities=23% Similarity=0.312 Sum_probs=55.6
Q ss_pred CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHH
Q 012305 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIF 438 (466)
Q Consensus 359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf 438 (466)
.+|..|-..+....+...+... .+-.++||+|||||.+++.||..+|..++.++|++-.+. ..+..+|
T Consensus 11 rlv~Tplt~r~~~~l~~al~~~-------~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~-----~~l~ril 78 (231)
T PF12774_consen 11 RLVITPLTDRCFLTLTQALSLN-------LGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDY-----QSLSRIL 78 (231)
T ss_dssp -----HHHHHHHHHHHHHHCTT-------TEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-H-----HHHHHHH
T ss_pred CceechHHHHHHHHHHHHhccC-------CCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccH-----HHHHHHH
Confidence 3555555555555555554321 235679999999999999999999999999999875432 2344455
Q ss_pred hhhhhccCceEEEecccccccc
Q 012305 439 DWAKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 439 ~~A~~~~~~~iLflDEid~l~~ 460 (466)
..+-.. |.-+.+||++.|..
T Consensus 79 ~G~~~~--GaW~cfdefnrl~~ 98 (231)
T PF12774_consen 79 KGLAQS--GAWLCFDEFNRLSE 98 (231)
T ss_dssp HHHHHH--T-EEEEETCCCSSH
T ss_pred HHHhhc--CchhhhhhhhhhhH
Confidence 444332 67899999998753
No 256
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=97.54 E-value=7.4e-05 Score=75.99 Aligned_cols=79 Identities=16% Similarity=0.221 Sum_probs=48.5
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCCc--c-----------hhhc---CCCcccch---h--HHHHHHHHHHhhhhh--
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGLD--Y-----------AMMT---GGDVAPLG---A--QAVTKIHEIFDWAKK-- 443 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~~--~-----------~~v~---~~~l~~~~---~--e~~~~l~~lf~~A~~-- 443 (466)
+..+||+||+|+||+++|+.+|..+-.. . -.+. -+|+.... + -.+..++.+.+.+..
T Consensus 24 ~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~l~~~~~~~~ 103 (325)
T PRK06871 24 HHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVDQVREINEKVSQHA 103 (325)
T ss_pred ceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHHHHHHHHHHHhhcc
Confidence 3469999999999999999999888221 0 0111 12221111 1 124455555554432
Q ss_pred -ccCceEEEeccccccccccCCC
Q 012305 444 -SKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 444 -~~~~~iLflDEid~l~~~r~~~ 465 (466)
.++..|+|||++|.|...-.|+
T Consensus 104 ~~g~~KV~iI~~a~~m~~~AaNa 126 (325)
T PRK06871 104 QQGGNKVVYIQGAERLTEAAANA 126 (325)
T ss_pred ccCCceEEEEechhhhCHHHHHH
Confidence 3446899999999998655443
No 257
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.54 E-value=6.9e-05 Score=77.98 Aligned_cols=70 Identities=21% Similarity=0.260 Sum_probs=45.2
Q ss_pred ccccccCCCCCCchHHHHHHHHhh-------CCcchhhcCCCccc-----------------chhHHHHHHHHHHhhhhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS-------GLDYAMMTGGDVAP-----------------LGAQAVTKIHEIFDWAKK 443 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l-------~~~~~~v~~~~l~~-----------------~~~e~~~~l~~lf~~A~~ 443 (466)
..++|+||+|+||||++..||..+ |..+..++++..-. ........+...+..
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~--- 251 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ--- 251 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH---
Confidence 469999999999999999998765 35666666554210 001112223333322
Q ss_pred ccCceEEEecccccccc
Q 012305 444 SKKGLLLFIDEADAFLC 460 (466)
Q Consensus 444 ~~~~~iLflDEid~l~~ 460 (466)
....++||||+++.+..
T Consensus 252 ~~~~DlVLIDTaGr~~~ 268 (388)
T PRK12723 252 SKDFDLVLVDTIGKSPK 268 (388)
T ss_pred hCCCCEEEEcCCCCCcc
Confidence 34478999999998764
No 258
>PF13479 AAA_24: AAA domain
Probab=97.53 E-value=6e-05 Score=72.13 Aligned_cols=66 Identities=24% Similarity=0.331 Sum_probs=41.9
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch-hhcCC--------CcccchhHHHHHHHHHHhhhh-hccCceEEEecccccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA-MMTGG--------DVAPLGAQAVTKIHEIFDWAK-KSKKGLLLFIDEADAF 458 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~-~v~~~--------~l~~~~~e~~~~l~~lf~~A~-~~~~~~iLflDEid~l 458 (466)
.+|||||||+|||+++..+ +.+++ -+..+ +.......+...+...+.++. ....+.+|+||-++.|
T Consensus 5 ~~lIyG~~G~GKTt~a~~~----~k~l~id~E~g~~~~~~~~~~~~i~i~s~~~~~~~~~~l~~~~~~y~tiVIDsis~~ 80 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL----PKPLFIDTENGSDSLKFLDDGDVIPITSWEDFLEALDELEEDEADYDTIVIDSISWL 80 (213)
T ss_pred EEEEECCCCCCHHHHHHhC----CCeEEEEeCCCccchhhhcCCCeeCcCCHHHHHHHHHHHHhccCCCCEEEEECHHHH
Confidence 5999999999999999888 32221 11112 111122234556667666642 2356899999998876
No 259
>PRK08118 topology modulation protein; Reviewed
Probab=97.50 E-value=5.3e-05 Score=69.74 Aligned_cols=31 Identities=23% Similarity=0.529 Sum_probs=28.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
.|+++||||+||||+|+.|+..++.+++.++
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD 33 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLD 33 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence 5899999999999999999999998876665
No 260
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.50 E-value=0.00023 Score=73.83 Aligned_cols=73 Identities=16% Similarity=0.265 Sum_probs=47.3
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc--c---------------chhHHHHHHHHHHhhhhhccCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA--P---------------LGAQAVTKIHEIFDWAKKSKKG 447 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~--~---------------~~~e~~~~l~~lf~~A~~~~~~ 447 (466)
+.++|+||+|+||||++..||..+ |..+..++++..- . ........+...+..+......
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~ 321 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV 321 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCC
Confidence 679999999999999999998877 5566666654421 0 0011223344444444432236
Q ss_pred eEEEecccccccc
Q 012305 448 LLLFIDEADAFLC 460 (466)
Q Consensus 448 ~iLflDEid~l~~ 460 (466)
++||||..+....
T Consensus 322 DvVLIDTaGRs~k 334 (436)
T PRK11889 322 DYILIDTAGKNYR 334 (436)
T ss_pred CEEEEeCccccCc
Confidence 8999999988653
No 261
>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=97.50 E-value=5.3e-05 Score=74.83 Aligned_cols=97 Identities=16% Similarity=0.230 Sum_probs=55.7
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCccc-------
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAP------- 425 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~------- 425 (466)
..++++++..+...+.+..++....... +++||.||||+|||++.+++...+... ...+...+...
T Consensus 100 ~~sle~l~~~~~~~~~~~~~l~~~v~~~------~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~~~ 173 (270)
T PF00437_consen 100 PFSLEDLGESGSIPEEIAEFLRSAVRGR------GNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPGPN 173 (270)
T ss_dssp --CHCCCCHTHHCHHHHHHHHHHCHHTT------EEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SCSS
T ss_pred cccHhhccCchhhHHHHHHHHhhccccc------eEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecccc
Confidence 3356677665555555555544332222 369999999999999999999888443 22222222111
Q ss_pred ---chh-HHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305 426 ---LGA-QAVTKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 426 ---~~~-e~~~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
+.. ........++..+-+.. +++|+|+||-.
T Consensus 174 ~~~~~~~~~~~~~~~~l~~~LR~~-pD~iiigEiR~ 208 (270)
T PF00437_consen 174 QIQIQTRRDEISYEDLLKSALRQD-PDVIIIGEIRD 208 (270)
T ss_dssp EEEEEEETTTBSHHHHHHHHTTS---SEEEESCE-S
T ss_pred eEEEEeecCcccHHHHHHHHhcCC-CCcccccccCC
Confidence 111 12334556666666555 79999999864
No 262
>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]
Probab=97.49 E-value=0.00011 Score=79.90 Aligned_cols=102 Identities=23% Similarity=0.300 Sum_probs=67.5
Q ss_pred eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcccc-----
Q 012305 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVAPL----- 426 (466)
Q Consensus 362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~~~----- 426 (466)
..+.....|..++...-..... ...+++.|-||||||.+++.+-..+ ..+|+.|||-.+...
T Consensus 400 cRe~E~~~I~~f~~~~i~~~~~---g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~ 476 (767)
T KOG1514|consen 400 CRENEFSEIEDFLRSFISDQGL---GSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYE 476 (767)
T ss_pred chhHHHHHHHHHHHhhcCCCCC---ceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHH
Confidence 3444555555555544333221 1368999999999999999998766 457888888766431
Q ss_pred ------------hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCCC
Q 012305 427 ------------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI 466 (466)
Q Consensus 427 ------------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~l 466 (466)
...+...+..-|......++.+||+|||.|.|....|++|
T Consensus 477 ~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVl 528 (767)
T KOG1514|consen 477 KIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVL 528 (767)
T ss_pred HHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHH
Confidence 1122344556666444456679999999999988776653
No 263
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=97.48 E-value=0.00014 Score=71.44 Aligned_cols=25 Identities=32% Similarity=0.417 Sum_probs=22.6
Q ss_pred cccccCCCCCCchHHHHHHHHhhCC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGL 413 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~ 413 (466)
.++|+||+|||||++++.|++....
T Consensus 18 r~~I~G~~G~GKTTLlr~I~n~l~~ 42 (249)
T cd01128 18 RGLIVAPPKAGKTTLLQSIANAITK 42 (249)
T ss_pred EEEEECCCCCCHHHHHHHHHhcccc
Confidence 5999999999999999999988743
No 264
>PRK13947 shikimate kinase; Provisional
Probab=97.40 E-value=8.1e-05 Score=68.08 Aligned_cols=30 Identities=30% Similarity=0.491 Sum_probs=27.2
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM 418 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v 418 (466)
+|+|.|+||||||++++.||..+|.+|+..
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~ 32 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDT 32 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCEEEC
Confidence 699999999999999999999999887543
No 265
>PRK00625 shikimate kinase; Provisional
Probab=97.40 E-value=8e-05 Score=69.05 Aligned_cols=31 Identities=23% Similarity=0.400 Sum_probs=27.5
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
+|+|+|+||+|||++++.|+..+|++|+.++
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D 32 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD 32 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence 5899999999999999999999998875543
No 266
>PF05729 NACHT: NACHT domain
Probab=97.39 E-value=0.00014 Score=65.31 Aligned_cols=23 Identities=30% Similarity=0.639 Sum_probs=21.1
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
-++|+|+||+|||++++.++..+
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~ 24 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQL 24 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHH
Confidence 48899999999999999998877
No 267
>PHA02624 large T antigen; Provisional
Probab=97.39 E-value=0.00016 Score=78.30 Aligned_cols=35 Identities=29% Similarity=0.338 Sum_probs=30.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~ 422 (466)
+.+|||||||||||+|+.+|.+.+|..++.||++.
T Consensus 432 ~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt 466 (647)
T PHA02624 432 RYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPP 466 (647)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCc
Confidence 47999999999999999999999966666677654
No 268
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=97.39 E-value=0.00013 Score=74.41 Aligned_cols=77 Identities=21% Similarity=0.170 Sum_probs=48.3
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCCcch---hhcC--------------CCcccchh-------------HHHHHHHH
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGLDYA---MMTG--------------GDVAPLGA-------------QAVTKIHE 436 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~---~v~~--------------~~l~~~~~-------------e~~~~l~~ 436 (466)
+..+||+||+|+|||++|+.+|+.+...-- ...| +|+..+.. -.+..++.
T Consensus 21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR~ 100 (325)
T PRK08699 21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVRE 100 (325)
T ss_pred ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHHH
Confidence 346999999999999999999998732100 0011 22211111 13456677
Q ss_pred HHhhhhh---ccCceEEEeccccccccccC
Q 012305 437 IFDWAKK---SKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 437 lf~~A~~---~~~~~iLflDEid~l~~~r~ 463 (466)
+.+.+.. .++..|+|||+++.|.....
T Consensus 101 l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~ 130 (325)
T PRK08699 101 IIDNVYLTSVRGGLRVILIHPAESMNLQAA 130 (325)
T ss_pred HHHHHhhCcccCCceEEEEechhhCCHHHH
Confidence 7666653 23457999999999875443
No 269
>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=97.38 E-value=0.00016 Score=67.61 Aligned_cols=24 Identities=29% Similarity=0.470 Sum_probs=22.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+++|.||+|+|||++.++|+...
T Consensus 26 ~~i~I~G~tGSGKTTll~aL~~~i 49 (186)
T cd01130 26 KNILISGGTGSGKTTLLNALLAFI 49 (186)
T ss_pred CEEEEECCCCCCHHHHHHHHHhhc
Confidence 359999999999999999999877
No 270
>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=97.38 E-value=0.00025 Score=67.12 Aligned_cols=35 Identities=29% Similarity=0.500 Sum_probs=27.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~ 422 (466)
.-++|+||||||||+++..++... |..++.+++..
T Consensus 13 ~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 13 TITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 458899999999999999987654 55677777654
No 271
>PRK03839 putative kinase; Provisional
Probab=97.38 E-value=8.8e-05 Score=68.67 Aligned_cols=30 Identities=37% Similarity=0.648 Sum_probs=26.8
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM 418 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v 418 (466)
.|+|.|+||+||||+++.|++.++.+|+.+
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~ 31 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDL 31 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence 388999999999999999999999887654
No 272
>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=97.37 E-value=7.1e-05 Score=66.04 Aligned_cols=25 Identities=36% Similarity=0.876 Sum_probs=22.6
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLD 414 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~ 414 (466)
|+|+||||||||++++.++..++..
T Consensus 2 ii~~G~pgsGKSt~a~~l~~~~~~~ 26 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRLAKRLGAV 26 (143)
T ss_dssp EEEEESTTSSHHHHHHHHHHHSTEE
T ss_pred EEEECCCCCCHHHHHHHHHHHCCCE
Confidence 7899999999999999999988743
No 273
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=97.37 E-value=9.8e-05 Score=66.08 Aligned_cols=31 Identities=45% Similarity=0.862 Sum_probs=28.2
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
|+|++|-||||||+++..||..+|..|+.++
T Consensus 9 NILvtGTPG~GKstl~~~lae~~~~~~i~is 39 (176)
T KOG3347|consen 9 NILVTGTPGTGKSTLAERLAEKTGLEYIEIS 39 (176)
T ss_pred CEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence 8999999999999999999999998876653
No 274
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=97.36 E-value=0.00013 Score=74.72 Aligned_cols=26 Identities=27% Similarity=0.346 Sum_probs=23.3
Q ss_pred ccccccccCCCCCCchHHHHHHHHhh
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+..+||+||+|+||+++|+.+|..+
T Consensus 20 l~ha~Lf~Gp~G~GK~~lA~~~A~~L 45 (342)
T PRK06964 20 LPHALLLHGQAGIGKLDFAQHLAQGL 45 (342)
T ss_pred cceEEEEECCCCCCHHHHHHHHHHHH
Confidence 33579999999999999999999888
No 275
>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=97.34 E-value=0.00044 Score=68.73 Aligned_cols=37 Identities=30% Similarity=0.423 Sum_probs=29.3
Q ss_pred ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD 422 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~ 422 (466)
+++.++|+||||+|||+++..||..+ |..+..++++.
T Consensus 71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~ 110 (272)
T TIGR00064 71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDT 110 (272)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCC
Confidence 34678899999999999999998777 66666666553
No 276
>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=97.34 E-value=0.0004 Score=73.04 Aligned_cols=74 Identities=19% Similarity=0.252 Sum_probs=48.7
Q ss_pred ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-----------------ch----hHHHHHHHHHHhhh
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-----------------LG----AQAVTKIHEIFDWA 441 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-----------------~~----~e~~~~l~~lf~~A 441 (466)
++..++|+||+|+||||++..||..+ |..++.++++..-+ +. .+........+..+
T Consensus 99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~ 178 (429)
T TIGR01425 99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKF 178 (429)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHH
Confidence 34678999999999999999999877 67777777754311 10 11112223344444
Q ss_pred hhccCceEEEecccccccc
Q 012305 442 KKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 442 ~~~~~~~iLflDEid~l~~ 460 (466)
+..+ +++||||-.+.+..
T Consensus 179 ~~~~-~DvViIDTaGr~~~ 196 (429)
T TIGR01425 179 KKEN-FDIIIVDTSGRHKQ 196 (429)
T ss_pred HhCC-CCEEEEECCCCCcc
Confidence 4333 78999999887643
No 277
>PRK04132 replication factor C small subunit; Provisional
Probab=97.34 E-value=0.00011 Score=83.05 Aligned_cols=75 Identities=25% Similarity=0.289 Sum_probs=52.3
Q ss_pred ccccccccC--CCCCCchHHHHHHHHhh-----CCcchhhcCCCcccchhHHHHHHHHHHhhhhhc-----cCceEEEec
Q 012305 386 PFRNMLFYG--PPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKS-----KKGLLLFID 453 (466)
Q Consensus 386 p~~~vLl~G--ppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~-----~~~~iLflD 453 (466)
|.-+-++.| |++.||||+|++||+.+ +.+|+.+|+++.. +. ..++.++..+... .++.|+|||
T Consensus 563 ~~~~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~r--gi---d~IR~iIk~~a~~~~~~~~~~KVvIID 637 (846)
T PRK04132 563 PGYHNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDER--GI---NVIREKVKEFARTKPIGGASFKIIFLD 637 (846)
T ss_pred CchhhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcc--cH---HHHHHHHHHHHhcCCcCCCCCEEEEEE
Confidence 333567779 99999999999999998 5579999998742 22 2344444332211 124799999
Q ss_pred cccccccccCCC
Q 012305 454 EADAFLCDNQDF 465 (466)
Q Consensus 454 Eid~l~~~r~~~ 465 (466)
|+|.|....++.
T Consensus 638 EaD~Lt~~AQnA 649 (846)
T PRK04132 638 EADALTQDAQQA 649 (846)
T ss_pred CcccCCHHHHHH
Confidence 999998766553
No 278
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=97.34 E-value=5e-05 Score=69.72 Aligned_cols=47 Identities=26% Similarity=0.409 Sum_probs=27.9
Q ss_pred eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
+||.++..+.+...+. ... ....++++|+||||||||++.+.+...+
T Consensus 2 fvgR~~e~~~l~~~l~-~~~----~~~~~~~ll~G~~G~GKT~ll~~~~~~~ 48 (185)
T PF13191_consen 2 FVGREEEIERLRDLLD-AAQ----SGSPRNLLLTGESGSGKTSLLRALLDRL 48 (185)
T ss_dssp -TT-HHHHHHHHHTTG-GTS----S-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHH-HHH----cCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 4666766666666543 111 2223689999999999999999887766
No 279
>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=97.33 E-value=0.00011 Score=65.67 Aligned_cols=29 Identities=38% Similarity=0.614 Sum_probs=25.9
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
+|+|+||||+|||++++.|+..+|.+++.
T Consensus 1 ~i~l~G~~GsGKstla~~la~~l~~~~~~ 29 (154)
T cd00464 1 NIVLIGMMGAGKTTVGRLLAKALGLPFVD 29 (154)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHhCCCEEE
Confidence 48999999999999999999999887653
No 280
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=97.33 E-value=0.0003 Score=63.40 Aligned_cols=32 Identities=28% Similarity=0.536 Sum_probs=26.4
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG 421 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~ 421 (466)
++|+|+||+|||++++.|+..+ +.+++.+++.
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d 36 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGD 36 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCH
Confidence 6899999999999999999988 5555555543
No 281
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=97.32 E-value=0.00017 Score=73.87 Aligned_cols=79 Identities=14% Similarity=0.129 Sum_probs=48.8
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCC--cc--------------hhhcCCCcccc---hh---HHHHHHHHHHhhhhh-
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGL--DY--------------AMMTGGDVAPL---GA---QAVTKIHEIFDWAKK- 443 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~--~~--------------~~v~~~~l~~~---~~---e~~~~l~~lf~~A~~- 443 (466)
+..+||+||+|+||+++|..+|..+-. +- ..-+-+|+... +. -++..++.+.+.+..
T Consensus 24 ~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~ 103 (334)
T PRK07993 24 HHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYEH 103 (334)
T ss_pred ceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhhc
Confidence 346999999999999999999988821 00 00111222111 11 124455555554432
Q ss_pred --ccCceEEEeccccccccccCCC
Q 012305 444 --SKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 444 --~~~~~iLflDEid~l~~~r~~~ 465 (466)
.+.+.|+|||++|.|...-.|.
T Consensus 104 ~~~g~~kV~iI~~ae~m~~~AaNa 127 (334)
T PRK07993 104 ARLGGAKVVWLPDAALLTDAAANA 127 (334)
T ss_pred cccCCceEEEEcchHhhCHHHHHH
Confidence 3446899999999998655443
No 282
>PRK14532 adenylate kinase; Provisional
Probab=97.30 E-value=0.00012 Score=68.28 Aligned_cols=28 Identities=29% Similarity=0.707 Sum_probs=25.1
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
+++|+|||||||||+++.|+..+|..++
T Consensus 2 ~i~~~G~pGsGKsT~a~~la~~~g~~~i 29 (188)
T PRK14532 2 NLILFGPPAAGKGTQAKRLVEERGMVQL 29 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCeEE
Confidence 4899999999999999999999987654
No 283
>PRK13949 shikimate kinase; Provisional
Probab=97.30 E-value=0.00013 Score=67.29 Aligned_cols=32 Identities=28% Similarity=0.566 Sum_probs=27.9
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
++|+|+||||+|||++++.||..++.+|+.++
T Consensus 2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D 33 (169)
T PRK13949 2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLD 33 (169)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence 36999999999999999999999988766544
No 284
>PRK04296 thymidine kinase; Provisional
Probab=97.29 E-value=0.00025 Score=66.66 Aligned_cols=69 Identities=26% Similarity=0.392 Sum_probs=40.3
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhcCC-C-------cc-cchh--HH--HHHHHHHHhhhhh-ccCceEEEe
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG-D-------VA-PLGA--QA--VTKIHEIFDWAKK-SKKGLLLFI 452 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~-~-------l~-~~~~--e~--~~~l~~lf~~A~~-~~~~~iLfl 452 (466)
.|++||||+|||+++..++..+ |..++.+... + +. .++. .. ......++..+.. .+...+|+|
T Consensus 5 ~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~dvviI 84 (190)
T PRK04296 5 EFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEEEGEKIDCVLI 84 (190)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHhhCCCCCEEEE
Confidence 6889999999999988887665 5555555331 1 00 0111 00 1122333433321 234689999
Q ss_pred cccccc
Q 012305 453 DEADAF 458 (466)
Q Consensus 453 DEid~l 458 (466)
||+..|
T Consensus 85 DEaq~l 90 (190)
T PRK04296 85 DEAQFL 90 (190)
T ss_pred EccccC
Confidence 999765
No 285
>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=97.29 E-value=0.0002 Score=61.23 Aligned_cols=23 Identities=30% Similarity=0.436 Sum_probs=19.9
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
+++++||||+|||+++-.++..+
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~ 24 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILEL 24 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHH
Confidence 68999999999999888776655
No 286
>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=97.29 E-value=0.00022 Score=70.55 Aligned_cols=92 Identities=20% Similarity=0.322 Sum_probs=71.1
Q ss_pred ccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcc
Q 012305 347 TAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVA 424 (466)
Q Consensus 347 ~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~ 424 (466)
+.....+.+.-+.+||+-.+.+...-++..+...+-.+ +.+|+.|+||||||.+|-.++..+| .||..+.|+.+.
T Consensus 29 ldd~le~~~~s~GmVGQ~~AR~Aagvi~kmi~egkiaG---raiLiaG~pgtGKtAiAmg~sksLG~~tpF~~i~gSEI~ 105 (454)
T KOG2680|consen 29 LDDVLEPRYVSEGMVGQVKARKAAGVILKMIREGKIAG---RAILIAGQPGTGKTAIAMGMSKSLGDDTPFTSISGSEIY 105 (454)
T ss_pred CCcccCcccccccchhhHHHHHHhHHHHHHHHcCcccc---eEEEEecCCCCCceeeeeehhhhhCCCCceeeeecceee
Confidence 33445566666889999888888777776666655333 4599999999999999999999996 589999999998
Q ss_pred cchhHHHHHHHHHHhhh
Q 012305 425 PLGAQAVTKIHEIFDWA 441 (466)
Q Consensus 425 ~~~~e~~~~l~~lf~~A 441 (466)
.+....-..+.+.|..+
T Consensus 106 SlEmsKTEAltQAfRks 122 (454)
T KOG2680|consen 106 SLEMSKTEALTQAFRKS 122 (454)
T ss_pred eecccHHHHHHHHHHHh
Confidence 77766666677777643
No 287
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=97.28 E-value=0.00027 Score=67.69 Aligned_cols=72 Identities=25% Similarity=0.350 Sum_probs=44.9
Q ss_pred cccccccCCCCCCchHHHHHHHHhh--C------Ccchhhc------CCCcc--cch-------hHHHHHHHHHHhhhhh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS--G------LDYAMMT------GGDVA--PLG-------AQAVTKIHEIFDWAKK 443 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l--~------~~~~~v~------~~~l~--~~~-------~e~~~~l~~lf~~A~~ 443 (466)
+.|.||.|||||||||+.+-||+.+ | ..++.++ +.+.+ ..+ .+...+-.+++...+.
T Consensus 137 ~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~~gmmmaIrs 216 (308)
T COG3854 137 WLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMMAIRS 216 (308)
T ss_pred ceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHHHHHHHHHHh
Confidence 3479999999999999999998877 2 2333333 11111 011 1112233455555665
Q ss_pred ccCceEEEeccccccc
Q 012305 444 SKKGLLLFIDEADAFL 459 (466)
Q Consensus 444 ~~~~~iLflDEid~l~ 459 (466)
.. +.|+++|||+...
T Consensus 217 m~-PEViIvDEIGt~~ 231 (308)
T COG3854 217 MS-PEVIIVDEIGTEE 231 (308)
T ss_pred cC-CcEEEEeccccHH
Confidence 55 7899999998753
No 288
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=97.27 E-value=0.00022 Score=72.36 Aligned_cols=77 Identities=21% Similarity=0.272 Sum_probs=48.2
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCc---------ch-hhcC---CCcccc------hh------HHHHHHHHHHhhhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLD---------YA-MMTG---GDVAPL------GA------QAVTKIHEIFDWAK 442 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~---------~~-~v~~---~~l~~~------~~------e~~~~l~~lf~~A~ 442 (466)
..+||+||+|+||+++|..+|..+-.. .+ .+.. +|+-.+ .+ -.+..++.+.+.+.
T Consensus 27 HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~~ 106 (319)
T PRK08769 27 HGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLA 106 (319)
T ss_pred eeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHHh
Confidence 459999999999999999999887211 11 1211 222111 00 12455666666554
Q ss_pred h---ccCceEEEeccccccccccCC
Q 012305 443 K---SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 443 ~---~~~~~iLflDEid~l~~~r~~ 464 (466)
. .+.+.|+|||++|.|...-.|
T Consensus 107 ~~p~~g~~kV~iI~~ae~m~~~AaN 131 (319)
T PRK08769 107 LTPQYGIAQVVIVDPADAINRAACN 131 (319)
T ss_pred hCcccCCcEEEEeccHhhhCHHHHH
Confidence 3 233589999999999765544
No 289
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=97.27 E-value=0.00015 Score=66.90 Aligned_cols=33 Identities=18% Similarity=0.291 Sum_probs=27.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG 420 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~ 420 (466)
+.++|.|+||+|||++++.|+..++.+++.++.
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~~ 35 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSVLAEPWLHFGV 35 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHhhCCCccccCc
Confidence 358899999999999999999998776655443
No 290
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=97.26 E-value=0.0006 Score=69.32 Aligned_cols=72 Identities=25% Similarity=0.276 Sum_probs=44.8
Q ss_pred cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAK 442 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~ 442 (466)
+..++|+||||+||||++..||..+ |..+..++++.... .+..........+..+.
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~ 193 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAAK 193 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHHH
Confidence 3568899999999999999998877 55666555543210 00011112223333333
Q ss_pred hccCceEEEeccccccc
Q 012305 443 KSKKGLLLFIDEADAFL 459 (466)
Q Consensus 443 ~~~~~~iLflDEid~l~ 459 (466)
. ..+++||||-.+.+.
T Consensus 194 ~-~~~D~ViIDTaGr~~ 209 (318)
T PRK10416 194 A-RGIDVLIIDTAGRLH 209 (318)
T ss_pred h-CCCCEEEEeCCCCCc
Confidence 3 337899999988765
No 291
>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=97.25 E-value=0.00028 Score=66.74 Aligned_cols=24 Identities=25% Similarity=0.418 Sum_probs=21.4
Q ss_pred cccccCCCCCCchHHHHHHHHhhC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
.++|+||||+||||++.++...+.
T Consensus 3 lilI~GptGSGKTTll~~ll~~~~ 26 (198)
T cd01131 3 LVLVTGPTGSGKSTTLAAMIDYIN 26 (198)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhh
Confidence 488999999999999999988774
No 292
>PRK10867 signal recognition particle protein; Provisional
Probab=97.25 E-value=0.00057 Score=72.12 Aligned_cols=73 Identities=21% Similarity=0.291 Sum_probs=48.2
Q ss_pred ccccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCccc-----------------c----hhHHHHHHHHHHhh
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAP-----------------L----GAQAVTKIHEIFDW 440 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~-----------------~----~~e~~~~l~~lf~~ 440 (466)
++..++|+||||+||||++..||..+ |..++.++|+..-+ + +.+........+.+
T Consensus 99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~ 178 (433)
T PRK10867 99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEE 178 (433)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHH
Confidence 45678999999999999888888765 56677777764321 0 01112223345555
Q ss_pred hhhccCceEEEeccccccc
Q 012305 441 AKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 441 A~~~~~~~iLflDEid~l~ 459 (466)
+.... +++||||-.+.+.
T Consensus 179 a~~~~-~DvVIIDTaGrl~ 196 (433)
T PRK10867 179 AKENG-YDVVIVDTAGRLH 196 (433)
T ss_pred HHhcC-CCEEEEeCCCCcc
Confidence 55433 7899999998764
No 293
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=97.25 E-value=0.00015 Score=66.54 Aligned_cols=30 Identities=27% Similarity=0.463 Sum_probs=27.1
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
.++++|.||||||++++.|. .+|++++.++
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~-~lg~~~i~l~ 31 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR-ELGYKVIELN 31 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH-HhCCceeeHH
Confidence 47899999999999999999 9998887776
No 294
>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=97.25 E-value=0.00015 Score=67.09 Aligned_cols=26 Identities=27% Similarity=0.526 Sum_probs=23.3
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
|+|+||||+||||+|+.|+..+|..+
T Consensus 2 i~i~G~pGsGKst~a~~la~~~~~~~ 27 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVENFGFTH 27 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeE
Confidence 68999999999999999999997543
No 295
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=97.24 E-value=0.00017 Score=65.54 Aligned_cols=28 Identities=46% Similarity=0.714 Sum_probs=25.1
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
+-+.|||||||||+++.||.++|++++.
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~gl~~vs 30 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHLGLKLVS 30 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHhCCceee
Confidence 5678999999999999999999988654
No 296
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=97.23 E-value=0.00026 Score=71.99 Aligned_cols=69 Identities=14% Similarity=0.231 Sum_probs=42.5
Q ss_pred ccccccCCCCCCchHHHHHHHHhh-----CCcchhh------cC--CCcccchhHHHHHHHHHHhhhhhccCceEEEecc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS-----GLDYAMM------TG--GDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDE 454 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v------~~--~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDE 454 (466)
.+++++|+||+|||+++++|+... +..++.+ .+ .....+.....-.+..++..+-+.+ ++.||+.|
T Consensus 149 ~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v~~~~~~~~~~~~ll~~aLR~~-PD~IivGE 227 (319)
T PRK13894 149 RNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQYHTSIDVNMTALLKTTLRMR-PDRILVGE 227 (319)
T ss_pred CeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEEEEecCCCCCHHHHHHHHhcCC-CCEEEEec
Confidence 469999999999999999998763 1112211 11 0111111111223566777777666 78999999
Q ss_pred ccc
Q 012305 455 ADA 457 (466)
Q Consensus 455 id~ 457 (466)
|-.
T Consensus 228 iR~ 230 (319)
T PRK13894 228 VRG 230 (319)
T ss_pred cCC
Confidence 853
No 297
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=97.22 E-value=0.00023 Score=72.37 Aligned_cols=66 Identities=17% Similarity=0.268 Sum_probs=41.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhhC-----CcchhhcCCCcc----------cchhHHHHHHHHHHhhhhhccCceEEEe
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMTGGDVA----------PLGAQAVTKIHEIFDWAKKSKKGLLLFI 452 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~~~~l~----------~~~~e~~~~l~~lf~~A~~~~~~~iLfl 452 (466)
.|+|++|+||+|||++.++|..... ..++.+ .+.. .+.....-....++..+-+.+ ++.||+
T Consensus 145 ~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivti--Ed~~El~~~~~n~v~l~~~~~~~~~~lv~~aLR~~-PD~Iiv 221 (323)
T PRK13833 145 LNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVIL--EDTAEIQCAAENAVALHTSDTVDMARLLKSTMRLR-PDRIIV 221 (323)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEe--cCCcccccCCCCEEEeccCCCcCHHHHHHHHhCCC-CCEEEE
Confidence 3699999999999999999988752 222221 1111 011111223566666666555 789999
Q ss_pred cccc
Q 012305 453 DEAD 456 (466)
Q Consensus 453 DEid 456 (466)
.||-
T Consensus 222 GEiR 225 (323)
T PRK13833 222 GEVR 225 (323)
T ss_pred eecC
Confidence 9883
No 298
>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=97.21 E-value=0.0005 Score=63.12 Aligned_cols=34 Identities=26% Similarity=0.382 Sum_probs=27.3
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV 423 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l 423 (466)
++|+||||+|||+++..++..+ |..++.++++..
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~ 39 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTY 39 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Confidence 6889999999999999998776 566666666543
No 299
>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=97.21 E-value=0.00091 Score=66.34 Aligned_cols=92 Identities=13% Similarity=0.188 Sum_probs=61.2
Q ss_pred CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHH
Q 012305 358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEI 437 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~l 437 (466)
.++|.-+++.+.|..+.+.+..+. .|+||.|.+||||+++++..+...++.++.+.... .+...+-...++.+
T Consensus 8 m~lVlf~~ai~hi~ri~RvL~~~~------Gh~LLvG~~GsGr~sl~rLaa~i~~~~~~~i~~~~-~y~~~~f~~dLk~~ 80 (268)
T PF12780_consen 8 MNLVLFDEAIEHIARISRVLSQPR------GHALLVGVGGSGRQSLARLAAFICGYEVFQIEITK-GYSIKDFKEDLKKA 80 (268)
T ss_dssp ------HHHHHHHHHHHHHHCSTT------EEEEEECTTTSCHHHHHHHHHHHTTEEEE-TTTST-TTHHHHHHHHHHHH
T ss_pred cceeeHHHHHHHHHHHHHHHcCCC------CCeEEecCCCccHHHHHHHHHHHhccceEEEEeeC-CcCHHHHHHHHHHH
Confidence 568888999999998877775544 46999999999999999988888898888777543 12222223567777
Q ss_pred HhhhhhccCceEEEecccc
Q 012305 438 FDWAKKSKKGLLLFIDEAD 456 (466)
Q Consensus 438 f~~A~~~~~~~iLflDEid 456 (466)
+..+--.+.+.+++|+|-+
T Consensus 81 ~~~ag~~~~~~vfll~d~q 99 (268)
T PF12780_consen 81 LQKAGIKGKPTVFLLTDSQ 99 (268)
T ss_dssp HHHHHCS-S-EEEEEECCC
T ss_pred HHHHhccCCCeEEEecCcc
Confidence 7766655557788887643
No 300
>PRK07261 topology modulation protein; Provisional
Probab=97.20 E-value=0.00019 Score=66.31 Aligned_cols=31 Identities=19% Similarity=0.396 Sum_probs=27.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
.++|+|+||+||||+|+.|+..++.+++.++
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D 32 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLD 32 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCeEecC
Confidence 3889999999999999999999988766554
No 301
>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=97.20 E-value=0.00023 Score=71.78 Aligned_cols=69 Identities=16% Similarity=0.290 Sum_probs=43.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhhC-----Ccchhhc--------CCCcccch-hHHHHHHHHHHhhhhhccCceEEEec
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMT--------GGDVAPLG-AQAVTKIHEIFDWAKKSKKGLLLFID 453 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~--------~~~l~~~~-~e~~~~l~~lf~~A~~~~~~~iLflD 453 (466)
+++|++||+|+|||+++++|..... ..++.+- +.....+. ......+..++..+-+.+ ++.|++.
T Consensus 133 ~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~~~~~~~~~~~~l~~aLR~~-pD~iivG 211 (299)
T TIGR02782 133 KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLRTSDDAISMTRLLKATLRLR-PDRIIVG 211 (299)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEEecCCCCCHHHHHHHHhcCC-CCEEEEe
Confidence 4699999999999999999998862 2221111 11111110 011124566777766666 7899999
Q ss_pred cccc
Q 012305 454 EADA 457 (466)
Q Consensus 454 Eid~ 457 (466)
||-.
T Consensus 212 EiR~ 215 (299)
T TIGR02782 212 EVRG 215 (299)
T ss_pred ccCC
Confidence 9853
No 302
>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=97.19 E-value=0.00074 Score=70.54 Aligned_cols=104 Identities=17% Similarity=0.214 Sum_probs=65.0
Q ss_pred CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC-----CcchhhcCCCcccch-----
Q 012305 358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMTGGDVAPLG----- 427 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~~~~l~~~~----- 427 (466)
+.++|...-+..+..+....-..+ ..+++++.|-||||||.+...+-..++ ...+++||..+..-.
T Consensus 150 ~~l~gRe~e~~~v~~F~~~hle~~----t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k 225 (529)
T KOG2227|consen 150 GTLKGRELEMDIVREFFSLHLELN----TSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK 225 (529)
T ss_pred CCccchHHHHHHHHHHHHhhhhcc----cCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence 567788777777776654433322 225799999999999998887755552 234778887653210
Q ss_pred -----------hHH-HHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305 428 -----------AQA-VTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 428 -----------~e~-~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~ 465 (466)
... ...+..+-..........||++||+|.|....+..
T Consensus 226 I~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~v 275 (529)
T KOG2227|consen 226 IFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTV 275 (529)
T ss_pred HHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccce
Confidence 000 11123333334444557899999999998655543
No 303
>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=97.19 E-value=0.00031 Score=68.61 Aligned_cols=34 Identities=26% Similarity=0.583 Sum_probs=27.0
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV 423 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l 423 (466)
|+|+|+||+|||++|+.|+..+ +.+++.++.+.+
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D~l 38 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLI 38 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccHHH
Confidence 7899999999999999999987 456666554333
No 304
>PRK14531 adenylate kinase; Provisional
Probab=97.18 E-value=0.0002 Score=66.66 Aligned_cols=28 Identities=39% Similarity=0.725 Sum_probs=25.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
.++|+||||+|||++++.|+..+|.+++
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~g~~~i 31 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAHGLRHL 31 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeE
Confidence 5999999999999999999999986543
No 305
>PRK13948 shikimate kinase; Provisional
Probab=97.18 E-value=0.00022 Score=66.71 Aligned_cols=34 Identities=26% Similarity=0.359 Sum_probs=29.9
Q ss_pred ccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
++.+|+|.|++|||||++++.|+..+|.+|+..+
T Consensus 9 ~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D 42 (182)
T PRK13948 9 PVTWVALAGFMGTGKSRIGWELSRALMLHFIDTD 42 (182)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence 4578999999999999999999999998877543
No 306
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.18 E-value=0.00069 Score=70.02 Aligned_cols=74 Identities=15% Similarity=0.176 Sum_probs=47.7
Q ss_pred ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-----------------chhHHHHHHHHHHhhhhhcc
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-----------------LGAQAVTKIHEIFDWAKKSK 445 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-----------------~~~e~~~~l~~lf~~A~~~~ 445 (466)
+.+.++|+||+|+|||+++..||..+ |..+..++++..-. ........+...+..+....
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~ 284 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVN 284 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcC
Confidence 34678999999999999999998766 56666666554311 11112233444444443223
Q ss_pred CceEEEeccccccc
Q 012305 446 KGLLLFIDEADAFL 459 (466)
Q Consensus 446 ~~~iLflDEid~l~ 459 (466)
..++||||-++...
T Consensus 285 ~~D~VLIDTAGr~~ 298 (407)
T PRK12726 285 CVDHILIDTVGRNY 298 (407)
T ss_pred CCCEEEEECCCCCc
Confidence 36899999988754
No 307
>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]
Probab=97.17 E-value=0.00019 Score=74.18 Aligned_cols=50 Identities=22% Similarity=0.173 Sum_probs=38.8
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
...|.-+||++.++..|.-. . -.....++||-|+.|||||+++|+|+.-|
T Consensus 13 ~~pf~aivGqd~lk~aL~l~--a------v~P~iggvLI~G~kGtaKSt~~Rala~LL 62 (423)
T COG1239 13 NLPFTAIVGQDPLKLALGLN--A------VDPQIGGALIAGEKGTAKSTLARALADLL 62 (423)
T ss_pred ccchhhhcCchHHHHHHhhh--h------cccccceeEEecCCCccHHHHHHHHHHhC
Confidence 34567789999998887522 1 12233589999999999999999999988
No 308
>PRK06762 hypothetical protein; Provisional
Probab=97.17 E-value=0.00013 Score=66.39 Aligned_cols=33 Identities=21% Similarity=0.476 Sum_probs=26.5
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG 420 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~ 420 (466)
.-++|+|+|||||||+|+.|+..++..++.++.
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~~ 35 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERLGRGTLLVSQ 35 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCCCeEEecH
Confidence 358899999999999999999998655544443
No 309
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=97.17 E-value=0.00046 Score=71.46 Aligned_cols=24 Identities=33% Similarity=0.511 Sum_probs=21.5
Q ss_pred cccccCCCCCCchHHHHHHHHhhC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
..||+||||||||+|++.|++...
T Consensus 171 R~lIvgppGvGKTTLaK~Ian~I~ 194 (416)
T PRK09376 171 RGLIVAPPKAGKTVLLQNIANSIT 194 (416)
T ss_pred eEEEeCCCCCChhHHHHHHHHHHH
Confidence 489999999999999999988763
No 310
>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=97.16 E-value=0.00023 Score=62.96 Aligned_cols=30 Identities=40% Similarity=0.659 Sum_probs=27.1
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
++|.|+||||||++|+.|+..+|.+++...
T Consensus 2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~ 31 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG 31 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence 678999999999999999999999887665
No 311
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=97.15 E-value=0.00038 Score=70.47 Aligned_cols=56 Identities=20% Similarity=0.361 Sum_probs=40.3
Q ss_pred cchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 364 PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 364 ~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
++..+.+..++..+-.......|..+|+|+|+||||||++++.|+..+|.+|+.+.
T Consensus 110 ~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D 165 (309)
T PRK08154 110 PAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN 165 (309)
T ss_pred HHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence 44445555555544333333455578999999999999999999999999877543
No 312
>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=97.14 E-value=0.00022 Score=66.40 Aligned_cols=28 Identities=43% Similarity=0.769 Sum_probs=24.7
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
.|+|+||||+|||++++.|+..+|..++
T Consensus 1 ~I~i~G~pGsGKst~a~~La~~~~~~~i 28 (194)
T cd01428 1 RILLLGPPGSGKGTQAERLAKKYGLPHI 28 (194)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCeEE
Confidence 3899999999999999999999876654
No 313
>PRK14530 adenylate kinase; Provisional
Probab=97.14 E-value=0.00022 Score=68.09 Aligned_cols=28 Identities=29% Similarity=0.618 Sum_probs=25.8
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
+|+|.||||+||||+++.|+..+|.+++
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i 32 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAEEFGVEHV 32 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence 5899999999999999999999987765
No 314
>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=97.13 E-value=0.00023 Score=64.59 Aligned_cols=32 Identities=28% Similarity=0.702 Sum_probs=25.8
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 423 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l 423 (466)
++|+||||||||++++.|+..++..+ ++++++
T Consensus 1 i~l~G~~GsGKSTla~~l~~~l~~~~--v~~D~~ 32 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHRLGAKF--IEGDDL 32 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHhcCCeE--EeCccc
Confidence 57899999999999999999998654 344443
No 315
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.13 E-value=0.00058 Score=72.13 Aligned_cols=35 Identities=26% Similarity=0.359 Sum_probs=27.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~ 422 (466)
+.++|+||+|+||||++..||..+ +..+..++++.
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~ 261 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT 261 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence 468999999999999998887654 45677777665
No 316
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.12 E-value=0.00091 Score=70.01 Aligned_cols=71 Identities=24% Similarity=0.335 Sum_probs=45.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCccc--------------chhHHHHHHHHHHhhhhhccCceE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAP--------------LGAQAVTKIHEIFDWAKKSKKGLL 449 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~--------------~~~e~~~~l~~lf~~A~~~~~~~i 449 (466)
..++|+||+|+||||++..||..+ |..+..++++.... +.......+..+.+.+.. ...++
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~-~~~D~ 302 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLAR-DGSEL 302 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHh-CCCCE
Confidence 358899999999999999998654 55666666654211 001112224455555543 33789
Q ss_pred EEeccccccc
Q 012305 450 LFIDEADAFL 459 (466)
Q Consensus 450 LflDEid~l~ 459 (466)
||||-.+...
T Consensus 303 VLIDTaGr~~ 312 (432)
T PRK12724 303 ILIDTAGYSH 312 (432)
T ss_pred EEEeCCCCCc
Confidence 9999776554
No 317
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=97.12 E-value=0.00044 Score=70.24 Aligned_cols=80 Identities=19% Similarity=0.189 Sum_probs=48.7
Q ss_pred cccccccccCCCCCCchHHHHHHHHhhCC-cc-----------hhhc---CCCcccch-----h-HHHHHHHHHHhhhhh
Q 012305 385 APFRNMLFYGPPGTGKTMVAREIARKSGL-DY-----------AMMT---GGDVAPLG-----A-QAVTKIHEIFDWAKK 443 (466)
Q Consensus 385 ~p~~~vLl~GppGTGKT~lA~alA~~l~~-~~-----------~~v~---~~~l~~~~-----~-e~~~~l~~lf~~A~~ 443 (466)
..+..+||+||.|+||+++|..+|..+-. .. -.+. -+|+-... . -.+..++.+.+.+..
T Consensus 23 rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~~~~~~ 102 (319)
T PRK06090 23 RIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCNRLAQE 102 (319)
T ss_pred CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHHHHHhh
Confidence 33457999999999999999999988721 10 0111 12221111 0 123455555554432
Q ss_pred ---ccCceEEEeccccccccccCC
Q 012305 444 ---SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 444 ---~~~~~iLflDEid~l~~~r~~ 464 (466)
.+.+.|++||++|.|...-.|
T Consensus 103 ~~~~~~~kV~iI~~ae~m~~~AaN 126 (319)
T PRK06090 103 SSQLNGYRLFVIEPADAMNESASN 126 (319)
T ss_pred CcccCCceEEEecchhhhCHHHHH
Confidence 234689999999999865544
No 318
>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=97.12 E-value=0.00036 Score=71.68 Aligned_cols=25 Identities=24% Similarity=0.403 Sum_probs=22.2
Q ss_pred ccccccCCCCCCchHHHHHHHHhhC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
..+||+||||+||||+.+++...+.
T Consensus 123 g~ili~G~tGSGKTT~l~al~~~i~ 147 (343)
T TIGR01420 123 GLILVTGPTGSGKSTTLASMIDYIN 147 (343)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhhC
Confidence 4699999999999999999988764
No 319
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=97.11 E-value=0.00051 Score=71.36 Aligned_cols=24 Identities=33% Similarity=0.560 Sum_probs=21.9
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
..++|+||||||||++++.|++..
T Consensus 169 q~~~IvG~~g~GKTtL~~~i~~~I 192 (415)
T TIGR00767 169 QRGLIVAPPKAGKTVLLQKIAQAI 192 (415)
T ss_pred CEEEEECCCCCChhHHHHHHHHhh
Confidence 459999999999999999999976
No 320
>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP. AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding
Probab=97.11 E-value=0.00035 Score=72.22 Aligned_cols=30 Identities=27% Similarity=0.523 Sum_probs=26.0
Q ss_pred ccccccccccCCCCCCchHHHHHHHHhhCC
Q 012305 384 QAPFRNMLFYGPPGTGKTMVAREIARKSGL 413 (466)
Q Consensus 384 ~~p~~~vLl~GppGTGKT~lA~alA~~l~~ 413 (466)
..+++|++||||+|+|||+|.-.+...+..
T Consensus 59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~ 88 (362)
T PF03969_consen 59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLPI 88 (362)
T ss_pred CCCCceEEEECCCCCchhHHHHHHHHhCCc
Confidence 456799999999999999999999887743
No 321
>PHA02774 E1; Provisional
Probab=97.11 E-value=0.00044 Score=74.57 Aligned_cols=33 Identities=24% Similarity=0.481 Sum_probs=26.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcch-hhcC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYA-MMTG 420 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~-~v~~ 420 (466)
.+++||||||||||+|+.+|.+.++..++ .+|.
T Consensus 435 nciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~ 468 (613)
T PHA02774 435 NCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNS 468 (613)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEEC
Confidence 57999999999999999999999864443 3443
No 322
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=97.11 E-value=0.00027 Score=65.10 Aligned_cols=32 Identities=25% Similarity=0.460 Sum_probs=29.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
.+++|+|++|+||||+.+.||+.++++|+-++
T Consensus 3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D 34 (172)
T COG0703 3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTD 34 (172)
T ss_pred ccEEEEcCCCCCHhHHHHHHHHHcCCCcccch
Confidence 46999999999999999999999999987654
No 323
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=97.11 E-value=0.00025 Score=78.27 Aligned_cols=50 Identities=28% Similarity=0.410 Sum_probs=40.9
Q ss_pred cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305 353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
++..|++|+|+.+++..|...+..- +++||+||||||||+++++++..++
T Consensus 26 ~~~~~~~vigq~~a~~~L~~~~~~~----------~~~l~~G~~G~GKttla~~l~~~l~ 75 (637)
T PRK13765 26 PERLIDQVIGQEHAVEVIKKAAKQR----------RHVMMIGSPGTGKSMLAKAMAELLP 75 (637)
T ss_pred CcccHHHcCChHHHHHHHHHHHHhC----------CeEEEECCCCCcHHHHHHHHHHHcC
Confidence 3567889999999999887654321 3699999999999999999998874
No 324
>PRK04040 adenylate kinase; Provisional
Probab=97.10 E-value=0.00025 Score=66.67 Aligned_cols=34 Identities=32% Similarity=0.467 Sum_probs=27.3
Q ss_pred ccccccCCCCCCchHHHHHHHHhh--CCcchhhcCCCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS--GLDYAMMTGGDV 423 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l--~~~~~~v~~~~l 423 (466)
..++|+|+||||||++++.|+..+ +..+ ++.+++
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~--~~~g~~ 38 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKLKEDYKI--VNFGDV 38 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHhccCCeE--EecchH
Confidence 468999999999999999999999 4444 444553
No 325
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=97.10 E-value=0.00036 Score=69.25 Aligned_cols=24 Identities=42% Similarity=0.623 Sum_probs=22.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.|++|+||||+||||+.+.|+..+
T Consensus 112 ~~~~i~g~~g~GKttl~~~l~~~~ 135 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLRDLARIL 135 (270)
T ss_pred eEEEEEcCCCCCHHHHHHHHhCcc
Confidence 589999999999999999999887
No 326
>PRK06217 hypothetical protein; Validated
Probab=97.09 E-value=0.00026 Score=65.87 Aligned_cols=30 Identities=17% Similarity=0.303 Sum_probs=26.8
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM 418 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v 418 (466)
.|+|.|+||+||||+++.|+..+|.+++.+
T Consensus 3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~ 32 (183)
T PRK06217 3 RIHITGASGSGTTTLGAALAERLDIPHLDT 32 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCcEEEc
Confidence 489999999999999999999998876544
No 327
>PRK14528 adenylate kinase; Provisional
Probab=97.07 E-value=0.0003 Score=65.86 Aligned_cols=29 Identities=31% Similarity=0.700 Sum_probs=25.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
++++|.||||+|||++++.|+..+|.+++
T Consensus 2 ~~i~i~G~pGsGKtt~a~~la~~~~~~~i 30 (186)
T PRK14528 2 KNIIFMGPPGAGKGTQAKILCERLSIPQI 30 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCee
Confidence 35899999999999999999999886654
No 328
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=97.07 E-value=0.00057 Score=63.19 Aligned_cols=70 Identities=19% Similarity=0.252 Sum_probs=44.9
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHH------------------HHHHHHHHhhhhhccCceEE
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA------------------VTKIHEIFDWAKKSKKGLLL 450 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~------------------~~~l~~lf~~A~~~~~~~iL 450 (466)
.+|++||||+|||++|..++..++.+++.+.-+.+.+..... ...+..++... ...+.+|
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~--~~~~~~V 80 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATAQPFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRAD--AAPGRCV 80 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCCCCChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhh--cCCCCEE
Confidence 489999999999999999999988776666554432211100 11233443321 1236789
Q ss_pred Eecccccccc
Q 012305 451 FIDEADAFLC 460 (466)
Q Consensus 451 flDEid~l~~ 460 (466)
+||-+..+..
T Consensus 81 lID~Lt~~~~ 90 (170)
T PRK05800 81 LVDCLTTWVT 90 (170)
T ss_pred EehhHHHHHH
Confidence 9998887753
No 329
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=97.06 E-value=0.00032 Score=74.37 Aligned_cols=64 Identities=17% Similarity=0.318 Sum_probs=44.3
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
.+++++-.+..-+..|..++..+.. ..+..+.+-+||+||+||||||+++.|+..+|+.+..-+
T Consensus 79 ~t~eeLAVHkkKI~eVk~WL~~~~~-~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~ 142 (634)
T KOG1970|consen 79 RTLEELAVHKKKISEVKQWLKQVAE-FTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWS 142 (634)
T ss_pred ccHHHHhhhHHhHHHHHHHHHHHHH-hccCCCceEEEEeCCCCCCchhHHHHHHHhhCceeeeec
Confidence 3456676666666666655442222 222344456899999999999999999999998876544
No 330
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=97.04 E-value=0.00077 Score=64.65 Aligned_cols=34 Identities=29% Similarity=0.547 Sum_probs=27.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG 421 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~ 421 (466)
..++|+||||||||+++..++... +.+++.+++.
T Consensus 24 ~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 24 TITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 357899999999999999998655 6677777665
No 331
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=97.04 E-value=0.00027 Score=65.82 Aligned_cols=26 Identities=46% Similarity=0.954 Sum_probs=23.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLD 414 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~ 414 (466)
.|+|.||||+||||+|+.|+..++.+
T Consensus 2 riiilG~pGaGK~T~A~~La~~~~i~ 27 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKKLGLP 27 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCCc
Confidence 48999999999999999999996543
No 332
>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=97.04 E-value=0.00031 Score=62.85 Aligned_cols=26 Identities=27% Similarity=0.652 Sum_probs=23.2
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
++|+|+||+|||++++.|+..++..+
T Consensus 2 i~l~G~~GsGKST~a~~l~~~~~~~~ 27 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAERLGAPF 27 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhhcCCEE
Confidence 68999999999999999999987654
No 333
>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=97.03 E-value=0.00048 Score=71.47 Aligned_cols=72 Identities=24% Similarity=0.353 Sum_probs=47.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc--------hh-------HHHHHHHHHHhhhhhccCceE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL--------GA-------QAVTKIHEIFDWAKKSKKGLL 449 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~--------~~-------e~~~~l~~lf~~A~~~~~~~i 449 (466)
.-+||+||||+|||+|+..++... +.+++++++.+.... +. .....+..++..+...+ +.+
T Consensus 83 slvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~~-~~l 161 (372)
T cd01121 83 SVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEELK-PDL 161 (372)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhcC-CcE
Confidence 458899999999999999998765 346666665432210 00 01123445555555444 789
Q ss_pred EEecccccccc
Q 012305 450 LFIDEADAFLC 460 (466)
Q Consensus 450 LflDEid~l~~ 460 (466)
|+||+|..|..
T Consensus 162 VVIDSIq~l~~ 172 (372)
T cd01121 162 VIIDSIQTVYS 172 (372)
T ss_pred EEEcchHHhhc
Confidence 99999988753
No 334
>PRK13946 shikimate kinase; Provisional
Probab=97.02 E-value=0.00037 Score=64.99 Aligned_cols=32 Identities=31% Similarity=0.520 Sum_probs=28.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
++|+|.|+||||||++++.|+..+|.+|+..+
T Consensus 11 ~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D 42 (184)
T PRK13946 11 RTVVLVGLMGAGKSTVGRRLATMLGLPFLDAD 42 (184)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHcCCCeECcC
Confidence 57999999999999999999999998876543
No 335
>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=97.00 E-value=0.00084 Score=66.37 Aligned_cols=24 Identities=42% Similarity=0.618 Sum_probs=21.7
Q ss_pred cccccccCCCCCCchHHHHHHHHh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARK 410 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~ 410 (466)
.+.|.|+|++|+|||++|..+++.
T Consensus 19 ~~~v~I~G~~G~GKT~LA~~~~~~ 42 (287)
T PF00931_consen 19 VRVVAIVGMGGIGKTTLARQVARD 42 (287)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHCH
T ss_pred eEEEEEEcCCcCCcceeeeecccc
Confidence 356999999999999999999987
No 336
>PRK13764 ATPase; Provisional
Probab=97.00 E-value=0.00052 Score=75.04 Aligned_cols=25 Identities=32% Similarity=0.579 Sum_probs=23.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhhC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
.++|++|||||||||++++|+..+.
T Consensus 258 ~~ILIsG~TGSGKTTll~AL~~~i~ 282 (602)
T PRK13764 258 EGILIAGAPGAGKSTFAQALAEFYA 282 (602)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHh
Confidence 4799999999999999999998884
No 337
>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=97.00 E-value=0.0005 Score=71.20 Aligned_cols=24 Identities=33% Similarity=0.588 Sum_probs=21.9
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.++++.||.|||||++.++|...+
T Consensus 23 ~~~fv~G~~GtGKs~l~~~i~~~~ 46 (364)
T PF05970_consen 23 LNFFVTGPAGTGKSFLIKAIIDYL 46 (364)
T ss_pred cEEEEEcCCCCChhHHHHHHHHHh
Confidence 468899999999999999998877
No 338
>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=97.00 E-value=0.0011 Score=63.58 Aligned_cols=22 Identities=27% Similarity=0.542 Sum_probs=19.9
Q ss_pred ccccccCCCCCCchHHHHHHHH
Q 012305 388 RNMLFYGPPGTGKTMVAREIAR 409 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~ 409 (466)
+.++|+||+|+|||++.+.++.
T Consensus 30 ~~~~itGpNg~GKStlLk~i~~ 51 (213)
T cd03281 30 SIMVITGPNSSGKSVYLKQVAL 51 (213)
T ss_pred eEEEEECCCCCChHHHHHHHHH
Confidence 5699999999999999999973
No 339
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=97.00 E-value=0.00093 Score=68.32 Aligned_cols=69 Identities=17% Similarity=0.227 Sum_probs=43.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-----------c------hhHHHHHHHHHHhhhhhccCceEE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-----------L------GAQAVTKIHEIFDWAKKSKKGLLL 450 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-----------~------~~e~~~~l~~lf~~A~~~~~~~iL 450 (466)
+|+|++||||+|||++.++|........-.++..+... + .+...-....++..+.+.+ ++.|
T Consensus 161 ~nili~G~tgSGKTTll~aL~~~ip~~~ri~tiEd~~El~l~~~~n~~~~~~~~~~~~~~~~~~~~ll~~~LR~~-PD~I 239 (332)
T PRK13900 161 KNIIISGGTSTGKTTFTNAALREIPAIERLITVEDAREIVLSNHPNRVHLLASKGGQGRAKVTTQDLIEACLRLR-PDRI 239 (332)
T ss_pred CcEEEECCCCCCHHHHHHHHHhhCCCCCeEEEecCCCccccccCCCEEEEEecCCCCCcCcCcHHHHHHHHhccC-CCeE
Confidence 46999999999999999999988843211111111100 0 0011123456777766666 7899
Q ss_pred Eeccccc
Q 012305 451 FIDEADA 457 (466)
Q Consensus 451 flDEid~ 457 (466)
+++|+-.
T Consensus 240 ivGEiR~ 246 (332)
T PRK13900 240 IVGELRG 246 (332)
T ss_pred EEEecCC
Confidence 9999863
No 340
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=97.00 E-value=0.00071 Score=61.62 Aligned_cols=35 Identities=29% Similarity=0.611 Sum_probs=28.4
Q ss_pred cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV 423 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l 423 (466)
.|+|+|.||+|||++|++|...+ |.+++.++++.+
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~l 41 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNL 41 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHH
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcch
Confidence 48899999999999999999888 677777765543
No 341
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=96.97 E-value=0.00043 Score=64.00 Aligned_cols=28 Identities=29% Similarity=0.501 Sum_probs=24.4
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
-++|.||||+||||+++.|+..+|..++
T Consensus 5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~ 32 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQCEKIVEKYGFTHL 32 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence 4789999999999999999999876543
No 342
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=96.97 E-value=0.00075 Score=66.81 Aligned_cols=68 Identities=13% Similarity=0.188 Sum_probs=40.3
Q ss_pred cccccCCCCCCchHHHHHHHHhhCC---cchhhcCC-C-----cc--cchhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGL---DYAMMTGG-D-----VA--PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~---~~~~v~~~-~-----l~--~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
.++|.||+|+||||+.+++...+.. .++.+..+ + +. ....+.......++..+-+.. +++|+|+||..
T Consensus 82 lilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~~~~q~~v~~~~~~~~~~~l~~~lR~~-PD~i~vgEiR~ 160 (264)
T cd01129 82 IILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIPGINQVQVNEKAGLTFARGLRAILRQD-PDIIMVGEIRD 160 (264)
T ss_pred EEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCCCceEEEeCCcCCcCHHHHHHHHhccC-CCEEEeccCCC
Confidence 5999999999999999999777632 22222111 0 00 011111112344455555445 89999999954
No 343
>PRK08233 hypothetical protein; Provisional
Probab=96.97 E-value=0.001 Score=61.12 Aligned_cols=24 Identities=21% Similarity=0.289 Sum_probs=21.7
Q ss_pred cccccCCCCCCchHHHHHHHHhhC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
-|.|.|+||+||||+|..|+..++
T Consensus 5 iI~I~G~~GsGKtTla~~L~~~l~ 28 (182)
T PRK08233 5 IITIAAVSGGGKTTLTERLTHKLK 28 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHhhCC
Confidence 367889999999999999999885
No 344
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.97 E-value=0.00067 Score=71.79 Aligned_cols=88 Identities=18% Similarity=0.242 Sum_probs=54.7
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch-hhcCCCcccc--------
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA-MMTGGDVAPL-------- 426 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~-~v~~~~l~~~-------- 426 (466)
+|+++...+.....+..++ ..|+.-+|++||+|+|||++.-++-..++.+.. +++..|...+
T Consensus 236 ~l~~Lg~~~~~~~~~~~~~---------~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~gI~Q~ 306 (500)
T COG2804 236 DLEKLGMSPFQLARLLRLL---------NRPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPGINQV 306 (500)
T ss_pred CHHHhCCCHHHHHHHHHHH---------hCCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeeecCCccee
Confidence 3455555565555555442 335556899999999999999999888865443 4555554322
Q ss_pred ------hhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305 427 ------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 427 ------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
|..-...++.+.+ ..|+||++.||-.
T Consensus 307 qVN~k~gltfa~~LRa~LR-----qDPDvImVGEIRD 338 (500)
T COG2804 307 QVNPKIGLTFARALRAILR-----QDPDVIMVGEIRD 338 (500)
T ss_pred ecccccCCCHHHHHHHHhc-----cCCCeEEEeccCC
Confidence 1122223333332 3389999999964
No 345
>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=96.96 E-value=0.00034 Score=67.03 Aligned_cols=22 Identities=23% Similarity=0.650 Sum_probs=19.8
Q ss_pred ccccCCCCCCchHHHHHHHHhh
Q 012305 390 MLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l 411 (466)
++++|+||+|||++++.+....
T Consensus 1 ~vv~G~pGsGKSt~i~~~~~~~ 22 (234)
T PF01443_consen 1 IVVHGVPGSGKSTLIKKLLKDR 22 (234)
T ss_pred CEEEcCCCCCHHHHHHHHHHhc
Confidence 4789999999999999998884
No 346
>PRK06696 uridine kinase; Validated
Probab=96.96 E-value=0.00075 Score=64.89 Aligned_cols=36 Identities=25% Similarity=0.248 Sum_probs=29.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV 423 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l 423 (466)
.-|.|.|+||+||||+|+.|+..+ |.+++.++.+++
T Consensus 23 ~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf 61 (223)
T PRK06696 23 LRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDF 61 (223)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccc
Confidence 357899999999999999999998 666776665554
No 347
>PF13245 AAA_19: Part of AAA domain
Probab=96.96 E-value=0.00052 Score=54.82 Aligned_cols=22 Identities=50% Similarity=0.773 Sum_probs=16.5
Q ss_pred ccccCCCCCCch-HHHHHHHHhh
Q 012305 390 MLFYGPPGTGKT-MVAREIARKS 411 (466)
Q Consensus 390 vLl~GppGTGKT-~lA~alA~~l 411 (466)
+++.|||||||| +++..++...
T Consensus 13 ~vv~g~pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 13 FVVQGPPGTGKTTTLAARIAELL 35 (76)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH
Confidence 566999999999 5556665554
No 348
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=96.94 E-value=0.00045 Score=63.82 Aligned_cols=32 Identities=28% Similarity=0.668 Sum_probs=27.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
.+|+|.||+|+|||++++.|+..++.+|+..+
T Consensus 5 ~~I~liG~~GaGKStl~~~La~~l~~~~vd~D 36 (172)
T PRK05057 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD 36 (172)
T ss_pred CEEEEECCCCcCHHHHHHHHHHHcCCcEEECC
Confidence 46999999999999999999999988765543
No 349
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.93 E-value=0.00093 Score=71.07 Aligned_cols=72 Identities=25% Similarity=0.361 Sum_probs=48.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc--------hh-------HHHHHHHHHHhhhhhccCceE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL--------GA-------QAVTKIHEIFDWAKKSKKGLL 449 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~--------~~-------e~~~~l~~lf~~A~~~~~~~i 449 (466)
..+||+||||+|||+|+..++... +.+++++++.+.... +. .....+..++......+ +.+
T Consensus 81 s~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~~-~~l 159 (446)
T PRK11823 81 SVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEEK-PDL 159 (446)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhhC-CCE
Confidence 458899999999999999998765 566677766543211 00 00123445555555444 789
Q ss_pred EEecccccccc
Q 012305 450 LFIDEADAFLC 460 (466)
Q Consensus 450 LflDEid~l~~ 460 (466)
||||.|..+..
T Consensus 160 VVIDSIq~l~~ 170 (446)
T PRK11823 160 VVIDSIQTMYS 170 (446)
T ss_pred EEEechhhhcc
Confidence 99999998764
No 350
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=96.93 E-value=0.00048 Score=63.05 Aligned_cols=30 Identities=27% Similarity=0.478 Sum_probs=26.8
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM 418 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v 418 (466)
+++|+|+||||||++++.|+..+|.+|+..
T Consensus 4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~ 33 (171)
T PRK03731 4 PLFLVGARGCGKTTVGMALAQALGYRFVDT 33 (171)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCCCEEEc
Confidence 588999999999999999999999887643
No 351
>PRK06547 hypothetical protein; Provisional
Probab=96.93 E-value=0.00055 Score=63.40 Aligned_cols=32 Identities=28% Similarity=0.548 Sum_probs=26.6
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v 418 (466)
...|+|+|+||||||++++.|+..++.+++.+
T Consensus 15 ~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~ 46 (172)
T PRK06547 15 MITVLIDGRSGSGKTTLAGALAARTGFQLVHL 46 (172)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHhCCCeecc
Confidence 34688899999999999999999987665543
No 352
>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=96.92 E-value=0.00076 Score=68.47 Aligned_cols=76 Identities=21% Similarity=0.288 Sum_probs=44.0
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------ch----------hHH-HHHHHHHHhhhh
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LG----------AQA-VTKIHEIFDWAK 442 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~----------~e~-~~~l~~lf~~A~ 442 (466)
+.|. +.++||||||||||+||..++... |..++.+++..... ++ ... ...+..+....+
T Consensus 51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~ 130 (321)
T TIGR02012 51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVR 130 (321)
T ss_pred CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence 4554 458899999999999988876554 45555554322110 00 001 111222222222
Q ss_pred hccCceEEEecccccccc
Q 012305 443 KSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 443 ~~~~~~iLflDEid~l~~ 460 (466)
....++||||-|.+|.+
T Consensus 131 -~~~~~lIVIDSv~al~~ 147 (321)
T TIGR02012 131 -SGAVDIIVVDSVAALVP 147 (321)
T ss_pred -ccCCcEEEEcchhhhcc
Confidence 33478999999999875
No 353
>PLN02674 adenylate kinase
Probab=96.92 E-value=0.00038 Score=68.03 Aligned_cols=35 Identities=29% Similarity=0.522 Sum_probs=27.9
Q ss_pred cccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 423 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l 423 (466)
..+++|.||||+||||+++.|+..+|.. .++.+++
T Consensus 31 ~~~i~l~G~PGsGKgT~a~~La~~~~~~--his~Gdl 65 (244)
T PLN02674 31 DKRLILIGPPGSGKGTQSPIIKDEYCLC--HLATGDM 65 (244)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHcCCc--EEchhHH
Confidence 3569999999999999999999999854 4444443
No 354
>PRK02496 adk adenylate kinase; Provisional
Probab=96.92 E-value=0.00048 Score=63.95 Aligned_cols=28 Identities=32% Similarity=0.581 Sum_probs=24.6
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
.++|+||||+|||++++.|+..+|.+++
T Consensus 3 ~i~i~G~pGsGKst~a~~la~~~~~~~i 30 (184)
T PRK02496 3 RLIFLGPPGAGKGTQAVVLAEHLHIPHI 30 (184)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence 4889999999999999999999876544
No 355
>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=96.92 E-value=0.00078 Score=68.45 Aligned_cols=77 Identities=26% Similarity=0.316 Sum_probs=44.5
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------ch----------hHHHHHHHHHHhhhhh
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LG----------AQAVTKIHEIFDWAKK 443 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~----------~e~~~~l~~lf~~A~~ 443 (466)
+.|. +-+++|||||||||+||-.++... |..++.++.....+ ++ ..+......+.+..-+
T Consensus 51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~ 130 (325)
T cd00983 51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVR 130 (325)
T ss_pred CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHh
Confidence 4554 457799999999999999887554 55555554322100 00 0011111222222222
Q ss_pred ccCceEEEecccccccc
Q 012305 444 SKKGLLLFIDEADAFLC 460 (466)
Q Consensus 444 ~~~~~iLflDEid~l~~ 460 (466)
....++||||-+.++.+
T Consensus 131 s~~~~lIVIDSvaal~~ 147 (325)
T cd00983 131 SGAVDLIVVDSVAALVP 147 (325)
T ss_pred ccCCCEEEEcchHhhcc
Confidence 34478999999998875
No 356
>PLN02200 adenylate kinase family protein
Probab=96.91 E-value=0.00057 Score=66.47 Aligned_cols=34 Identities=26% Similarity=0.514 Sum_probs=27.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 423 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l 423 (466)
..++|+||||||||++|+.|+..+|.. .++.+++
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~g~~--his~gdl 77 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETFGFK--HLSAGDL 77 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCCe--EEEccHH
Confidence 468899999999999999999998764 4555444
No 357
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=96.91 E-value=0.00094 Score=68.54 Aligned_cols=69 Identities=17% Similarity=0.257 Sum_probs=42.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------ch------hHHHHHHHHHHhhhhhccCceEEE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LG------AQAVTKIHEIFDWAKKSKKGLLLF 451 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~------~e~~~~l~~lf~~A~~~~~~~iLf 451 (466)
.|+|++||+|+||||++++|....+..--.++..+... +. +...-....++..+-+.. ++.||
T Consensus 163 ~nilI~G~tGSGKTTll~aLl~~i~~~~rivtiEd~~El~l~~~~~v~l~~~~~~~~~~~~t~~~ll~~~LR~~-pD~Ii 241 (344)
T PRK13851 163 LTMLLCGPTGSGKTTMSKTLISAIPPQERLITIEDTLELVIPHENHVRLLYSKNGAGLGAVTAEHLLQASLRMR-PDRIL 241 (344)
T ss_pred CeEEEECCCCccHHHHHHHHHcccCCCCCEEEECCCccccCCCCCEEEEEeeccccCcCccCHHHHHHHHhcCC-CCeEE
Confidence 46999999999999999999988743211222111110 00 001123456666666555 78999
Q ss_pred eccccc
Q 012305 452 IDEADA 457 (466)
Q Consensus 452 lDEid~ 457 (466)
+.|+-.
T Consensus 242 vGEiR~ 247 (344)
T PRK13851 242 LGEMRD 247 (344)
T ss_pred EEeeCc
Confidence 998753
No 358
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.90 E-value=0.00076 Score=72.40 Aligned_cols=69 Identities=25% Similarity=0.379 Sum_probs=42.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCccc------------ch-----hHHHHHHHHHHhhhhhcc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAP------------LG-----AQAVTKIHEIFDWAKKSK 445 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~------------~~-----~e~~~~l~~lf~~A~~~~ 445 (466)
..++|+||+|+|||+++..|+..+ +..+..++.+.... ++ ......+..++. ...
T Consensus 351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~---~l~ 427 (559)
T PRK12727 351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLE---RLR 427 (559)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHH---Hhc
Confidence 468899999999999999998754 24555555433110 00 011122333333 333
Q ss_pred CceEEEeccccccc
Q 012305 446 KGLLLFIDEADAFL 459 (466)
Q Consensus 446 ~~~iLflDEid~l~ 459 (466)
.+++||||..+...
T Consensus 428 ~~DLVLIDTaG~s~ 441 (559)
T PRK12727 428 DYKLVLIDTAGMGQ 441 (559)
T ss_pred cCCEEEecCCCcch
Confidence 47899999998653
No 359
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.89 E-value=0.0013 Score=63.65 Aligned_cols=32 Identities=22% Similarity=0.397 Sum_probs=22.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMT 419 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~ 419 (466)
..++++||||||||+++..++..+ |..++.++
T Consensus 25 ~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~ 59 (230)
T PRK08533 25 SLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS 59 (230)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence 458999999999999976554433 44444444
No 360
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=96.89 E-value=0.0013 Score=60.77 Aligned_cols=36 Identities=28% Similarity=0.550 Sum_probs=31.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV 423 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l 423 (466)
..|.|+|.+|+||||+|.+|...+ |+.++.++|+.+
T Consensus 24 ~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnv 62 (197)
T COG0529 24 AVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNV 62 (197)
T ss_pred eEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhH
Confidence 458899999999999999999888 788888887665
No 361
>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=96.89 E-value=0.00049 Score=59.11 Aligned_cols=22 Identities=41% Similarity=0.706 Sum_probs=20.6
Q ss_pred ccccCCCCCCchHHHHHHHHhh
Q 012305 390 MLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l 411 (466)
|+|.|+|||||||+++.|+..+
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 5799999999999999999996
No 362
>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=96.88 E-value=0.00055 Score=65.11 Aligned_cols=27 Identities=44% Similarity=0.785 Sum_probs=24.2
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
|+|+||||+|||++|+.|+..+|..++
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~g~~~i 28 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKYGLPHI 28 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCee
Confidence 789999999999999999999886544
No 363
>PRK12608 transcription termination factor Rho; Provisional
Probab=96.88 E-value=0.0012 Score=68.17 Aligned_cols=23 Identities=35% Similarity=0.553 Sum_probs=21.4
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
..||+||||||||++++.|++.+
T Consensus 135 R~LIvG~pGtGKTTLl~~la~~i 157 (380)
T PRK12608 135 RGLIVAPPRAGKTVLLQQIAAAV 157 (380)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 58999999999999999998877
No 364
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=96.88 E-value=0.001 Score=67.35 Aligned_cols=69 Identities=17% Similarity=0.237 Sum_probs=41.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------ch------hHHHHHHHHHHhhhhhccCceEEE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LG------AQAVTKIHEIFDWAKKSKKGLLLF 451 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~------~e~~~~l~~lf~~A~~~~~~~iLf 451 (466)
.+++|+||+|+|||++.++|...+....-.+...+... +. ....-.+..++..+-+.. +++|+
T Consensus 145 ~~ili~G~tGsGKTTll~al~~~~~~~~~iv~ied~~El~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~-pd~ii 223 (308)
T TIGR02788 145 KNIIISGGTGSGKTTFLKSLVDEIPKDERIITIEDTREIFLPHPNYVHLFYSKGGQGLAKVTPKDLLQSCLRMR-PDRII 223 (308)
T ss_pred CEEEEECCCCCCHHHHHHHHHccCCccccEEEEcCccccCCCCCCEEEEEecCCCCCcCccCHHHHHHHHhcCC-CCeEE
Confidence 46999999999999999999988732211111111100 00 000123455666555555 78999
Q ss_pred eccccc
Q 012305 452 IDEADA 457 (466)
Q Consensus 452 lDEid~ 457 (466)
+||+-.
T Consensus 224 ~gE~r~ 229 (308)
T TIGR02788 224 LGELRG 229 (308)
T ss_pred EeccCC
Confidence 999863
No 365
>PTZ00088 adenylate kinase 1; Provisional
Probab=96.87 E-value=0.00053 Score=66.49 Aligned_cols=29 Identities=28% Similarity=0.590 Sum_probs=25.3
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
.++|+||||+||||+++.|+..+|.+++.
T Consensus 8 rIvl~G~PGsGK~T~a~~La~~~g~~~is 36 (229)
T PTZ00088 8 KIVLFGAPGVGKGTFAEILSKKENLKHIN 36 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCCcEEE
Confidence 48999999999999999999999865443
No 366
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.0025 Score=72.13 Aligned_cols=99 Identities=19% Similarity=0.321 Sum_probs=65.3
Q ss_pred CCCeeeC-cchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc-
Q 012305 357 NGDIILH-PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA- 424 (466)
Q Consensus 357 l~~vVg~-~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~- 424 (466)
++.++|. ++-..++-+++.. .++ +|-+|.|.||+|||.++.-++... +..++.++.+.+.
T Consensus 185 ldPvigr~deeirRvi~iL~R--rtk------~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~a 256 (898)
T KOG1051|consen 185 LDPVIGRHDEEIRRVIEILSR--KTK------NNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVA 256 (898)
T ss_pred CCCccCCchHHHHHHHHHHhc--cCC------CCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhccc
Confidence 5668886 4444444333221 112 368999999999999999998877 2223333333221
Q ss_pred --cchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 425 --PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 425 --~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
...++....++.+...+...+.+.||||||++-+.+...
T Consensus 257 Ga~~rge~E~rlk~l~k~v~~~~~gvILfigelh~lvg~g~ 297 (898)
T KOG1051|consen 257 GAKRRGEFEERLKELLKEVESGGGGVILFLGELHWLVGSGS 297 (898)
T ss_pred CcccchHHHHHHHHHHHHHhcCCCcEEEEecceeeeecCCC
Confidence 234456678888888777666789999999999886553
No 367
>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=96.85 E-value=0.0014 Score=69.09 Aligned_cols=72 Identities=19% Similarity=0.248 Sum_probs=47.2
Q ss_pred cccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccc-----------------h----hHHHHHHHHHHhhh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPL-----------------G----AQAVTKIHEIFDWA 441 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~-----------------~----~e~~~~l~~lf~~A 441 (466)
+..++|+||||+|||+++..||..+ |..++.++|+..-+. . ..........+..+
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~ 178 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYA 178 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHHH
Confidence 4578999999999999988888764 567777777643210 0 01112234455555
Q ss_pred hhccCceEEEeccccccc
Q 012305 442 KKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 442 ~~~~~~~iLflDEid~l~ 459 (466)
.... +++||||-.+.+.
T Consensus 179 ~~~~-~DvVIIDTaGr~~ 195 (428)
T TIGR00959 179 KENG-FDVVIVDTAGRLQ 195 (428)
T ss_pred HhcC-CCEEEEeCCCccc
Confidence 4333 7899999888654
No 368
>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=96.85 E-value=0.00073 Score=69.58 Aligned_cols=23 Identities=39% Similarity=0.603 Sum_probs=21.1
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+++.|.||||||.++-.++..+
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l 25 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKEL 25 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHh
Confidence 47889999999999999999887
No 369
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.83 E-value=0.0019 Score=72.33 Aligned_cols=73 Identities=23% Similarity=0.291 Sum_probs=43.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhh----C-CcchhhcCCCccc------------ch--hHHHHHHHHHHhhhhhccCce
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS----G-LDYAMMTGGDVAP------------LG--AQAVTKIHEIFDWAKKSKKGL 448 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l----~-~~~~~v~~~~l~~------------~~--~e~~~~l~~lf~~A~~~~~~~ 448 (466)
..++|+||+|+||||++..||..+ | ..+..++++..-. ++ .........+++........+
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D 265 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKH 265 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCC
Confidence 468899999999999999998765 3 3455555443210 00 000111122333333334468
Q ss_pred EEEecccccccc
Q 012305 449 LLFIDEADAFLC 460 (466)
Q Consensus 449 iLflDEid~l~~ 460 (466)
+||||-++....
T Consensus 266 ~VLIDTAGRs~~ 277 (767)
T PRK14723 266 LVLIDTVGMSQR 277 (767)
T ss_pred EEEEeCCCCCcc
Confidence 999999986653
No 370
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=96.83 E-value=0.00071 Score=63.67 Aligned_cols=73 Identities=27% Similarity=0.349 Sum_probs=33.9
Q ss_pred ccccCCCCCCchHHHHHH-HHh-h--CCcchhhcCCCcc-----cchhHHHH-------------HHHHHHhhhhhccCc
Q 012305 390 MLFYGPPGTGKTMVAREI-ARK-S--GLDYAMMTGGDVA-----PLGAQAVT-------------KIHEIFDWAKKSKKG 447 (466)
Q Consensus 390 vLl~GppGTGKT~lA~al-A~~-l--~~~~~~v~~~~l~-----~~~~e~~~-------------~l~~lf~~A~~~~~~ 447 (466)
.|++|.||+|||+.|-.. ... + |.+++. |...+. ........ ....+.+|.. .+.+
T Consensus 3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t-ni~gL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 80 (193)
T PF05707_consen 3 YLITGKPGSGKSYYAVSYVIIPALKKGRPVYT-NIPGLNIEKIQPVLGYDIPTRLIDLSDPDFEEDWDDPDDWRK-LPKG 80 (193)
T ss_dssp EEEE--TTSSHHHHHHHHHHH-GGGS---EEE---TTB-S--EEEE--TTT-S-----S--SSSEEGGGHHHHTT-SGTT
T ss_pred EEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE-ccCCcchhhhhhhccccccccccccccccchhhhhhhhhhcc-cCCC
Confidence 578999999999987555 322 2 444332 322111 11000000 1123444443 2358
Q ss_pred eEEEeccccccccccCC
Q 012305 448 LLLFIDEADAFLCDNQD 464 (466)
Q Consensus 448 ~iLflDEid~l~~~r~~ 464 (466)
++|||||+..+++.|..
T Consensus 81 ~liviDEa~~~~~~r~~ 97 (193)
T PF05707_consen 81 SLIVIDEAQNFFPSRSW 97 (193)
T ss_dssp -EEEETTGGGTSB---T
T ss_pred cEEEEECChhhcCCCcc
Confidence 99999999999988764
No 371
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=96.83 E-value=0.0018 Score=61.32 Aligned_cols=23 Identities=26% Similarity=0.406 Sum_probs=20.1
Q ss_pred ccccccCCCCCCchHHHHHHHHh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARK 410 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~ 410 (466)
+.++|+||+|+|||++.+.|+..
T Consensus 26 ~~~~ltGpNg~GKSTllr~i~~~ 48 (199)
T cd03283 26 NGILITGSNMSGKSTFLRTIGVN 48 (199)
T ss_pred cEEEEECCCCCChHHHHHHHHHH
Confidence 35889999999999999999753
No 372
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.83 E-value=0.0018 Score=64.37 Aligned_cols=90 Identities=16% Similarity=0.212 Sum_probs=52.6
Q ss_pred ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcccchhHHH
Q 012305 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAPLGAQAV 431 (466)
Q Consensus 354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~~~~e~~ 431 (466)
..+|+.+ |.|.+...+.. .|..-||.+||+|+||||+.-++-.+.+ .+.-+++..|...+...+.
T Consensus 105 i~~~e~L-glP~i~~~~~~------------~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDPIE~vh~sk 171 (353)
T COG2805 105 IPTLEEL-GLPPIVRELAE------------SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDPIEYVHESK 171 (353)
T ss_pred CCCHHHc-CCCHHHHHHHh------------CCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCchHhhhcch
Confidence 3345555 55555554442 2333588999999999999888888774 3445666666543332221
Q ss_pred H-------------HHHHHHhhhhhccCceEEEeccccc
Q 012305 432 T-------------KIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 432 ~-------------~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
. ......+.|-+.. |+|||+-|+-.
T Consensus 172 kslI~QREvG~dT~sF~~aLraALReD-PDVIlvGEmRD 209 (353)
T COG2805 172 KSLINQREVGRDTLSFANALRAALRED-PDVILVGEMRD 209 (353)
T ss_pred HhhhhHHHhcccHHHHHHHHHHHhhcC-CCEEEEecccc
Confidence 1 1122223333334 79999988754
No 373
>PRK14527 adenylate kinase; Provisional
Probab=96.82 E-value=0.00069 Score=63.43 Aligned_cols=28 Identities=39% Similarity=0.780 Sum_probs=24.4
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
.-++|+||||+|||++++.|+..++...
T Consensus 7 ~~i~i~G~pGsGKsT~a~~La~~~~~~~ 34 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERLAQELGLKK 34 (191)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCC
Confidence 3589999999999999999999887643
No 374
>PRK00279 adk adenylate kinase; Reviewed
Probab=96.81 E-value=0.00063 Score=64.96 Aligned_cols=28 Identities=39% Similarity=0.697 Sum_probs=24.5
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
.|+++||||+|||++++.|+..+|..++
T Consensus 2 ~I~v~G~pGsGKsT~a~~la~~~~~~~i 29 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFIAEKYGIPHI 29 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence 3899999999999999999999985443
No 375
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=96.79 E-value=0.00097 Score=66.72 Aligned_cols=78 Identities=17% Similarity=0.129 Sum_probs=48.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCc-----chhhcC---CCc---ccchh---HHHHHHHHHHhhhhh---ccCceEE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLD-----YAMMTG---GDV---APLGA---QAVTKIHEIFDWAKK---SKKGLLL 450 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~-----~~~v~~---~~l---~~~~~---e~~~~l~~lf~~A~~---~~~~~iL 450 (466)
..+||+||+|+||+.+|..+|..+-+. ...+.. +|+ .+.+. -++..++.+...+.. .+++.|+
T Consensus 20 HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~kv~ 99 (290)
T PRK05917 20 SAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPYKIY 99 (290)
T ss_pred eeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCceEE
Confidence 469999999999999999999887221 111111 222 11111 124455555544432 2446899
Q ss_pred EeccccccccccCCC
Q 012305 451 FIDEADAFLCDNQDF 465 (466)
Q Consensus 451 flDEid~l~~~r~~~ 465 (466)
+||++|.|...-+|+
T Consensus 100 ii~~ad~mt~~AaNa 114 (290)
T PRK05917 100 IIHEADRMTLDAISA 114 (290)
T ss_pred EEechhhcCHHHHHH
Confidence 999999998765543
No 376
>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=96.78 E-value=0.0025 Score=64.25 Aligned_cols=25 Identities=20% Similarity=0.385 Sum_probs=21.8
Q ss_pred cccccccCCCCCCchHHHHHHHHhh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
...+.|+||||+|||+++..++..+
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~ 58 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMEL 58 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHH
Confidence 3568899999999999999998776
No 377
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=96.78 E-value=0.002 Score=62.29 Aligned_cols=36 Identities=28% Similarity=0.509 Sum_probs=25.5
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMT 419 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~ 419 (466)
+.|. ..++++||||||||+++..++... |.+++.++
T Consensus 21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~ 60 (234)
T PRK06067 21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT 60 (234)
T ss_pred CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence 3443 468899999999999999996543 44444443
No 378
>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=96.76 E-value=0.0014 Score=60.53 Aligned_cols=32 Identities=22% Similarity=0.318 Sum_probs=26.1
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchhhcCC
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGG 421 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~ 421 (466)
+|++|+||+|||++|..++...+.+++++.-.
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~ 33 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAELGGPVTYIATA 33 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHhcCCCeEEEEcc
Confidence 68999999999999999988777666655443
No 379
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=96.75 E-value=0.0022 Score=59.52 Aligned_cols=36 Identities=25% Similarity=0.494 Sum_probs=27.9
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV 423 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l 423 (466)
.-++|+|+||+|||++++.|...+ |..++.+++.++
T Consensus 19 ~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~~ 57 (184)
T TIGR00455 19 VVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNV 57 (184)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECChHH
Confidence 468899999999999999999887 334455555444
No 380
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=96.75 E-value=0.0014 Score=69.47 Aligned_cols=69 Identities=28% Similarity=0.385 Sum_probs=42.5
Q ss_pred cccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCcc-------cchhHHHHHHHHHHhhhhhccCceEEEecc
Q 012305 385 APFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVA-------PLGAQAVTKIHEIFDWAKKSKKGLLLFIDE 454 (466)
Q Consensus 385 ~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~-------~~~~e~~~~l~~lf~~A~~~~~~~iLflDE 454 (466)
+|+--+-+.||||||||+|++.|.+.+-.. +-.+.|+--. -+..+....++.+++.++-.. -.+|+||-
T Consensus 67 PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTvvsgK~RRiTflEcp~Dl~~miDvaKIaD-LVlLlIdg 143 (1077)
T COG5192 67 PPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSGKTRRITFLECPSDLHQMIDVAKIAD-LVLLLIDG 143 (1077)
T ss_pred CCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceEEeecceeEEEEEeChHHHHHHHhHHHhhh-eeEEEecc
Confidence 343445589999999999999998776322 2222222100 012234467888888877544 56777774
No 381
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.71 E-value=0.0039 Score=66.61 Aligned_cols=35 Identities=29% Similarity=0.516 Sum_probs=27.5
Q ss_pred ccccccCCCCCCchHHHHHHHHhh----C-CcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS----G-LDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l----~-~~~~~v~~~~ 422 (466)
..++|+||+|+||||++..||..+ | ..+..++++.
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt 296 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDS 296 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCc
Confidence 458899999999999999999766 3 3566666654
No 382
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.70 E-value=0.00082 Score=63.57 Aligned_cols=22 Identities=45% Similarity=0.693 Sum_probs=16.5
Q ss_pred ccccCCCCCCchHHHHHHHHhh
Q 012305 390 MLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l 411 (466)
.++.||||||||+++..+...+
T Consensus 20 ~~i~GpPGTGKT~~l~~~i~~~ 41 (236)
T PF13086_consen 20 TLIQGPPGTGKTTTLASIIAQL 41 (236)
T ss_dssp EEEE-STTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCChHHHHHHHHHHh
Confidence 8899999999998766665444
No 383
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=96.70 E-value=0.0019 Score=61.00 Aligned_cols=37 Identities=22% Similarity=0.452 Sum_probs=28.2
Q ss_pred cccccccCCCCCCchHHHHHHHHhh-CCcchhhcCCCc
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS-GLDYAMMTGGDV 423 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l-~~~~~~v~~~~l 423 (466)
|.-++|.|+||+|||+++..+...+ +..++.|+.+++
T Consensus 15 P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~ 52 (199)
T PF06414_consen 15 PTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEF 52 (199)
T ss_dssp -EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGG
T ss_pred CEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHH
Confidence 3558888999999999999999888 777788877765
No 384
>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=96.67 E-value=0.0029 Score=57.82 Aligned_cols=28 Identities=29% Similarity=0.444 Sum_probs=22.0
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchh
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAM 417 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~ 417 (466)
+.+|+++|+|||++|-.++-.. |..+..
T Consensus 5 i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~ 35 (159)
T cd00561 5 IQVYTGNGKGKTTAALGLALRALGHGYRVGV 35 (159)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 6788999999999999886555 555554
No 385
>PRK04182 cytidylate kinase; Provisional
Probab=96.67 E-value=0.001 Score=60.97 Aligned_cols=29 Identities=48% Similarity=0.702 Sum_probs=26.2
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
.|+|+|+||||||++++.|+..+|++|+.
T Consensus 2 ~I~i~G~~GsGKstia~~la~~lg~~~id 30 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAEKLGLKHVS 30 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence 37899999999999999999999988765
No 386
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.66 E-value=0.002 Score=67.59 Aligned_cols=68 Identities=15% Similarity=0.239 Sum_probs=45.3
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAF 458 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l 458 (466)
.++++||-+||||++.+.+...+...++.++..|+..........+..+...... ....||||||..+
T Consensus 39 i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l~d~~~~~~~~~~~--~~~yifLDEIq~v 106 (398)
T COG1373 39 IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRAYIELKER--EKSYIFLDEIQNV 106 (398)
T ss_pred EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhHHHHHHHHHHhhcc--CCceEEEecccCc
Confidence 6899999999999999888888755566666666544333332222333222221 2479999999875
No 387
>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=96.65 E-value=0.00091 Score=60.09 Aligned_cols=25 Identities=40% Similarity=0.752 Sum_probs=22.0
Q ss_pred ccCCCCCCchHHHHHHHHhhCCcch
Q 012305 392 FYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 392 l~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
+.||||+|||++|+.||..+|..++
T Consensus 1 i~G~PgsGK~t~~~~la~~~~~~~i 25 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRYGLVHI 25 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHHTSEEE
T ss_pred CcCCCCCChHHHHHHHHHhcCccee
Confidence 5799999999999999999976543
No 388
>PTZ00202 tuzin; Provisional
Probab=96.65 E-value=0.0096 Score=62.62 Aligned_cols=60 Identities=17% Similarity=0.283 Sum_probs=44.5
Q ss_pred cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
....+++|.......|..++...... .++-++|+||+|||||++++.+...++...+.++
T Consensus 259 a~~~~FVGReaEla~Lr~VL~~~d~~-----~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vN 318 (550)
T PTZ00202 259 AVIRQFVSREAEESWVRQVLRRLDTA-----HPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVD 318 (550)
T ss_pred CCccCCCCcHHHHHHHHHHHhccCCC-----CceEEEEECCCCCCHHHHHHHHHhcCCceEEEEC
Confidence 34578999999888888776543221 1245789999999999999999988875544444
No 389
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=96.65 E-value=0.002 Score=57.16 Aligned_cols=27 Identities=26% Similarity=0.475 Sum_probs=24.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLD 414 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~ 414 (466)
..++|.|+.|+|||++++.+++.+|.+
T Consensus 23 ~~i~l~G~lGaGKTtl~~~l~~~lg~~ 49 (133)
T TIGR00150 23 TVVLLKGDLGAGKTTLVQGLLQGLGIQ 49 (133)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence 358899999999999999999999754
No 390
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a
Probab=96.63 E-value=0.0038 Score=58.96 Aligned_cols=20 Identities=25% Similarity=0.547 Sum_probs=19.0
Q ss_pred cccccCCCCCCchHHHHHHH
Q 012305 389 NMLFYGPPGTGKTMVAREIA 408 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA 408 (466)
.++|+||+|+|||++.+.|+
T Consensus 30 ~~~ltG~Ng~GKStll~~i~ 49 (200)
T cd03280 30 VLVITGPNAGGKTVTLKTLG 49 (200)
T ss_pred EEEEECCCCCChHHHHHHHH
Confidence 59999999999999999998
No 391
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=96.61 E-value=0.00085 Score=67.14 Aligned_cols=23 Identities=48% Similarity=0.676 Sum_probs=21.6
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
.++|+|||||||||+|+.|+..+
T Consensus 4 liil~G~pGSGKSTla~~L~~~~ 26 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAAKN 26 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHC
Confidence 57889999999999999999988
No 392
>PRK01184 hypothetical protein; Provisional
Probab=96.60 E-value=0.0011 Score=61.49 Aligned_cols=28 Identities=32% Similarity=0.536 Sum_probs=23.2
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
.|+|+||||+||||+++ ++..+|.+++.
T Consensus 3 ~i~l~G~~GsGKsT~a~-~~~~~g~~~i~ 30 (184)
T PRK01184 3 IIGVVGMPGSGKGEFSK-IAREMGIPVVV 30 (184)
T ss_pred EEEEECCCCCCHHHHHH-HHHHcCCcEEE
Confidence 47899999999999997 77888876544
No 393
>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=96.59 E-value=0.0013 Score=51.26 Aligned_cols=22 Identities=32% Similarity=0.596 Sum_probs=20.5
Q ss_pred ccccCCCCCCchHHHHHHHHhh
Q 012305 390 MLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l 411 (466)
+.|.|+||+|||++++.|+..+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999999999986
No 394
>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru
Probab=96.59 E-value=0.0031 Score=59.60 Aligned_cols=22 Identities=36% Similarity=0.484 Sum_probs=19.8
Q ss_pred ccccccCCCCCCchHHHHHHHH
Q 012305 388 RNMLFYGPPGTGKTMVAREIAR 409 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~ 409 (466)
..++|+||+|+|||++.+.|+.
T Consensus 30 ~~~~l~G~Ng~GKStll~~i~~ 51 (202)
T cd03243 30 RLLLITGPNMGGKSTYLRSIGL 51 (202)
T ss_pred eEEEEECCCCCccHHHHHHHHH
Confidence 3589999999999999999983
No 395
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.58 E-value=0.0017 Score=67.33 Aligned_cols=25 Identities=32% Similarity=0.518 Sum_probs=20.6
Q ss_pred cccccccCCCCCCchHHHHHHHHhh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+.|.|+||+|+||||+.-.||..+
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~ 227 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARY 227 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHH
Confidence 4679999999999999877776655
No 396
>PRK14526 adenylate kinase; Provisional
Probab=96.57 E-value=0.0013 Score=63.05 Aligned_cols=27 Identities=30% Similarity=0.674 Sum_probs=23.7
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
+++|+||||||||++++.|+..++..+
T Consensus 2 ~i~l~G~pGsGKsT~a~~La~~~~~~~ 28 (211)
T PRK14526 2 KLVFLGPPGSGKGTIAKILSNELNYYH 28 (211)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCce
Confidence 488999999999999999999887543
No 397
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=96.57 E-value=0.00093 Score=60.75 Aligned_cols=26 Identities=31% Similarity=0.567 Sum_probs=20.4
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
|.|+|+||||||||++.|+.. |.+++
T Consensus 2 I~i~G~~stGKTTL~~~L~~~-g~~~v 27 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR-GYPVV 27 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH-T-EEE
T ss_pred EEEECCCCCCHHHHHHHHHHc-CCeEE
Confidence 789999999999999999988 76644
No 398
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=96.57 E-value=0.0013 Score=59.79 Aligned_cols=28 Identities=43% Similarity=0.680 Sum_probs=25.2
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
|.|+|+||+|||++++.|+..+|.+++.
T Consensus 3 I~i~G~~GSGKstia~~la~~lg~~~~~ 30 (171)
T TIGR02173 3 ITISGPPGSGKTTVAKILAEKLSLKLIS 30 (171)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCceec
Confidence 7899999999999999999999877654
No 399
>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=96.55 E-value=0.0018 Score=67.20 Aligned_cols=23 Identities=30% Similarity=0.447 Sum_probs=21.2
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+|++||||+||||+.+++..+.
T Consensus 151 lilI~G~TGSGKTT~l~al~~~i 173 (372)
T TIGR02525 151 LGLICGETGSGKSTLAASIYQHC 173 (372)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 58999999999999999998776
No 400
>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=96.55 E-value=0.0014 Score=73.68 Aligned_cols=71 Identities=24% Similarity=0.412 Sum_probs=41.2
Q ss_pred cccccCCCCCCchHHHHHHHHhh---C--CcchhhcCCCc-----ccchhHHHHHHHHHHhhhhh---------ccCceE
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---G--LDYAMMTGGDV-----APLGAQAVTKIHEIFDWAKK---------SKKGLL 449 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~--~~~~~v~~~~l-----~~~~~e~~~~l~~lf~~A~~---------~~~~~i 449 (466)
.++|+|+||||||+++++|...+ + ..++.+....- ....+.....++.++.+... ....++
T Consensus 340 ~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~~~~~~~~~~~~~~l 419 (720)
T TIGR01448 340 VVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDTFRHNHLEDPIDCDL 419 (720)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCccccHHHHhhccCCccchhhhhccccCCE
Confidence 58999999999999999997655 3 23222211100 00001112345666654221 123589
Q ss_pred EEeccccccc
Q 012305 450 LFIDEADAFL 459 (466)
Q Consensus 450 LflDEid~l~ 459 (466)
|+|||+..+.
T Consensus 420 lIvDEaSMvd 429 (720)
T TIGR01448 420 LIVDESSMMD 429 (720)
T ss_pred EEEeccccCC
Confidence 9999998764
No 401
>PRK03846 adenylylsulfate kinase; Provisional
Probab=96.54 E-value=0.0027 Score=59.81 Aligned_cols=35 Identities=26% Similarity=0.489 Sum_probs=27.3
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~ 422 (466)
..+.|+|+||+|||++++.|+..+ |...+.+++.+
T Consensus 25 ~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~ 62 (198)
T PRK03846 25 VVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDN 62 (198)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEe
Confidence 468899999999999999999977 34455555543
No 402
>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=96.54 E-value=0.0025 Score=62.88 Aligned_cols=37 Identities=22% Similarity=0.273 Sum_probs=26.4
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG 420 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~ 420 (466)
+.|. ..+|++||||||||+++..++... |.+++.++.
T Consensus 32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~ 72 (259)
T TIGR03878 32 GIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTV 72 (259)
T ss_pred CeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEe
Confidence 4444 458889999999999999886543 555555544
No 403
>PRK00889 adenylylsulfate kinase; Provisional
Probab=96.52 E-value=0.0014 Score=60.32 Aligned_cols=35 Identities=34% Similarity=0.578 Sum_probs=27.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~ 422 (466)
..++|+|+||+|||++++.|+..+ |.++..++++.
T Consensus 5 ~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~ 42 (175)
T PRK00889 5 VTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDA 42 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcc
Confidence 358899999999999999999887 44555565543
No 404
>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=96.52 E-value=0.0023 Score=66.09 Aligned_cols=24 Identities=25% Similarity=0.441 Sum_probs=21.9
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
..++++||+|+||||+.+++.+.+
T Consensus 135 glilI~GpTGSGKTTtL~aLl~~i 158 (358)
T TIGR02524 135 GIVFITGATGSGKSTLLAAIIREL 158 (358)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHH
Confidence 469999999999999999998876
No 405
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=96.51 E-value=0.0018 Score=66.46 Aligned_cols=68 Identities=16% Similarity=0.213 Sum_probs=42.3
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc----------ccch-------hHHHHHHHHHHhhhhhccCceEE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV----------APLG-------AQAVTKIHEIFDWAKKSKKGLLL 450 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l----------~~~~-------~e~~~~l~~lf~~A~~~~~~~iL 450 (466)
++++|.|++|+|||++.+++...+....-.+...+. ..+. +...-.+..++..+-+.+ ++.|
T Consensus 179 ~~ili~G~tGsGKTTll~al~~~i~~~~riv~iEd~~El~~~~~~~~~l~~r~~~~~g~~~~t~~~ll~~aLR~~-PD~I 257 (340)
T TIGR03819 179 LAFLISGGTGSGKTTLLSALLALVAPDERIVLVEDAAELRPDHPHVVRLEARPANVEGAGAVTLTDLVRQALRMR-PDRI 257 (340)
T ss_pred CeEEEECCCCCCHHHHHHHHHccCCCCCcEEEECCcceecCCCCCeeeEEeccccccCcCccCHHHHHHHHhccC-CCeE
Confidence 469999999999999999998877322111111111 0110 011123456666666666 7899
Q ss_pred Eecccc
Q 012305 451 FIDEAD 456 (466)
Q Consensus 451 flDEid 456 (466)
++.||-
T Consensus 258 ivGEiR 263 (340)
T TIGR03819 258 VVGEVR 263 (340)
T ss_pred EEeCcC
Confidence 999985
No 406
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=96.48 E-value=0.0043 Score=61.62 Aligned_cols=68 Identities=16% Similarity=0.336 Sum_probs=34.1
Q ss_pred cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc-----cchhHHH----HHHHHHHhhhhhccCceEEEecccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA-----PLGAQAV----TKIHEIFDWAKKSKKGLLLFIDEAD 456 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~-----~~~~e~~----~~l~~lf~~A~~~~~~~iLflDEid 456 (466)
-|+|+|.||+|||++|+.|...+ +..+..++..++. +...... +.+...+..+- ....|||||..-
T Consensus 3 Liil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~l--s~~~iVI~Dd~n 80 (270)
T PF08433_consen 3 LIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERAL--SKDTIVILDDNN 80 (270)
T ss_dssp EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHH--TT-SEEEE-S--
T ss_pred EEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhh--ccCeEEEEeCCc
Confidence 37899999999999999998876 4555554432221 1111122 33333333332 235799999765
Q ss_pred cc
Q 012305 457 AF 458 (466)
Q Consensus 457 ~l 458 (466)
.+
T Consensus 81 Yi 82 (270)
T PF08433_consen 81 YI 82 (270)
T ss_dssp -S
T ss_pred hH
Confidence 43
No 407
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=96.47 E-value=0.005 Score=57.85 Aligned_cols=24 Identities=21% Similarity=0.256 Sum_probs=20.9
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+|++||++|.|||+.|-.++-..
T Consensus 23 g~v~v~~g~GkGKtt~a~g~a~ra 46 (191)
T PRK05986 23 GLLIVHTGNGKGKSTAAFGMALRA 46 (191)
T ss_pred CeEEEECCCCCChHHHHHHHHHHH
Confidence 469999999999999999886554
No 408
>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=96.46 E-value=0.002 Score=61.36 Aligned_cols=23 Identities=39% Similarity=0.553 Sum_probs=18.4
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+.+.||+|||||++|-+.|-++
T Consensus 21 ~v~~~G~AGTGKT~LA~a~Al~~ 43 (205)
T PF02562_consen 21 LVIVNGPAGTGKTFLALAAALEL 43 (205)
T ss_dssp EEEEE--TTSSTTHHHHHHHHHH
T ss_pred eEEEECCCCCcHHHHHHHHHHHH
Confidence 48889999999999999988766
No 409
>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=96.46 E-value=0.0016 Score=60.03 Aligned_cols=23 Identities=30% Similarity=0.742 Sum_probs=20.4
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
|++|+|+||+||||+++.+...+
T Consensus 1 ~i~iTG~pG~GKTTll~k~i~~l 23 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLLKKVIEEL 23 (168)
T ss_dssp EEEEES-TTSSHHHHHHHHHHHH
T ss_pred CEEEECcCCCCHHHHHHHHHHHh
Confidence 58999999999999999998887
No 410
>PRK14529 adenylate kinase; Provisional
Probab=96.44 E-value=0.0018 Score=62.50 Aligned_cols=28 Identities=32% Similarity=0.584 Sum_probs=25.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
+++|.||||+||||+++.|+..++.+++
T Consensus 2 ~I~l~G~PGsGK~T~a~~La~~~~~~~i 29 (223)
T PRK14529 2 NILIFGPNGSGKGTQGALVKKKYDLAHI 29 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHCCCCc
Confidence 4889999999999999999999987654
No 411
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=96.43 E-value=0.0052 Score=59.08 Aligned_cols=23 Identities=26% Similarity=0.426 Sum_probs=20.0
Q ss_pred ccccccCCCCCCchHHHHHHHHh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARK 410 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~ 410 (466)
.-+.|+||||||||+++..++..
T Consensus 20 ~i~~i~G~~GsGKT~l~~~l~~~ 42 (235)
T cd01123 20 SITEIFGEFGSGKTQLCHQLAVT 42 (235)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 45789999999999999999754
No 412
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=96.43 E-value=0.0014 Score=61.16 Aligned_cols=27 Identities=19% Similarity=0.457 Sum_probs=23.7
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
.++|.||+|+||||+++.|+..++.+|
T Consensus 4 ~i~l~G~sGsGKsTl~~~l~~~~~~~~ 30 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAALRQREQTQL 30 (186)
T ss_pred EEEEECCCCCCHHHHHHHHhccCCCeE
Confidence 488999999999999999998876553
No 413
>PRK05818 DNA polymerase III subunit delta'; Validated
Probab=96.41 E-value=0.0026 Score=62.52 Aligned_cols=79 Identities=9% Similarity=-0.040 Sum_probs=46.1
Q ss_pred ccccccccCCCCCCchHHHHHHHHhhCCc-----------chhhc---CCCccc---ch-hHHHHHHHHHHhhhhh----
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKSGLD-----------YAMMT---GGDVAP---LG-AQAVTKIHEIFDWAKK---- 443 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l~~~-----------~~~v~---~~~l~~---~~-~e~~~~l~~lf~~A~~---- 443 (466)
++..+||+||+|+||..+|..+|..+-.. ...+. .+|+-. .+ .-.+..++.+.+....
T Consensus 6 ~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~e 85 (261)
T PRK05818 6 KTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVE 85 (261)
T ss_pred CCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCchh
Confidence 34569999999999999999998877110 01111 222211 10 0112334444433221
Q ss_pred ccCceEEEeccccccccccCC
Q 012305 444 SKKGLLLFIDEADAFLCDNQD 464 (466)
Q Consensus 444 ~~~~~iLflDEid~l~~~r~~ 464 (466)
.+.+.|++||++|.|...-.|
T Consensus 86 ~~~~KV~II~~ae~m~~~AaN 106 (261)
T PRK05818 86 SNGKKIYIIYGIEKLNKQSAN 106 (261)
T ss_pred cCCCEEEEeccHhhhCHHHHH
Confidence 234689999999999765443
No 414
>PRK09354 recA recombinase A; Provisional
Probab=96.41 E-value=0.0039 Score=63.98 Aligned_cols=77 Identities=26% Similarity=0.311 Sum_probs=43.2
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------chh----------HHHHHHHHHHhhhhh
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LGA----------QAVTKIHEIFDWAKK 443 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~~----------e~~~~l~~lf~~A~~ 443 (466)
+.|. +-++||||||||||+|+-.++... |..++.++...... +|. .+......+.+..-+
T Consensus 56 Gip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~ 135 (349)
T PRK09354 56 GLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVR 135 (349)
T ss_pred CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence 4554 457799999999999998876544 44444444322100 000 011111122222222
Q ss_pred ccCceEEEecccccccc
Q 012305 444 SKKGLLLFIDEADAFLC 460 (466)
Q Consensus 444 ~~~~~iLflDEid~l~~ 460 (466)
....++||||=|-+|.+
T Consensus 136 s~~~~lIVIDSvaaL~~ 152 (349)
T PRK09354 136 SGAVDLIVVDSVAALVP 152 (349)
T ss_pred cCCCCEEEEeChhhhcc
Confidence 34478999999998875
No 415
>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=96.39 E-value=0.0036 Score=59.79 Aligned_cols=28 Identities=29% Similarity=0.444 Sum_probs=22.1
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l 411 (466)
+.|. .-+.|+||||||||+++..++...
T Consensus 15 G~~~g~v~~I~G~~GsGKT~l~~~ia~~~ 43 (226)
T cd01393 15 GIPTGRITEIFGEFGSGKTQLCLQLAVEA 43 (226)
T ss_pred CCcCCcEEEEeCCCCCChhHHHHHHHHHh
Confidence 3343 357899999999999999997654
No 416
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=96.37 E-value=0.0048 Score=63.06 Aligned_cols=33 Identities=21% Similarity=0.358 Sum_probs=25.6
Q ss_pred cccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG 421 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~ 421 (466)
.|-|+||||+|||||+..|...+ |.++..++.+
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~D 93 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVD 93 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeC
Confidence 57899999999999999987776 5555555443
No 417
>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]
Probab=96.37 E-value=0.002 Score=73.13 Aligned_cols=71 Identities=25% Similarity=0.387 Sum_probs=48.9
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc--chh------HHHHHHHHHH---hhhh-hccCceEEEeccccc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP--LGA------QAVTKIHEIF---DWAK-KSKKGLLLFIDEADA 457 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~--~~~------e~~~~l~~lf---~~A~-~~~~~~iLflDEid~ 457 (466)
+|++||||+|||+.+..+|..+|+.++.+|.++.-. .+. .+...+.+.| .... ......||++||+|.
T Consensus 360 ~l~~G~pGigKT~~~h~~~k~~g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~ 439 (871)
T KOG1968|consen 360 LLLSGPPGIGKTTAAHKAAKELGFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDG 439 (871)
T ss_pred HHhcCCCCCCchhhHhhhhhhcccceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEecccc
Confidence 689999999999999999999999999999887521 000 0111223333 1111 123346999999999
Q ss_pred ccc
Q 012305 458 FLC 460 (466)
Q Consensus 458 l~~ 460 (466)
++.
T Consensus 440 ~~~ 442 (871)
T KOG1968|consen 440 MFG 442 (871)
T ss_pred ccc
Confidence 986
No 418
>PLN02459 probable adenylate kinase
Probab=96.37 E-value=0.0019 Score=63.64 Aligned_cols=27 Identities=33% Similarity=0.578 Sum_probs=24.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
+++|.||||+|||+++..|+..+|..+
T Consensus 31 ~ii~~G~PGsGK~T~a~~la~~~~~~~ 57 (261)
T PLN02459 31 NWVFLGCPGVGKGTYASRLSKLLGVPH 57 (261)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcE
Confidence 488899999999999999999987653
No 419
>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=96.37 E-value=0.0035 Score=67.33 Aligned_cols=92 Identities=16% Similarity=0.224 Sum_probs=50.3
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCcccc--------
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAPL-------- 426 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~~-------- 426 (466)
.|+++-..++....+..++. .+..-+||+||+|+||||+..++...+..+ .-.++..|...+
T Consensus 220 ~l~~Lg~~~~~~~~l~~~~~---------~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~~~~~~q~ 290 (486)
T TIGR02533 220 DLETLGMSPELLSRFERLIR---------RPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQIEGIGQI 290 (486)
T ss_pred CHHHcCCCHHHHHHHHHHHh---------cCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeeecCCCceE
Confidence 45556455666666655421 122248999999999999999887776422 222333222110
Q ss_pred --hhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305 427 --GAQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 427 --~~e~~~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
..........+...+-+.. +++|++.||-.
T Consensus 291 ~v~~~~g~~f~~~lr~~LR~d-PDvI~vGEiRd 322 (486)
T TIGR02533 291 QVNPKIGLTFAAGLRAILRQD-PDIIMVGEIRD 322 (486)
T ss_pred EEccccCccHHHHHHHHHhcC-CCEEEEeCCCC
Confidence 0000011223333333344 79999999854
No 420
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=96.36 E-value=0.0059 Score=56.96 Aligned_cols=19 Identities=26% Similarity=0.538 Sum_probs=18.0
Q ss_pred ccccCCCCCCchHHHHHHH
Q 012305 390 MLFYGPPGTGKTMVAREIA 408 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA 408 (466)
++|+||.|+|||++.+.++
T Consensus 2 ~~ltG~N~~GKst~l~~i~ 20 (185)
T smart00534 2 VIITGPNMGGKSTYLRQVG 20 (185)
T ss_pred EEEECCCCCcHHHHHHHHH
Confidence 6899999999999999997
No 421
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=96.35 E-value=0.0019 Score=61.10 Aligned_cols=27 Identities=37% Similarity=0.535 Sum_probs=24.3
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
-++++|+||+|||++++.|+..+|..+
T Consensus 5 ~i~i~G~~G~GKst~a~~l~~~~~~~~ 31 (197)
T PRK12339 5 IHFIGGIPGVGKTSISGYIARHRAIDI 31 (197)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence 588999999999999999999987654
No 422
>PRK05541 adenylylsulfate kinase; Provisional
Probab=96.35 E-value=0.0022 Score=59.04 Aligned_cols=25 Identities=24% Similarity=0.401 Sum_probs=22.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhhC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
..++|+|+||+|||++++.|+..+.
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l~ 32 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLK 32 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 4689999999999999999998884
No 423
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=96.33 E-value=0.0048 Score=64.68 Aligned_cols=27 Identities=19% Similarity=0.332 Sum_probs=24.9
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLD 414 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~ 414 (466)
+.|+|+|++|||||||++.|+..+|..
T Consensus 220 ~~IvI~G~~gsGKTTL~~~La~~~g~~ 246 (399)
T PRK08099 220 RTVAILGGESSGKSTLVNKLANIFNTT 246 (399)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence 579999999999999999999998765
No 424
>PRK05480 uridine/cytidine kinase; Provisional
Probab=96.32 E-value=0.0022 Score=60.75 Aligned_cols=35 Identities=29% Similarity=0.320 Sum_probs=26.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhhC-CcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSG-LDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~-~~~~~v~~~~ 422 (466)
..|.|.||||||||||++.|+..++ ..+..++.++
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~D~ 42 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQDS 42 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeCCc
Confidence 3588999999999999999999883 3344444443
No 425
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=96.32 E-value=0.0018 Score=61.59 Aligned_cols=31 Identities=39% Similarity=0.580 Sum_probs=24.2
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~ 419 (466)
-++|+||||||||.+|-.+|+.+|.+++..+
T Consensus 3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~D 33 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALAIALAQKTGAPVISLD 33 (233)
T ss_dssp EEEEE-STTSSHHHHHHHHHHHH--EEEEE-
T ss_pred EEEEECCCCCChhHHHHHHHHHhCCCEEEec
Confidence 4789999999999999999999988876654
No 426
>PRK10436 hypothetical protein; Provisional
Probab=96.32 E-value=0.0038 Score=66.55 Aligned_cols=92 Identities=14% Similarity=0.205 Sum_probs=50.8
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCcccch-------
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAPLG------- 427 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~~~------- 427 (466)
+|+++-..+.....+..++ ..|...+|++||+|+||||+..++...++.+ .-.++..|...+.
T Consensus 196 ~L~~LG~~~~~~~~l~~~~---------~~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~l~gi~Q~ 266 (462)
T PRK10436 196 DLETLGMTPAQLAQFRQAL---------QQPQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPLAGINQT 266 (462)
T ss_pred CHHHcCcCHHHHHHHHHHH---------HhcCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccccCCCcceE
Confidence 4555544455555555442 1233459999999999999998877766322 1123333322111
Q ss_pred ---hHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305 428 ---AQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 428 ---~e~~~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
.........++..+-+.. +++|+|.||-.
T Consensus 267 ~v~~~~g~~f~~~lr~~LR~d-PDvI~vGEIRD 298 (462)
T PRK10436 267 QIHPKAGLTFQRVLRALLRQD-PDVIMVGEIRD 298 (462)
T ss_pred eeCCccCcCHHHHHHHHhcCC-CCEEEECCCCC
Confidence 011112333444444344 79999999854
No 427
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=96.31 E-value=0.0029 Score=56.65 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=21.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
..+.|.||+|+|||+|.+.|+...
T Consensus 27 e~~~i~G~nGsGKStLl~~l~G~~ 50 (144)
T cd03221 27 DRIGLVGRNGAGKSTLLKLIAGEL 50 (144)
T ss_pred CEEEEECCCCCCHHHHHHHHcCCC
Confidence 458899999999999999998876
No 428
>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=96.29 E-value=0.0031 Score=60.52 Aligned_cols=35 Identities=31% Similarity=0.369 Sum_probs=26.5
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~ 422 (466)
..++++||||||||+++..++... |.+++.+++..
T Consensus 21 ~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~ 58 (229)
T TIGR03881 21 FFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEE 58 (229)
T ss_pred eEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccC
Confidence 468999999999999999876533 55666666543
No 429
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=96.29 E-value=0.0041 Score=56.77 Aligned_cols=24 Identities=17% Similarity=0.290 Sum_probs=21.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
..+.|.||+|+|||+|.+.|+...
T Consensus 27 e~~~l~G~nGsGKSTLl~~i~G~~ 50 (163)
T cd03216 27 EVHALLGENGAGKSTLMKILSGLY 50 (163)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC
Confidence 468899999999999999998876
No 430
>PLN02199 shikimate kinase
Probab=96.28 E-value=0.0025 Score=63.83 Aligned_cols=31 Identities=29% Similarity=0.476 Sum_probs=27.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v 418 (466)
++|+|+|.+|||||++++.|+..+|++|+..
T Consensus 103 ~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDt 133 (303)
T PLN02199 103 RSMYLVGMMGSGKTTVGKLMSKVLGYTFFDC 133 (303)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHhCCCEEeh
Confidence 4799999999999999999999999887643
No 431
>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=96.26 E-value=0.0024 Score=58.85 Aligned_cols=24 Identities=21% Similarity=0.365 Sum_probs=21.6
Q ss_pred cccccCCCCCCchHHHHHHHHhhC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
.++|+||||+|||++++.|+..++
T Consensus 3 ~~~i~G~sGsGKttl~~~l~~~~~ 26 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYARARLA 26 (179)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcC
Confidence 378999999999999999998774
No 432
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=96.26 E-value=0.0014 Score=76.76 Aligned_cols=71 Identities=24% Similarity=0.447 Sum_probs=47.2
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----chhHHHHHHHHHHhh-----hhhccCceEEEecccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----LGAQAVTKIHEIFDW-----AKKSKKGLLLFIDEADAF 458 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----~~~e~~~~l~~lf~~-----A~~~~~~~iLflDEid~l 458 (466)
+++||-|.||+|||+++.+||+..|...+.||.++-.. +|.+....-.+-|.| ....+.|+-|+|||+.-.
T Consensus 1544 kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQTdL~DLfGsd~Pve~~Gef~w~dapfL~amr~G~WVlLDEiNLa 1623 (4600)
T COG5271 1544 KPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDLPVEEGGEFRWMDAPFLHAMRDGGWVLLDEINLA 1623 (4600)
T ss_pred CceeecCCCCccHHHHHHHHHHHhcCceEEeeccccchHHHHhCCCCCcccCceeEecccHHHHHhhcCCEEEeehhhhh
Confidence 45999999999999999999999999988888654321 111111111122333 122345889999998653
No 433
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=96.25 E-value=0.0031 Score=62.05 Aligned_cols=40 Identities=30% Similarity=0.462 Sum_probs=30.5
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV 423 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l 423 (466)
+.|. +.+|++|+||||||+|+..++... |.+++.++....
T Consensus 19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~ 62 (260)
T COG0467 19 GLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEES 62 (260)
T ss_pred CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCC
Confidence 3343 568999999999999998886655 677777776554
No 434
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=96.24 E-value=0.0035 Score=58.32 Aligned_cols=23 Identities=35% Similarity=0.489 Sum_probs=21.1
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
.+.|.||+|+|||||.+.|+...
T Consensus 27 ~~~l~G~nGsGKSTLl~~l~Gl~ 49 (177)
T cd03222 27 VIGIVGPNGTGKTTAVKILAGQL 49 (177)
T ss_pred EEEEECCCCChHHHHHHHHHcCC
Confidence 58899999999999999999876
No 435
>PRK13808 adenylate kinase; Provisional
Probab=96.24 E-value=0.0025 Score=64.95 Aligned_cols=29 Identities=28% Similarity=0.621 Sum_probs=25.1
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAM 417 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~ 417 (466)
.|+|+||||+|||+++..|+..+|..++.
T Consensus 2 rIiv~GpPGSGK~T~a~~LA~~ygl~~is 30 (333)
T PRK13808 2 RLILLGPPGAGKGTQAQRLVQQYGIVQLS 30 (333)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence 48999999999999999999999765443
No 436
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.23 E-value=0.0063 Score=60.43 Aligned_cols=73 Identities=16% Similarity=0.265 Sum_probs=46.2
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc--c---------------chhHHHHHHHHHHhhhhhccCc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA--P---------------LGAQAVTKIHEIFDWAKKSKKG 447 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~--~---------------~~~e~~~~l~~lf~~A~~~~~~ 447 (466)
..++|+||+|+|||+++..|+..+ +..+..++++... . ........+...+..+......
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~ 155 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV 155 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCC
Confidence 469999999999999999998776 3444445443321 0 0001223344445544433447
Q ss_pred eEEEecccccccc
Q 012305 448 LLLFIDEADAFLC 460 (466)
Q Consensus 448 ~iLflDEid~l~~ 460 (466)
++||||..+....
T Consensus 156 D~ViIDt~Gr~~~ 168 (270)
T PRK06731 156 DYILIDTAGKNYR 168 (270)
T ss_pred CEEEEECCCCCcC
Confidence 9999999988753
No 437
>PF14516 AAA_35: AAA-like domain
Probab=96.23 E-value=0.0052 Score=62.85 Aligned_cols=73 Identities=22% Similarity=0.257 Sum_probs=48.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh--------------------------------HHHH
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA--------------------------------QAVT 432 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~--------------------------------e~~~ 432 (466)
..+.++||..+|||++...+...+ |+.++.+++..+..... .+..
T Consensus 32 ~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~ 111 (331)
T PF14516_consen 32 SYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGSKI 111 (331)
T ss_pred CEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCChh
Confidence 358999999999999999887666 67777777655422000 0111
Q ss_pred HHHHHHhh--hhhccCceEEEecccccccc
Q 012305 433 KIHEIFDW--AKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 433 ~l~~lf~~--A~~~~~~~iLflDEid~l~~ 460 (466)
.....|+. ......+.||||||||.++.
T Consensus 112 ~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~ 141 (331)
T PF14516_consen 112 SCTEYFEEYLLKQIDKPLVLFIDEIDRLFE 141 (331)
T ss_pred hHHHHHHHHHHhcCCCCEEEEEechhhhcc
Confidence 22333332 23345589999999999875
No 438
>PRK07667 uridine kinase; Provisional
Probab=96.23 E-value=0.0041 Score=58.50 Aligned_cols=34 Identities=18% Similarity=0.301 Sum_probs=27.2
Q ss_pred cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD 422 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~ 422 (466)
-|.|.|+||+|||++++.|+..+ |.++..++.++
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd 55 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD 55 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence 47799999999999999999887 34555565555
No 439
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=96.22 E-value=0.0022 Score=59.63 Aligned_cols=34 Identities=26% Similarity=0.509 Sum_probs=26.2
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV 423 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l 423 (466)
|.|.|+||||||++|+.|+..+ |.++..++.+++
T Consensus 2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf 38 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDY 38 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhc
Confidence 6789999999999999999987 344555544443
No 440
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.22 E-value=0.008 Score=63.27 Aligned_cols=24 Identities=29% Similarity=0.541 Sum_probs=21.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
..+.|+||+|+||||++..|+..+
T Consensus 192 ~vi~lvGpnG~GKTTtlakLA~~~ 215 (420)
T PRK14721 192 GVYALIGPTGVGKTTTTAKLAARA 215 (420)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHH
Confidence 458899999999999999998754
No 441
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=96.21 E-value=0.0089 Score=61.29 Aligned_cols=74 Identities=23% Similarity=0.340 Sum_probs=48.1
Q ss_pred ccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc----------------c-----chh--HHHHHHHHHHhh--
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA----------------P-----LGA--QAVTKIHEIFDW-- 440 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~----------------~-----~~~--e~~~~l~~lf~~-- 440 (466)
.+.+|.|||.+|||||.+.+.+-+.++.+.+.++|-+-. + ..+ +.......+|..
T Consensus 29 ~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~ 108 (438)
T KOG2543|consen 29 IPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLADKDGDKVEGDAENFSDFIYLLVQWP 108 (438)
T ss_pred cceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhccCCCchhhhhhHHHHHHHHHHHHHhhH
Confidence 345689999999999999999999998777666653321 1 011 222333333333
Q ss_pred -hhhccCceEEEeccccccc
Q 012305 441 -AKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 441 -A~~~~~~~iLflDEid~l~ 459 (466)
+.+......||||.+|.+-
T Consensus 109 ~~t~~d~~~~liLDnad~lr 128 (438)
T KOG2543|consen 109 AATNRDQKVFLILDNADALR 128 (438)
T ss_pred HhhccCceEEEEEcCHHhhh
Confidence 2222236889999999874
No 442
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=96.16 E-value=0.0088 Score=55.40 Aligned_cols=71 Identities=21% Similarity=0.275 Sum_probs=42.3
Q ss_pred cccccCCCCCCchHHHHHHHHhh---CCcchhh---cC----CCc----------c------cc----hhHHHHHHHHHH
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMM---TG----GDV----------A------PL----GAQAVTKIHEIF 438 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v---~~----~~l----------~------~~----~~e~~~~l~~lf 438 (466)
-+.+|+++|.|||+.|-.++-.. |.+++.+ .+ +.. . .+ ..+........+
T Consensus 7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~ 86 (173)
T TIGR00708 7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAW 86 (173)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHH
Confidence 37788999999999999886655 5555332 11 110 0 00 001122344555
Q ss_pred hhhhh---ccCceEEEeccccccc
Q 012305 439 DWAKK---SKKGLLLFIDEADAFL 459 (466)
Q Consensus 439 ~~A~~---~~~~~iLflDEid~l~ 459 (466)
+.++. .+.+++|+||||-..+
T Consensus 87 ~~a~~~l~~~~~DlvVLDEi~~A~ 110 (173)
T TIGR00708 87 QHAKEMLADPELDLVLLDELTYAL 110 (173)
T ss_pred HHHHHHHhcCCCCEEEehhhHHHH
Confidence 55554 4568999999997543
No 443
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.16 E-value=0.0029 Score=59.84 Aligned_cols=23 Identities=39% Similarity=0.712 Sum_probs=21.6
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
-++|+|+||+|||++|+-|++.+
T Consensus 3 LiIlTGyPgsGKTtfakeLak~L 25 (261)
T COG4088 3 LIILTGYPGSGKTTFAKELAKEL 25 (261)
T ss_pred eEEEecCCCCCchHHHHHHHHHH
Confidence 47899999999999999999998
No 444
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=96.15 E-value=0.0029 Score=59.40 Aligned_cols=22 Identities=41% Similarity=0.530 Sum_probs=20.4
Q ss_pred ccccCCCCCCchHHHHHHHHhh
Q 012305 390 MLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l 411 (466)
+.|.||+||||||+++.|+..+
T Consensus 2 igi~G~~GsGKSTl~~~l~~~l 23 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQL 23 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5689999999999999999987
No 445
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.15 E-value=0.0061 Score=55.00 Aligned_cols=24 Identities=33% Similarity=0.522 Sum_probs=21.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l 411 (466)
..++|.||+|+|||+|.++|+..+
T Consensus 26 ~~~~i~G~nGsGKStll~~l~g~~ 49 (157)
T cd00267 26 EIVALVGPNGSGKSTLLRAIAGLL 49 (157)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC
Confidence 468899999999999999999876
No 446
>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=96.14 E-value=0.0071 Score=57.60 Aligned_cols=33 Identities=39% Similarity=0.632 Sum_probs=25.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG 420 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~ 420 (466)
..++++||||||||+++..++... |.+++.++.
T Consensus 20 ~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~ 55 (218)
T cd01394 20 TVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT 55 (218)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 347899999999999999998765 455555544
No 447
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=96.13 E-value=0.004 Score=60.49 Aligned_cols=35 Identities=23% Similarity=0.391 Sum_probs=27.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~ 422 (466)
..+|++||||||||+++..++... |.+++.++...
T Consensus 22 s~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee 59 (237)
T TIGR03877 22 NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE 59 (237)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC
Confidence 568999999999999998765432 66777776654
No 448
>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=96.12 E-value=0.0092 Score=56.78 Aligned_cols=23 Identities=30% Similarity=0.413 Sum_probs=19.7
Q ss_pred ccccccCCCCCCchHHHHHHHHh
Q 012305 388 RNMLFYGPPGTGKTMVAREIARK 410 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~ 410 (466)
+.++|+||+|+|||++.+.++..
T Consensus 30 ~~~~l~G~n~~GKstll~~i~~~ 52 (204)
T cd03282 30 RFHIITGPNMSGKSTYLKQIALL 52 (204)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 35899999999999999999643
No 449
>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=96.10 E-value=0.0056 Score=67.09 Aligned_cols=92 Identities=13% Similarity=0.167 Sum_probs=50.4
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCcccc--------
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAPL-------- 426 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~~-------- 426 (466)
.|+++-..+.....+..+.. .+...|||+||+|+||||+..++.+.++.+ .-.++..|...+
T Consensus 294 ~l~~lg~~~~~~~~l~~~~~---------~~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~~~~~~q~ 364 (564)
T TIGR02538 294 DIDKLGFEPDQKALFLEAIH---------KPQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEINLPGINQV 364 (564)
T ss_pred CHHHcCCCHHHHHHHHHHHH---------hcCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceecCCCceEE
Confidence 34555445555555554321 122358999999999999998887777422 112222222110
Q ss_pred --hhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305 427 --GAQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 427 --~~e~~~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
..+.......++..+-+.. +++|++.||-.
T Consensus 365 ~v~~~~g~~~~~~l~~~LR~d-PDvI~vGEiRd 396 (564)
T TIGR02538 365 NVNPKIGLTFAAALRSFLRQD-PDIIMVGEIRD 396 (564)
T ss_pred EeccccCCCHHHHHHHHhccC-CCEEEeCCCCC
Confidence 1111112334444444444 79999999864
No 450
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=96.10 E-value=0.0055 Score=59.13 Aligned_cols=26 Identities=27% Similarity=0.350 Sum_probs=22.4
Q ss_pred cccccccCCCCCCchHHHHHHHHhhC
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
+.-+.|.||+|+|||||++.|+..+.
T Consensus 33 ~~iigi~G~~GsGKTTl~~~L~~~l~ 58 (229)
T PRK09270 33 RTIVGIAGPPGAGKSTLAEFLEALLQ 58 (229)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHhh
Confidence 34577899999999999999998873
No 451
>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=96.10 E-value=0.0087 Score=57.74 Aligned_cols=22 Identities=27% Similarity=0.360 Sum_probs=19.8
Q ss_pred ccccccCCCCCCchHHHHHHHH
Q 012305 388 RNMLFYGPPGTGKTMVAREIAR 409 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~ 409 (466)
..++|+||+|+|||++.+.++.
T Consensus 32 ~~~~itG~N~~GKStll~~i~~ 53 (222)
T cd03287 32 YCQIITGPNMGGKSSYIRQVAL 53 (222)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 3589999999999999999977
No 452
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=96.09 E-value=0.0087 Score=65.55 Aligned_cols=50 Identities=16% Similarity=0.236 Sum_probs=33.0
Q ss_pred CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC
Q 012305 358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL 413 (466)
Q Consensus 358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~ 413 (466)
......+++.+.|... . ..+. . ....|+|+|+||||||++++.|+..++.
T Consensus 369 P~~f~rpeV~~iL~~~---~-~~r~-~-~g~~Ivl~Gl~GSGKSTia~~La~~L~~ 418 (568)
T PRK05537 369 PEWFSFPEVVAELRRT---Y-PPRH-K-QGFTVFFTGLSGAGKSTIAKALMVKLME 418 (568)
T ss_pred ChhhcHHHHHHHHHHH---h-cccc-C-CCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence 3444556666655443 1 1111 1 1236889999999999999999998864
No 453
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=96.08 E-value=0.008 Score=51.16 Aligned_cols=21 Identities=24% Similarity=0.509 Sum_probs=19.5
Q ss_pred ccccCCCCCCchHHHHHHHHh
Q 012305 390 MLFYGPPGTGKTMVAREIARK 410 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~ 410 (466)
|+|.|+||+|||+|..+|.+.
T Consensus 2 V~iiG~~~~GKSTlin~l~~~ 22 (116)
T PF01926_consen 2 VAIIGRPNVGKSTLINALTGK 22 (116)
T ss_dssp EEEEESTTSSHHHHHHHHHTS
T ss_pred EEEECCCCCCHHHHHHHHhcc
Confidence 789999999999999999874
No 454
>PRK00300 gmk guanylate kinase; Provisional
Probab=96.08 E-value=0.0039 Score=58.71 Aligned_cols=25 Identities=20% Similarity=0.533 Sum_probs=22.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhhC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
..++|+||||||||++++.|+..++
T Consensus 6 ~~i~i~G~sGsGKstl~~~l~~~~~ 30 (205)
T PRK00300 6 LLIVLSGPSGAGKSTLVKALLERDP 30 (205)
T ss_pred CEEEEECCCCCCHHHHHHHHHhhCc
Confidence 4589999999999999999999875
No 455
>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=96.07 E-value=0.0033 Score=70.98 Aligned_cols=70 Identities=21% Similarity=0.277 Sum_probs=39.9
Q ss_pred cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------chhHHHHHHHHH-Hhhhh---hccCceEEEeccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LGAQAVTKIHEI-FDWAK---KSKKGLLLFIDEA 455 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~~e~~~~l~~l-f~~A~---~~~~~~iLflDEi 455 (466)
.++|.|+||||||++++++...+ |+.++.+......- .+.. ...++.+ ..+.. ...+..+|||||+
T Consensus 370 ~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~g~~-a~Ti~~~~~~~~~~~~~~~~~~llIvDEa 448 (744)
T TIGR02768 370 IAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAESGIE-SRTLASLEYAWANGRDLLSDKDVLVIDEA 448 (744)
T ss_pred EEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhccCCc-eeeHHHHHhhhccCcccCCCCcEEEEECc
Confidence 47899999999999999997554 55544332111110 1111 1123333 22211 1234689999999
Q ss_pred cccc
Q 012305 456 DAFL 459 (466)
Q Consensus 456 d~l~ 459 (466)
..+.
T Consensus 449 sMv~ 452 (744)
T TIGR02768 449 GMVG 452 (744)
T ss_pred ccCC
Confidence 8764
No 456
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=96.06 E-value=0.003 Score=60.64 Aligned_cols=37 Identities=30% Similarity=0.442 Sum_probs=24.9
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh----CCcchhhcC
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTG 420 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~ 420 (466)
+.|. ..+|++||||||||+++..++... |.+++.++.
T Consensus 15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ 56 (226)
T PF06745_consen 15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF 56 (226)
T ss_dssp SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES
T ss_pred CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe
Confidence 3444 468899999999999998775333 556555553
No 457
>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []. Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation
Probab=96.06 E-value=0.0056 Score=55.97 Aligned_cols=67 Identities=15% Similarity=0.217 Sum_probs=42.3
Q ss_pred cCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305 393 YGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ 463 (466)
Q Consensus 393 ~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~ 463 (466)
.+.+||||||++.+|++-+|- +-.+..+++... ....-+..+.+.+.... ..+||+|==.++...|.
T Consensus 5 IAtiGCGKTTva~aL~~LFg~-wgHvQnDnI~~k--~~~~f~~~~l~~L~~~~-~~vViaDRNNh~~reR~ 71 (168)
T PF08303_consen 5 IATIGCGKTTVALALSNLFGE-WGHVQNDNITGK--RKPKFIKAVLELLAKDT-HPVVIADRNNHQKRERK 71 (168)
T ss_pred ecCCCcCHHHHHHHHHHHcCC-CCccccCCCCCC--CHHHHHHHHHHHHhhCC-CCEEEEeCCCchHHHHH
Confidence 589999999999999999974 556666666432 22223334444442222 56888885555544443
No 458
>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=96.05 E-value=0.0066 Score=64.75 Aligned_cols=72 Identities=19% Similarity=0.289 Sum_probs=45.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--------chhH-------HHHHHHHHHhhhhhccCceE
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--------LGAQ-------AVTKIHEIFDWAKKSKKGLL 449 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--------~~~e-------~~~~l~~lf~~A~~~~~~~i 449 (466)
..+||+|+||+|||+|+..++... +.+++++++.+... ++.. ....+..+...+...+ +.+
T Consensus 95 svilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~~-~~~ 173 (454)
T TIGR00416 95 SLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEEN-PQA 173 (454)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhcC-CcE
Confidence 458899999999999999987665 45666666543211 0000 0122344444454444 789
Q ss_pred EEecccccccc
Q 012305 450 LFIDEADAFLC 460 (466)
Q Consensus 450 LflDEid~l~~ 460 (466)
||||-|..+..
T Consensus 174 vVIDSIq~l~~ 184 (454)
T TIGR00416 174 CVIDSIQTLYS 184 (454)
T ss_pred EEEecchhhcc
Confidence 99999988753
No 459
>PRK12338 hypothetical protein; Provisional
Probab=96.04 E-value=0.0037 Score=63.34 Aligned_cols=28 Identities=29% Similarity=0.425 Sum_probs=25.1
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
..+++.|+||||||++|+.||..+|..+
T Consensus 5 ~ii~i~G~sGsGKST~a~~la~~l~~~~ 32 (319)
T PRK12338 5 YVILIGSASGIGKSTIASELARTLNIKH 32 (319)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHCCCeE
Confidence 4688999999999999999999998754
No 460
>PRK08356 hypothetical protein; Provisional
Probab=96.03 E-value=0.0038 Score=58.73 Aligned_cols=31 Identities=26% Similarity=0.277 Sum_probs=23.7
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD 422 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~ 422 (466)
.++|+||||+||||+|+.|.. .|.+ .++.++
T Consensus 7 ~i~~~G~~gsGK~t~a~~l~~-~g~~--~is~~~ 37 (195)
T PRK08356 7 IVGVVGKIAAGKTTVAKFFEE-KGFC--RVSCSD 37 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHH-CCCc--EEeCCC
Confidence 478999999999999999964 5554 444444
No 461
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=96.03 E-value=0.014 Score=60.88 Aligned_cols=75 Identities=23% Similarity=0.332 Sum_probs=55.0
Q ss_pred cccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-----------------ch----hHHHHHHHHHHhh
Q 012305 385 APFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-----------------LG----AQAVTKIHEIFDW 440 (466)
Q Consensus 385 ~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-----------------~~----~e~~~~l~~lf~~ 440 (466)
.|+..|||+|--|+||||+|..||.++ |+.+..+.|+..-| ++ .+.+...+..++.
T Consensus 98 ~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ 177 (451)
T COG0541 98 KPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEK 177 (451)
T ss_pred CCCeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHH
Confidence 456779999999999999999999998 66666666554311 11 1234455777788
Q ss_pred hhhccCceEEEecccccccc
Q 012305 441 AKKSKKGLLLFIDEADAFLC 460 (466)
Q Consensus 441 A~~~~~~~iLflDEid~l~~ 460 (466)
++... +++|++|-++.+.-
T Consensus 178 ak~~~-~DvvIvDTAGRl~i 196 (451)
T COG0541 178 AKEEG-YDVVIVDTAGRLHI 196 (451)
T ss_pred HHHcC-CCEEEEeCCCcccc
Confidence 88655 79999999988753
No 462
>PTZ00121 MAEBL; Provisional
Probab=96.01 E-value=0.21 Score=58.51 Aligned_cols=19 Identities=11% Similarity=0.034 Sum_probs=9.5
Q ss_pred cCCCCCCchH-HHHHHHHhh
Q 012305 393 YGPPGTGKTM-VAREIARKS 411 (466)
Q Consensus 393 ~GppGTGKT~-lA~alA~~l 411 (466)
+|.---.+|- |+.+|...+
T Consensus 1963 sgtCS~eerk~LCCSISdYC 1982 (2084)
T PTZ00121 1963 SGNCSDEERKELCCSISDFC 1982 (2084)
T ss_pred CCCCChhhhhchhhhHHHHH
Confidence 5554444443 555555443
No 463
>PRK14737 gmk guanylate kinase; Provisional
Probab=96.01 E-value=0.0046 Score=57.98 Aligned_cols=25 Identities=12% Similarity=0.286 Sum_probs=22.0
Q ss_pred cccccccCCCCCCchHHHHHHHHhh
Q 012305 387 FRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
++-++|+||||+|||++++.|....
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~~~ 28 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLEEH 28 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhcC
Confidence 3458999999999999999998776
No 464
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=96.00 E-value=0.0034 Score=57.79 Aligned_cols=24 Identities=21% Similarity=0.542 Sum_probs=21.5
Q ss_pred ccccCCCCCCchHHHHHHHHhhCC
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGL 413 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~ 413 (466)
++|+||+|+|||++++.|+...+.
T Consensus 4 i~l~G~~GsGKsTl~~~L~~~~~~ 27 (180)
T TIGR03263 4 IVISGPSGVGKSTLVKALLEEDPN 27 (180)
T ss_pred EEEECCCCCCHHHHHHHHHccCcc
Confidence 789999999999999999987643
No 465
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=95.99 E-value=0.0045 Score=64.53 Aligned_cols=43 Identities=28% Similarity=0.429 Sum_probs=32.7
Q ss_pred CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305 356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l 411 (466)
+++|.-+.+.++++|..- . .++|+.||||.||||||.+||.++
T Consensus 245 ~ledY~L~dkl~eRL~er--------a-----eGILIAG~PGaGKsTFaqAlAefy 287 (604)
T COG1855 245 SLEDYGLSDKLKERLEER--------A-----EGILIAGAPGAGKSTFAQALAEFY 287 (604)
T ss_pred chhhcCCCHHHHHHHHhh--------h-----cceEEecCCCCChhHHHHHHHHHH
Confidence 444555566666666532 1 369999999999999999999988
No 466
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=95.96 E-value=0.012 Score=58.92 Aligned_cols=23 Identities=26% Similarity=0.404 Sum_probs=20.2
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
-+-|.|+||+|||+|...+.+.+
T Consensus 106 ~v~l~G~pGsGKTTLl~~l~~~l 128 (290)
T PRK10463 106 VLNLVSSPGSGKTTLLTETLMRL 128 (290)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 35688999999999999998876
No 467
>PLN02165 adenylate isopentenyltransferase
Probab=95.95 E-value=0.0046 Score=62.97 Aligned_cols=26 Identities=19% Similarity=0.440 Sum_probs=23.8
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLD 414 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~ 414 (466)
.++|.||||+|||+|+..||..++..
T Consensus 45 iivIiGPTGSGKStLA~~LA~~l~~e 70 (334)
T PLN02165 45 VVVIMGATGSGKSRLSVDLATRFPSE 70 (334)
T ss_pred EEEEECCCCCcHHHHHHHHHHHcCCc
Confidence 58999999999999999999998754
No 468
>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=95.91 E-value=0.0048 Score=67.76 Aligned_cols=23 Identities=35% Similarity=0.419 Sum_probs=19.2
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
.++|+|+||||||+++..|...+
T Consensus 162 ~~vitGgpGTGKTt~v~~ll~~l 184 (586)
T TIGR01447 162 FSLITGGPGTGKTTTVARLLLAL 184 (586)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHH
Confidence 48899999999999988875544
No 469
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=95.90 E-value=0.0088 Score=69.09 Aligned_cols=69 Identities=22% Similarity=0.231 Sum_probs=39.2
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------chhHHHHHHHHHHh-hhh---hccCceEEEecccc
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LGAQAVTKIHEIFD-WAK---KSKKGLLLFIDEAD 456 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~~e~~~~l~~lf~-~A~---~~~~~~iLflDEid 456 (466)
++|.|+||||||++.+.+...+ |+.++.+......- .|.. ...++.++. |.. ...+..||||||+.
T Consensus 365 ~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~tGi~-a~TI~sll~~~~~~~~~l~~~~vlIVDEAS 443 (988)
T PRK13889 365 GVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGGSGIA-SRTIASLEHGWGQGRDLLTSRDVLVIDEAG 443 (988)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhccCcc-hhhHHHHHhhhcccccccccCcEEEEECcc
Confidence 6799999999999988775543 55544332211110 1111 233444432 111 12345799999998
Q ss_pred ccc
Q 012305 457 AFL 459 (466)
Q Consensus 457 ~l~ 459 (466)
.+.
T Consensus 444 Mv~ 446 (988)
T PRK13889 444 MVG 446 (988)
T ss_pred cCC
Confidence 764
No 470
>PRK07132 DNA polymerase III subunit delta'; Validated
Probab=95.89 E-value=0.007 Score=61.02 Aligned_cols=75 Identities=7% Similarity=-0.053 Sum_probs=44.6
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcc-hhhcCCCcc----cc---hh-HHHHHHHHHHhhhhhc----cCceEEEecc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDY-AMMTGGDVA----PL---GA-QAVTKIHEIFDWAKKS----KKGLLLFIDE 454 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~-~~v~~~~l~----~~---~~-e~~~~l~~lf~~A~~~----~~~~iLflDE 454 (466)
..+||||+.|+||+.+++.++..+-+.. -.+..++.+ .+ |. -....++.+.+..... +.+.|++||+
T Consensus 19 haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~~~~~~~~~~~KvvII~~ 98 (299)
T PRK07132 19 HSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKLYFSSFVQSQKKILIIKN 98 (299)
T ss_pred eEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHhccCCcccCCceEEEEec
Confidence 4688999999999999999988872110 001111100 00 11 1234555555544332 2578999999
Q ss_pred cccccccc
Q 012305 455 ADAFLCDN 462 (466)
Q Consensus 455 id~l~~~r 462 (466)
+|.|...-
T Consensus 99 ~e~m~~~a 106 (299)
T PRK07132 99 IEKTSNSL 106 (299)
T ss_pred ccccCHHH
Confidence 99986543
No 471
>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]
Probab=95.89 E-value=0.0034 Score=67.62 Aligned_cols=68 Identities=25% Similarity=0.226 Sum_probs=41.2
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcchhhcCCC--cc---cchhHHHH----HHHHHHhhhhhccCceEEEeccccccc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD--VA---PLGAQAVT----KIHEIFDWAKKSKKGLLLFIDEADAFL 459 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~--l~---~~~~e~~~----~l~~lf~~A~~~~~~~iLflDEid~l~ 459 (466)
||||+|.|||||+-+.+.+++-+...++...-|. ++ +...+.++ .-.+.+-.|. ++|-+|||.|.|.
T Consensus 484 nvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~KdPvtrEWTLEaGALVLAD----kGvClIDEFDKMn 559 (854)
T KOG0477|consen 484 NVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRKDPVTREWTLEAGALVLAD----KGVCLIDEFDKMN 559 (854)
T ss_pred eEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEeeCCccceeeeccCeEEEcc----CceEEeehhhhhc
Confidence 8999999999999999999988755433322111 10 00111111 1122233333 6788999999996
Q ss_pred c
Q 012305 460 C 460 (466)
Q Consensus 460 ~ 460 (466)
.
T Consensus 560 d 560 (854)
T KOG0477|consen 560 D 560 (854)
T ss_pred c
Confidence 3
No 472
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=95.88 E-value=0.0044 Score=55.08 Aligned_cols=24 Identities=21% Similarity=0.531 Sum_probs=21.3
Q ss_pred ccccCCCCCCchHHHHHHHHhhCC
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGL 413 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~ 413 (466)
++|+||+|+|||++++.|+..+..
T Consensus 2 i~i~GpsGsGKstl~~~L~~~~~~ 25 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEEFDP 25 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhcCCc
Confidence 678999999999999999998643
No 473
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=95.85 E-value=0.0054 Score=56.91 Aligned_cols=25 Identities=24% Similarity=0.499 Sum_probs=22.8
Q ss_pred cccccCCCCCCchHHHHHHHHhhCC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGL 413 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~ 413 (466)
.++|+||+|+|||++++.|+..++.
T Consensus 5 ~i~l~G~sGsGKSTl~~~la~~l~~ 29 (176)
T PRK09825 5 SYILMGVSGSGKSLIGSKIAALFSA 29 (176)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCC
Confidence 4889999999999999999998865
No 474
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=95.84 E-value=0.0047 Score=57.99 Aligned_cols=23 Identities=35% Similarity=0.602 Sum_probs=21.3
Q ss_pred ccccCCCCCCchHHHHHHHHhhC
Q 012305 390 MLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~ 412 (466)
|.|.||||+||||||+.|+..++
T Consensus 2 IgI~G~sgSGKTTla~~L~~~L~ 24 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLAKRLAQILN 24 (194)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHT
T ss_pred EEEECCCCCCHHHHHHHHHHHhC
Confidence 56899999999999999999996
No 475
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=95.83 E-value=0.0052 Score=58.27 Aligned_cols=24 Identities=42% Similarity=0.520 Sum_probs=21.5
Q ss_pred cccccCCCCCCchHHHHHHHHhhC
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~ 412 (466)
-+.|.||+|+||||+++.|+..++
T Consensus 8 vi~I~G~sGsGKSTl~~~l~~~l~ 31 (207)
T TIGR00235 8 IIGIGGGSGSGKTTVARKIYEQLG 31 (207)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 477899999999999999998775
No 476
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=95.82 E-value=0.015 Score=57.08 Aligned_cols=25 Identities=24% Similarity=0.302 Sum_probs=21.7
Q ss_pred ccccccccCCCCCCchHHHHHHHHh
Q 012305 386 PFRNMLFYGPPGTGKTMVAREIARK 410 (466)
Q Consensus 386 p~~~vLl~GppGTGKT~lA~alA~~ 410 (466)
+..+|+|.|.+|+|||+++.+|.+.
T Consensus 30 ~~~~IllvG~tGvGKSSliNaLlg~ 54 (249)
T cd01853 30 FSLTILVLGKTGVGKSSTINSIFGE 54 (249)
T ss_pred CCeEEEEECCCCCcHHHHHHHHhCC
Confidence 3457999999999999999999764
No 477
>PRK04328 hypothetical protein; Provisional
Probab=95.82 E-value=0.0063 Score=59.63 Aligned_cols=35 Identities=23% Similarity=0.399 Sum_probs=26.5
Q ss_pred ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD 422 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~ 422 (466)
..+|++||||||||+|+..++... |.+.+.++...
T Consensus 24 s~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee 61 (249)
T PRK04328 24 NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEE 61 (249)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeC
Confidence 568899999999999988775442 56666666544
No 478
>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam
Probab=95.81 E-value=0.014 Score=55.93 Aligned_cols=22 Identities=32% Similarity=0.502 Sum_probs=19.5
Q ss_pred ccccccCCCCCCchHHHHHHHH
Q 012305 388 RNMLFYGPPGTGKTMVAREIAR 409 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~ 409 (466)
+-++|+||+|+|||++.+.++.
T Consensus 31 ~~~~l~Gpn~sGKstllr~i~~ 52 (216)
T cd03284 31 QILLITGPNMAGKSTYLRQVAL 52 (216)
T ss_pred eEEEEECCCCCChHHHHHHHHH
Confidence 3588999999999999999964
No 479
>PRK13975 thymidylate kinase; Provisional
Probab=95.81 E-value=0.0057 Score=57.07 Aligned_cols=26 Identities=35% Similarity=0.396 Sum_probs=23.5
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCc
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLD 414 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~ 414 (466)
-++|.|++|+||||+++.|+..++..
T Consensus 4 ~I~ieG~~GsGKtT~~~~L~~~l~~~ 29 (196)
T PRK13975 4 FIVFEGIDGSGKTTQAKLLAEKLNAF 29 (196)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCC
Confidence 47899999999999999999999753
No 480
>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]
Probab=95.79 E-value=0.0097 Score=69.57 Aligned_cols=69 Identities=20% Similarity=0.389 Sum_probs=43.1
Q ss_pred cccccccCCCCCCchHH-HHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhh------cc----CceEEEeccc
Q 012305 387 FRNMLFYGPPGTGKTMV-AREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKK------SK----KGLLLFIDEA 455 (466)
Q Consensus 387 ~~~vLl~GppGTGKT~l-A~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~------~~----~~~iLflDEi 455 (466)
.|+++++||||+|||++ ..+|-..+...|+.+|.+.-.... ...+.++.-..+... ++ ...|||+|||
T Consensus 1494 ~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t~T~-s~ls~Ler~t~yy~~tg~~~l~PK~~vK~lVLFcDeI 1572 (3164)
T COG5245 1494 LRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCTMTP-SKLSVLERETEYYPNTGVVRLYPKPVVKDLVLFCDEI 1572 (3164)
T ss_pred cceEEEECCCCCccchhcchhhhhhhheeeeEEeeccccCCH-HHHHHHHhhceeeccCCeEEEccCcchhheEEEeecc
Confidence 35699999999999995 677777777788777765432211 112222222222221 11 2389999999
Q ss_pred c
Q 012305 456 D 456 (466)
Q Consensus 456 d 456 (466)
.
T Consensus 1573 n 1573 (3164)
T COG5245 1573 N 1573 (3164)
T ss_pred C
Confidence 8
No 481
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=95.79 E-value=0.0051 Score=57.04 Aligned_cols=25 Identities=28% Similarity=0.446 Sum_probs=21.8
Q ss_pred ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 390 MLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
|.|+|+||+|||++++.|+. +|.++
T Consensus 2 i~itG~~gsGKst~~~~l~~-~g~~~ 26 (179)
T cd02022 2 IGLTGGIGSGKSTVAKLLKE-LGIPV 26 (179)
T ss_pred EEEECCCCCCHHHHHHHHHH-CCCCE
Confidence 67899999999999999998 66543
No 482
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=95.74 E-value=0.0056 Score=61.52 Aligned_cols=28 Identities=29% Similarity=0.459 Sum_probs=25.3
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDY 415 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~ 415 (466)
-.++|.|+||||||++|..||..+|.++
T Consensus 93 ~iIlI~G~sgsGKStlA~~La~~l~~~~ 120 (301)
T PRK04220 93 IIILIGGASGVGTSTIAFELASRLGIRS 120 (301)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence 3589999999999999999999998774
No 483
>TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.
Probab=95.73 E-value=0.006 Score=58.63 Aligned_cols=28 Identities=39% Similarity=0.686 Sum_probs=24.3
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
.+.|.||+|||||++++.|+..++.+++
T Consensus 4 ~i~i~G~~GsGKst~~~~la~~~~~~~~ 31 (217)
T TIGR00017 4 IIAIDGPSGAGKSTVAKAVAEKLGYAYL 31 (217)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcee
Confidence 4778999999999999999999986544
No 484
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=95.73 E-value=0.013 Score=58.86 Aligned_cols=79 Identities=18% Similarity=0.168 Sum_probs=46.4
Q ss_pred cccccccccCCCCCCchHHHHHHHHhhCCc-------------chhhc---CCCcccchhH----HHHHHHHHHhhhhh-
Q 012305 385 APFRNMLFYGPPGTGKTMVAREIARKSGLD-------------YAMMT---GGDVAPLGAQ----AVTKIHEIFDWAKK- 443 (466)
Q Consensus 385 ~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------~~~v~---~~~l~~~~~e----~~~~l~~lf~~A~~- 443 (466)
..+..+||+|| +||+++|..+|..+-.. .-.+. -+|+.....+ ....++.+...+..
T Consensus 22 rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~I~idqIR~l~~~~~~~ 99 (290)
T PRK07276 22 RLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQVIKTDTIRELVKNFSQS 99 (290)
T ss_pred CcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCcCCHHHHHHHHHHHhhC
Confidence 34457999996 68999999998877210 01121 2332111111 23455555544432
Q ss_pred --ccCceEEEeccccccccccCCC
Q 012305 444 --SKKGLLLFIDEADAFLCDNQDF 465 (466)
Q Consensus 444 --~~~~~iLflDEid~l~~~r~~~ 465 (466)
.+++.|+|||++|.|...-.|+
T Consensus 100 p~~~~~kV~II~~ad~m~~~AaNa 123 (290)
T PRK07276 100 GYEGKQQVFIIKDADKMHVNAANS 123 (290)
T ss_pred cccCCcEEEEeehhhhcCHHHHHH
Confidence 3346899999999998665443
No 485
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=95.72 E-value=0.0061 Score=57.26 Aligned_cols=23 Identities=26% Similarity=0.297 Sum_probs=20.8
Q ss_pred ccccCCCCCCchHHHHHHHHhhC
Q 012305 390 MLFYGPPGTGKTMVAREIARKSG 412 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l~ 412 (466)
|.+.|+||||||++|+.|+..++
T Consensus 2 i~i~G~sgsGKTtla~~l~~~~~ 24 (187)
T cd02024 2 VGISGVTNSGKTTLAKLLQRILP 24 (187)
T ss_pred EEEECCCCCCHHHHHHHHHHHcC
Confidence 56889999999999999999883
No 486
>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=95.71 E-value=0.0044 Score=63.57 Aligned_cols=22 Identities=41% Similarity=0.611 Sum_probs=20.3
Q ss_pred ccccCCCCCCchHHHHHHHHhh
Q 012305 390 MLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l 411 (466)
+.|.||+||||||+.++||..-
T Consensus 34 ~~lLGPSGcGKTTlLR~IAGfe 55 (352)
T COG3842 34 VTLLGPSGCGKTTLLRMIAGFE 55 (352)
T ss_pred EEEECCCCCCHHHHHHHHhCCC
Confidence 6699999999999999999876
No 487
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=95.71 E-value=0.002 Score=70.54 Aligned_cols=71 Identities=11% Similarity=0.083 Sum_probs=46.8
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCC--cchhhcCCCccc--chhH-HHH--------HHHHHHhhhhhccCceEEEecc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGGDVAP--LGAQ-AVT--------KIHEIFDWAKKSKKGLLLFIDE 454 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~~l~~--~~~e-~~~--------~l~~lf~~A~~~~~~~iLflDE 454 (466)
.+|||.|++||||+++++.++.-+.. +|..+..+.-.. +|+- ... ...+++..|. ++||||||
T Consensus 26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~Ah----~GvL~lDe 101 (584)
T PRK13406 26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQRGLLAEAD----GGVLVLAM 101 (584)
T ss_pred ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhHhhcCCcCCCCCceeecc----CCEEEecC
Confidence 57999999999999999999998854 776654332111 1211 000 1134444443 68999999
Q ss_pred cccccccc
Q 012305 455 ADAFLCDN 462 (466)
Q Consensus 455 id~l~~~r 462 (466)
+..|.++-
T Consensus 102 ~n~~~~~~ 109 (584)
T PRK13406 102 AERLEPGT 109 (584)
T ss_pred cccCCHHH
Confidence 99887653
No 488
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=95.70 E-value=0.0062 Score=55.74 Aligned_cols=22 Identities=36% Similarity=0.539 Sum_probs=19.8
Q ss_pred cCCCCCCchHHHHHHHHhhCCc
Q 012305 393 YGPPGTGKTMVAREIARKSGLD 414 (466)
Q Consensus 393 ~GppGTGKT~lA~alA~~l~~~ 414 (466)
.||||||||++++.|+..+|..
T Consensus 1 ~G~sGsGKSTla~~la~~l~~~ 22 (163)
T PRK11545 1 MGVSGSGKSAVASEVAHQLHAA 22 (163)
T ss_pred CCCCCCcHHHHHHHHHHHhCCe
Confidence 4999999999999999999753
No 489
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=95.67 E-value=0.0052 Score=59.90 Aligned_cols=30 Identities=27% Similarity=0.457 Sum_probs=21.9
Q ss_pred ccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305 392 FYGPPGTGKTMVAREIARKS---GLDYAMMTGG 421 (466)
Q Consensus 392 l~GppGTGKT~lA~alA~~l---~~~~~~v~~~ 421 (466)
+.||||+||||+++.+...+ |.+++.+|-+
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLD 33 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLD 33 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcc
Confidence 47999999999999999888 5566666643
No 490
>PRK10536 hypothetical protein; Provisional
Probab=95.66 E-value=0.008 Score=59.11 Aligned_cols=22 Identities=27% Similarity=0.389 Sum_probs=20.2
Q ss_pred cccccCCCCCCchHHHHHHHHh
Q 012305 389 NMLFYGPPGTGKTMVAREIARK 410 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~ 410 (466)
.++++||+|||||++|.+++..
T Consensus 76 lV~i~G~aGTGKT~La~a~a~~ 97 (262)
T PRK10536 76 LIFATGEAGCGKTWISAAKAAE 97 (262)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999885
No 491
>PF00488 MutS_V: MutS domain V C-terminus.; InterPro: IPR000432 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the C-terminal domain found in proteins in the MutS family of DNA mismatch repair proteins. The C-terminal region of MutS is comprised of the ATPase domain and the HTH (helix-turn-helix) domain, the latter being involved in dimer contacts. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. ; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B ....
Probab=95.62 E-value=0.016 Score=56.37 Aligned_cols=67 Identities=22% Similarity=0.356 Sum_probs=38.7
Q ss_pred ccccccCCCCCCchHHHHHHHHhh-----CCc--------------chhhcCCCcccch----hHHHHHHHHHHhhhhhc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKS-----GLD--------------YAMMTGGDVAPLG----AQAVTKIHEIFDWAKKS 444 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l-----~~~--------------~~~v~~~~l~~~~----~e~~~~l~~lf~~A~~~ 444 (466)
+.++|+||+.+|||++.|.++-.. |.. |..+...+-...+ ......+..+++.+.
T Consensus 44 ~~~iiTGpN~sGKSt~lk~i~~~~ilaq~G~~VPA~~~~i~~~d~I~t~~~~~d~~~~~~S~F~~E~~~~~~il~~~~-- 121 (235)
T PF00488_consen 44 RIIIITGPNMSGKSTFLKQIGLIVILAQIGCFVPAESAEIPIFDRIFTRIGDDDSIESGLSTFMAEMKRLSSILRNAT-- 121 (235)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHHHHHTTT--BSSSEEEEE--SEEEEEES---SSTTSSSHHHHHHHHHHHHHHH----
T ss_pred eEEEEeCCCccchhhHHHHHHHHhhhhhcCceeeecccccccccEEEeecccccccccccccHHHhHHHHHhhhhhcc--
Confidence 458999999999999999996544 321 1111121111111 122345566666543
Q ss_pred cCceEEEeccccc
Q 012305 445 KKGLLLFIDEADA 457 (466)
Q Consensus 445 ~~~~iLflDEid~ 457 (466)
..++|+|||+..
T Consensus 122 -~~sLvliDE~g~ 133 (235)
T PF00488_consen 122 -EKSLVLIDELGR 133 (235)
T ss_dssp -TTEEEEEESTTT
T ss_pred -cceeeecccccC
Confidence 378999999975
No 492
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=95.61 E-value=0.0069 Score=62.04 Aligned_cols=35 Identities=29% Similarity=0.507 Sum_probs=29.0
Q ss_pred ccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcc
Q 012305 390 MLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVA 424 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~ 424 (466)
+.|+|+||+||||+++.|+..+ |..+..++++++.
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i 40 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDII 40 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccccc
Confidence 5789999999999999998665 5677778777764
No 493
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=95.60 E-value=0.0074 Score=55.86 Aligned_cols=29 Identities=28% Similarity=0.531 Sum_probs=24.2
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhh
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMM 418 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v 418 (466)
|.|.||+|+||||+++.|+..+ |..++.+
T Consensus 3 I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~ 34 (200)
T cd01672 3 IVFEGIDGAGKTTLIELLAERLEARGYEVVLT 34 (200)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 6789999999999999999988 5555443
No 494
>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=95.59 E-value=0.012 Score=57.69 Aligned_cols=23 Identities=30% Similarity=0.598 Sum_probs=19.5
Q ss_pred cccccCCCCCCchHHHHHHHHhh
Q 012305 389 NMLFYGPPGTGKTMVAREIARKS 411 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l 411 (466)
.|=|+||||.||++|...|...+
T Consensus 31 ~iGiTG~PGaGKSTli~~l~~~~ 53 (266)
T PF03308_consen 31 VIGITGPPGAGKSTLIDALIREL 53 (266)
T ss_dssp EEEEEE-TTSSHHHHHHHHHHHH
T ss_pred EEEeeCCCCCcHHHHHHHHHHHH
Confidence 46689999999999999998877
No 495
>PRK00023 cmk cytidylate kinase; Provisional
Probab=95.58 E-value=0.0078 Score=58.15 Aligned_cols=28 Identities=39% Similarity=0.695 Sum_probs=24.9
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
.+.|.||||||||++++.|+..+|.+|+
T Consensus 6 ~i~i~g~~gsGksti~~~la~~~~~~~~ 33 (225)
T PRK00023 6 VIAIDGPAGSGKGTVAKILAKKLGFHYL 33 (225)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCcc
Confidence 5789999999999999999999987653
No 496
>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=95.55 E-value=0.01 Score=47.68 Aligned_cols=30 Identities=27% Similarity=0.434 Sum_probs=24.5
Q ss_pred ccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305 390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMT 419 (466)
Q Consensus 390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~ 419 (466)
++++|.+|+|||+++..++..+ |.+++.++
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 5788999999999999999887 56555444
No 497
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=95.55 E-value=0.0076 Score=56.90 Aligned_cols=28 Identities=21% Similarity=0.361 Sum_probs=24.0
Q ss_pred cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305 389 NMLFYGPPGTGKTMVAREIARKSGLDYA 416 (466)
Q Consensus 389 ~vLl~GppGTGKT~lA~alA~~l~~~~~ 416 (466)
.+.++|++|+|||++++.|+..+|.+++
T Consensus 3 ~i~itG~~gsGKst~~~~l~~~~g~~~i 30 (195)
T PRK14730 3 RIGLTGGIASGKSTVGNYLAQQKGIPIL 30 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhCCeEe
Confidence 3789999999999999999998776543
No 498
>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite.; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.
Probab=95.55 E-value=0.00096 Score=68.21 Aligned_cols=68 Identities=22% Similarity=0.292 Sum_probs=37.0
Q ss_pred ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC-----ccc-chhHH----HHHHHHHHhhhhhccCceEEEeccccc
Q 012305 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-----VAP-LGAQA----VTKIHEIFDWAKKSKKGLLLFIDEADA 457 (466)
Q Consensus 388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~-----l~~-~~~e~----~~~l~~lf~~A~~~~~~~iLflDEid~ 457 (466)
-|+||+|.||||||.+.+.++..+...+ .++|.. +.. ...+. ...-.+.+-.|. ++|++|||+|.
T Consensus 58 ihiLlvGdpg~gKS~ll~~~~~~~pr~v-~~~g~~~s~~gLta~~~~d~~~~~~~leaGalvlad----~GiccIDe~dk 132 (331)
T PF00493_consen 58 IHILLVGDPGTGKSQLLKYVAKLAPRSV-YTSGKGSSAAGLTASVSRDPVTGEWVLEAGALVLAD----GGICCIDEFDK 132 (331)
T ss_dssp --EEEECSCHHCHHHHHHCCCCT-SSEE-EEECCGSTCCCCCEEECCCGGTSSECEEE-HHHHCT----TSEEEECTTTT
T ss_pred cceeeccchhhhHHHHHHHHHhhCCceE-EECCCCcccCCccceeccccccceeEEeCCchhccc----Cceeeeccccc
Confidence 4899999999999999998876654332 222211 111 00000 000123333333 78999999999
Q ss_pred ccc
Q 012305 458 FLC 460 (466)
Q Consensus 458 l~~ 460 (466)
+..
T Consensus 133 ~~~ 135 (331)
T PF00493_consen 133 MKE 135 (331)
T ss_dssp --C
T ss_pred ccc
Confidence 865
No 499
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=95.54 E-value=0.014 Score=62.84 Aligned_cols=74 Identities=19% Similarity=0.139 Sum_probs=45.5
Q ss_pred cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--------ch---------------------hHH
Q 012305 384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--------LG---------------------AQA 430 (466)
Q Consensus 384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--------~~---------------------~e~ 430 (466)
+.|. ..+|+.||||||||+|+-.++... |.+++++++..... +| ...
T Consensus 259 G~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~ 338 (484)
T TIGR02655 259 GFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGL 338 (484)
T ss_pred CccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCCh
Confidence 3444 458899999999999998887655 44555554333210 00 011
Q ss_pred HHHHHHHHhhhhhccCceEEEecccccc
Q 012305 431 VTKIHEIFDWAKKSKKGLLLFIDEADAF 458 (466)
Q Consensus 431 ~~~l~~lf~~A~~~~~~~iLflDEid~l 458 (466)
...+..+.+.....+ +.+|+||=+..|
T Consensus 339 ~~~~~~i~~~i~~~~-~~~vvIDsi~~~ 365 (484)
T TIGR02655 339 EDHLQIIKSEIADFK-PARIAIDSLSAL 365 (484)
T ss_pred HHHHHHHHHHHHHcC-CCEEEEcCHHHH
Confidence 334555555555444 678899988765
No 500
>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]
Probab=95.52 E-value=0.01 Score=53.65 Aligned_cols=37 Identities=27% Similarity=0.713 Sum_probs=29.5
Q ss_pred cccc-cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305 385 APFR-NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 423 (466)
Q Consensus 385 ~p~~-~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l 423 (466)
.|++ .+++.|++||||||++++|...++.+|+. |+|+
T Consensus 9 ~~~k~~i~vmGvsGsGKSTigk~L~~~l~~~F~d--gDd~ 46 (191)
T KOG3354|consen 9 GPFKYVIVVMGVSGSGKSTIGKALSEELGLKFID--GDDL 46 (191)
T ss_pred CCCceeEEEEecCCCChhhHHHHHHHHhCCcccc--cccC
Confidence 4454 57788999999999999999999987653 4444
Done!