Query 048163
Match_columns 350
No_of_seqs 188 out of 1770
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 06:54:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048163.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048163hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4658 Apoptotic ATPase [Sign 100.0 3.1E-35 6.7E-40 297.5 27.7 301 17-349 9-314 (889)
2 PF00931 NB-ARC: NB-ARC domain 99.9 3.6E-25 7.9E-30 201.1 10.5 151 193-349 1-154 (287)
3 PLN03210 Resistant to P. syrin 99.8 4.5E-18 9.8E-23 180.5 15.7 153 186-350 182-349 (1153)
4 PRK00411 cdc6 cell division co 99.2 4.7E-10 1E-14 106.6 13.2 120 186-307 28-150 (394)
5 TIGR02928 orc1/cdc6 family rep 99.0 4.4E-09 9.4E-14 98.9 14.0 119 187-307 14-141 (365)
6 PF13401 AAA_22: AAA domain; P 98.9 2.8E-09 6.2E-14 84.8 5.7 118 214-334 3-125 (131)
7 PF05729 NACHT: NACHT domain 98.9 7.2E-09 1.6E-13 85.7 8.1 116 216-337 1-132 (166)
8 cd00009 AAA The AAA+ (ATPases 98.8 6.8E-08 1.5E-12 77.7 10.3 125 191-336 1-131 (151)
9 PF13191 AAA_16: AAA ATPase do 98.7 4.5E-08 9.8E-13 82.6 8.4 51 189-242 1-51 (185)
10 cd01128 rho_factor Transcripti 98.7 2.3E-08 5E-13 88.2 6.2 91 214-305 15-113 (249)
11 COG2256 MGS1 ATPase related to 98.7 6.3E-08 1.4E-12 88.5 8.2 115 185-336 27-144 (436)
12 KOG2028 ATPase related to the 98.7 6.5E-08 1.4E-12 87.1 7.8 101 213-336 160-262 (554)
13 TIGR03015 pepcterm_ATPase puta 98.7 6.4E-07 1.4E-11 80.5 14.1 98 215-317 43-145 (269)
14 PF13173 AAA_14: AAA domain 98.6 4.7E-08 1E-12 77.6 5.6 102 215-339 2-103 (128)
15 COG1474 CDC6 Cdc6-related prot 98.6 3.8E-07 8.3E-12 85.0 12.4 116 188-306 17-134 (366)
16 PTZ00112 origin recognition co 98.6 2.3E-07 4.9E-12 92.9 10.4 120 187-307 754-881 (1164)
17 PTZ00202 tuzin; Provisional 98.6 1.2E-06 2.6E-11 81.7 13.3 106 183-302 257-368 (550)
18 PRK09376 rho transcription ter 98.5 1.8E-07 3.8E-12 86.5 7.2 101 199-305 158-266 (416)
19 PF01637 Arch_ATPase: Archaeal 98.5 1.4E-07 3.1E-12 82.4 5.7 60 190-257 1-60 (234)
20 PRK05564 DNA polymerase III su 98.5 9.4E-07 2E-11 81.3 11.3 126 188-336 4-134 (313)
21 PRK04841 transcriptional regul 98.5 8E-07 1.7E-11 93.4 12.2 133 188-335 14-162 (903)
22 PRK07003 DNA polymerase III su 98.4 1.2E-06 2.7E-11 87.0 10.6 136 188-335 16-159 (830)
23 PRK14961 DNA polymerase III su 98.4 2.6E-06 5.5E-11 80.0 11.6 134 188-334 16-158 (363)
24 PRK12402 replication factor C 98.4 1.8E-06 4E-11 80.1 9.8 45 188-238 15-59 (337)
25 PRK12323 DNA polymerase III su 98.4 3.5E-06 7.6E-11 82.7 11.3 140 188-337 16-167 (700)
26 TIGR00767 rho transcription te 98.3 8.8E-07 1.9E-11 82.3 6.7 91 214-305 167-265 (415)
27 PRK14960 DNA polymerase III su 98.3 2.8E-06 6E-11 83.6 10.3 135 188-334 15-157 (702)
28 PRK13342 recombination factor 98.3 1.2E-06 2.6E-11 83.7 7.7 109 188-330 12-124 (413)
29 PRK14949 DNA polymerase III su 98.3 2.8E-06 6.2E-11 86.0 10.3 123 188-334 16-158 (944)
30 PRK11331 5-methylcytosine-spec 98.3 6.1E-06 1.3E-10 78.0 11.7 109 188-308 175-285 (459)
31 PRK14957 DNA polymerase III su 98.3 4.2E-06 9.1E-11 81.7 10.5 126 188-337 16-162 (546)
32 COG2909 MalT ATP-dependent tra 98.3 9.5E-06 2.1E-10 80.8 12.8 130 198-335 25-170 (894)
33 PRK14958 DNA polymerase III su 98.3 4.8E-06 1E-10 81.1 10.8 124 188-334 16-158 (509)
34 PRK14951 DNA polymerase III su 98.3 6.3E-06 1.4E-10 81.6 10.9 137 188-333 16-162 (618)
35 PRK14963 DNA polymerase III su 98.3 7.2E-06 1.6E-10 79.8 10.9 137 188-333 14-154 (504)
36 KOG2227 Pre-initiation complex 98.2 7.9E-06 1.7E-10 76.2 10.2 142 186-330 148-292 (529)
37 PRK14969 DNA polymerase III su 98.2 1.1E-05 2.5E-10 79.0 11.9 124 188-334 16-158 (527)
38 PRK08691 DNA polymerase III su 98.2 8.1E-06 1.8E-10 81.0 10.5 134 188-334 16-158 (709)
39 PRK06893 DNA replication initi 98.2 2.4E-06 5.2E-11 74.9 6.1 107 215-349 39-158 (229)
40 PRK04195 replication factor C 98.2 6.8E-06 1.5E-10 80.1 9.8 122 188-334 14-139 (482)
41 PRK07994 DNA polymerase III su 98.2 6.6E-06 1.4E-10 81.7 9.7 135 188-334 16-158 (647)
42 PHA02544 44 clamp loader, smal 98.2 8.7E-06 1.9E-10 75.0 9.6 120 188-335 21-141 (316)
43 TIGR02903 spore_lon_C ATP-depe 98.2 0.00029 6.3E-09 70.5 20.9 142 188-335 154-334 (615)
44 PRK06645 DNA polymerase III su 98.2 1.7E-05 3.7E-10 77.0 11.3 143 188-339 21-173 (507)
45 PRK14962 DNA polymerase III su 98.2 1.3E-05 2.8E-10 77.4 10.3 46 188-238 14-59 (472)
46 PF05621 TniB: Bacterial TniB 98.1 2.6E-05 5.7E-10 69.8 11.3 108 195-306 44-156 (302)
47 PLN03025 replication factor C 98.1 1.5E-05 3.2E-10 73.6 9.9 125 188-334 13-138 (319)
48 PRK14964 DNA polymerase III su 98.1 1.9E-05 4.1E-10 76.2 10.8 127 188-337 13-159 (491)
49 PRK00440 rfc replication facto 98.1 2.4E-05 5.2E-10 72.0 11.3 122 188-333 17-140 (319)
50 KOG2543 Origin recognition com 98.1 2.1E-05 4.6E-10 71.6 10.4 112 187-306 5-126 (438)
51 TIGR00635 ruvB Holliday juncti 98.1 1.3E-05 2.7E-10 73.5 9.1 51 188-239 4-54 (305)
52 PRK07764 DNA polymerase III su 98.1 1.9E-05 4.2E-10 80.9 10.6 138 188-337 15-163 (824)
53 PRK09111 DNA polymerase III su 98.1 2.1E-05 4.5E-10 78.0 10.5 136 188-332 24-169 (598)
54 PRK07940 DNA polymerase III su 98.1 2.5E-05 5.4E-10 73.7 10.5 138 188-334 5-156 (394)
55 PRK05896 DNA polymerase III su 98.1 2.3E-05 4.9E-10 76.9 10.1 133 188-332 16-156 (605)
56 TIGR02397 dnaX_nterm DNA polym 98.1 4.4E-05 9.6E-10 71.4 11.8 124 188-335 14-157 (355)
57 PF05496 RuvB_N: Holliday junc 98.0 1.2E-05 2.5E-10 69.0 6.8 51 187-238 23-73 (233)
58 PRK14956 DNA polymerase III su 98.0 2E-05 4.2E-10 75.4 9.0 138 188-337 18-164 (484)
59 PRK14955 DNA polymerase III su 98.0 4.8E-05 1E-09 72.3 11.6 139 188-332 16-164 (397)
60 PRK13341 recombination factor 98.0 1.3E-05 2.8E-10 81.1 7.8 109 188-330 28-141 (725)
61 PRK14952 DNA polymerase III su 98.0 4.9E-05 1.1E-09 75.0 11.3 138 188-337 13-161 (584)
62 PRK00080 ruvB Holliday junctio 98.0 3.1E-05 6.7E-10 71.7 9.1 52 187-239 24-75 (328)
63 TIGR03420 DnaA_homol_Hda DnaA 98.0 1.2E-05 2.7E-10 70.1 6.1 55 193-255 22-76 (226)
64 PRK14950 DNA polymerase III su 98.0 6.8E-05 1.5E-09 74.8 11.4 136 188-334 16-159 (585)
65 PF00004 AAA: ATPase family as 98.0 1.4E-05 3.1E-10 63.2 5.4 22 218-239 1-22 (132)
66 smart00382 AAA ATPases associa 97.9 5.7E-05 1.2E-09 59.9 8.4 88 216-308 3-91 (148)
67 TIGR00678 holB DNA polymerase 97.9 0.00014 2.9E-09 61.7 10.9 42 294-335 95-136 (188)
68 PRK14965 DNA polymerase III su 97.9 0.0001 2.2E-09 73.2 11.1 139 188-338 16-163 (576)
69 PRK14970 DNA polymerase III su 97.9 0.00012 2.7E-09 68.8 11.0 46 188-238 17-62 (367)
70 PRK08116 hypothetical protein; 97.9 5.5E-05 1.2E-09 67.8 8.0 104 216-335 115-221 (268)
71 PRK07471 DNA polymerase III su 97.9 0.00016 3.4E-09 67.7 11.4 143 187-336 18-182 (365)
72 PF13177 DNA_pol3_delta2: DNA 97.9 0.00016 3.5E-09 59.7 10.2 122 192-336 1-143 (162)
73 PRK14953 DNA polymerase III su 97.9 0.00016 3.4E-09 70.3 11.7 46 188-238 16-61 (486)
74 PF05673 DUF815: Protein of un 97.8 0.00012 2.6E-09 63.6 9.1 125 185-337 24-153 (249)
75 PRK14959 DNA polymerase III su 97.8 0.00015 3.2E-09 71.7 10.6 134 188-334 16-158 (624)
76 TIGR01242 26Sp45 26S proteasom 97.8 6.6E-05 1.4E-09 70.6 8.0 52 187-238 121-179 (364)
77 PRK14954 DNA polymerase III su 97.8 0.00023 4.9E-09 70.9 11.7 145 188-337 16-170 (620)
78 TIGR03345 VI_ClpV1 type VI sec 97.7 9.5E-05 2.1E-09 76.6 8.6 45 188-238 187-231 (852)
79 PRK09112 DNA polymerase III su 97.7 0.00031 6.7E-09 65.4 11.1 140 186-334 21-180 (351)
80 CHL00095 clpC Clp protease ATP 97.7 0.00012 2.5E-09 76.0 9.0 45 188-238 179-223 (821)
81 PF04665 Pox_A32: Poxvirus A32 97.7 6.4E-05 1.4E-09 65.6 6.0 37 215-253 13-49 (241)
82 PRK14948 DNA polymerase III su 97.7 0.00028 6.1E-09 70.5 11.4 136 188-333 16-159 (620)
83 PRK08118 topology modulation p 97.7 1.7E-05 3.8E-10 65.9 2.4 36 216-251 2-38 (167)
84 PRK08451 DNA polymerase III su 97.7 0.00036 7.8E-09 68.1 11.6 135 188-334 14-156 (535)
85 PRK14971 DNA polymerase III su 97.7 0.00036 7.7E-09 69.8 11.7 126 188-337 17-164 (614)
86 PRK07133 DNA polymerase III su 97.7 0.0003 6.6E-09 70.6 11.1 138 188-338 18-162 (725)
87 PRK06305 DNA polymerase III su 97.7 0.00028 6E-09 68.1 10.6 46 188-238 17-62 (451)
88 KOG2004 Mitochondrial ATP-depe 97.7 0.0014 3E-08 64.6 15.0 105 187-305 410-515 (906)
89 TIGR02881 spore_V_K stage V sp 97.7 0.00031 6.7E-09 62.9 9.9 51 188-238 6-65 (261)
90 PRK12608 transcription termina 97.7 0.00031 6.7E-09 65.1 9.7 103 196-304 119-229 (380)
91 PRK10865 protein disaggregatio 97.7 0.00021 4.7E-09 74.2 9.7 45 188-238 178-222 (857)
92 PRK06647 DNA polymerase III su 97.6 0.0006 1.3E-08 67.4 12.0 134 188-333 16-157 (563)
93 PRK08084 DNA replication initi 97.6 0.00026 5.6E-09 62.3 8.5 38 215-254 45-82 (235)
94 PRK08727 hypothetical protein; 97.6 0.00017 3.7E-09 63.4 7.0 36 216-253 42-77 (233)
95 PRK05563 DNA polymerase III su 97.6 0.00081 1.7E-08 66.6 12.5 136 188-335 16-160 (559)
96 PRK10536 hypothetical protein; 97.6 0.00047 1E-08 60.6 9.5 55 188-250 55-109 (262)
97 CHL00181 cbbX CbbX; Provisiona 97.6 0.00088 1.9E-08 60.7 11.5 24 215-238 59-82 (287)
98 PRK03992 proteasome-activating 97.6 0.00015 3.3E-09 68.6 6.6 52 187-238 130-188 (389)
99 PRK08939 primosomal protein Dn 97.6 0.0003 6.6E-09 64.2 8.2 122 192-334 135-260 (306)
100 COG0470 HolB ATPase involved i 97.6 0.00056 1.2E-08 63.0 10.1 124 190-334 3-148 (325)
101 PRK10787 DNA-binding ATP-depen 97.6 0.0014 3.1E-08 67.3 13.8 52 187-238 321-372 (784)
102 TIGR03346 chaperone_ClpB ATP-d 97.5 0.0002 4.3E-09 74.6 7.6 45 188-238 173-217 (852)
103 TIGR03345 VI_ClpV1 type VI sec 97.5 0.00042 9.2E-09 71.9 9.8 137 188-334 566-718 (852)
104 PRK08181 transposase; Validate 97.5 0.00025 5.4E-09 63.4 6.9 101 216-335 107-209 (269)
105 TIGR03346 chaperone_ClpB ATP-d 97.5 0.00056 1.2E-08 71.3 10.5 137 188-334 565-717 (852)
106 TIGR02639 ClpA ATP-dependent C 97.5 0.00033 7.1E-09 71.9 8.5 45 188-238 182-226 (731)
107 cd01123 Rad51_DMC1_radA Rad51_ 97.5 0.00036 7.9E-09 61.2 7.7 92 213-305 17-125 (235)
108 PRK09361 radB DNA repair and r 97.5 0.00032 7E-09 61.2 7.2 88 213-304 21-116 (225)
109 TIGR02639 ClpA ATP-dependent C 97.5 0.00066 1.4E-08 69.7 10.4 121 189-321 455-579 (731)
110 smart00763 AAA_PrkA PrkA AAA d 97.5 0.00014 3E-09 67.1 4.6 53 187-239 50-102 (361)
111 PRK05642 DNA replication initi 97.5 0.00032 6.9E-09 61.7 6.7 93 215-335 45-140 (234)
112 COG2607 Predicted ATPase (AAA+ 97.5 0.0031 6.7E-08 54.4 12.2 121 186-334 58-182 (287)
113 PRK07952 DNA replication prote 97.4 0.00079 1.7E-08 59.3 9.0 103 215-334 99-204 (244)
114 KOG1514 Origin recognition com 97.4 0.0012 2.7E-08 64.8 11.0 139 188-332 396-546 (767)
115 PRK09087 hypothetical protein; 97.4 0.00032 7E-09 61.2 6.5 24 215-238 44-67 (226)
116 PRK08058 DNA polymerase III su 97.4 0.0011 2.3E-08 61.4 10.3 134 190-335 7-150 (329)
117 KOG0989 Replication factor C, 97.4 0.00046 1E-08 61.4 7.1 128 188-333 36-167 (346)
118 TIGR00763 lon ATP-dependent pr 97.4 0.0031 6.8E-08 65.1 14.3 51 188-238 320-370 (775)
119 PRK10865 protein disaggregatio 97.4 0.0008 1.7E-08 70.0 9.6 137 188-334 568-720 (857)
120 PRK06526 transposase; Provisio 97.4 0.0004 8.6E-09 61.7 6.4 100 216-335 99-201 (254)
121 TIGR02237 recomb_radB DNA repa 97.4 0.00053 1.2E-08 59.1 7.0 90 212-305 9-107 (209)
122 TIGR02880 cbbX_cfxQ probable R 97.4 0.0018 3.9E-08 58.6 10.7 23 216-238 59-81 (284)
123 PF01695 IstB_IS21: IstB-like 97.4 0.00014 3.1E-09 61.0 3.3 101 215-335 47-150 (178)
124 COG0466 Lon ATP-dependent Lon 97.4 0.0017 3.7E-08 64.1 10.9 106 187-306 322-428 (782)
125 PRK12377 putative replication 97.4 0.00064 1.4E-08 60.0 7.4 102 215-334 101-205 (248)
126 PRK11034 clpA ATP-dependent Cl 97.3 0.00016 3.5E-09 73.6 3.6 45 188-238 186-230 (758)
127 CHL00095 clpC Clp protease ATP 97.3 0.0012 2.5E-08 68.7 10.0 137 188-334 509-661 (821)
128 PRK09183 transposase/IS protei 97.3 0.00068 1.5E-08 60.5 7.0 100 216-334 103-205 (259)
129 PF00308 Bac_DnaA: Bacterial d 97.3 0.00083 1.8E-08 58.4 7.3 104 214-334 33-139 (219)
130 COG1373 Predicted ATPase (AAA+ 97.3 0.0016 3.5E-08 61.8 9.8 96 217-338 39-134 (398)
131 PRK07261 topology modulation p 97.3 0.00058 1.3E-08 57.0 6.0 53 217-269 2-55 (171)
132 PF02562 PhoH: PhoH-like prote 97.3 0.0013 2.8E-08 56.2 8.1 126 193-334 5-155 (205)
133 TIGR02640 gas_vesic_GvpN gas v 97.3 0.0024 5.3E-08 57.1 10.3 56 195-263 9-64 (262)
134 PRK06921 hypothetical protein; 97.2 0.0014 3E-08 58.8 8.2 100 215-334 117-224 (266)
135 PRK08903 DnaA regulatory inact 97.2 0.00064 1.4E-08 59.4 6.1 24 215-238 42-65 (227)
136 PF07728 AAA_5: AAA domain (dy 97.2 0.00017 3.6E-09 57.9 2.1 84 218-315 2-85 (139)
137 PRK14088 dnaA chromosomal repl 97.2 0.00089 1.9E-08 64.4 7.2 102 215-333 130-235 (440)
138 PF13207 AAA_17: AAA domain; P 97.2 0.0003 6.4E-09 54.9 3.3 22 217-238 1-22 (121)
139 KOG0741 AAA+-type ATPase [Post 97.2 0.0018 4E-08 61.7 8.9 111 211-343 534-659 (744)
140 PRK07399 DNA polymerase III su 97.2 0.0039 8.4E-08 57.3 11.0 140 188-334 4-162 (314)
141 PRK05541 adenylylsulfate kinas 97.2 0.0011 2.4E-08 55.5 6.8 36 214-251 6-41 (176)
142 cd01393 recA_like RecA is a b 97.2 0.0031 6.7E-08 55.0 9.9 121 213-336 17-170 (226)
143 COG0542 clpA ATP-binding subun 97.2 0.00095 2.1E-08 67.3 7.2 138 188-334 491-643 (786)
144 TIGR00602 rad24 checkpoint pro 97.2 0.00095 2.1E-08 66.6 7.0 51 187-238 83-133 (637)
145 PRK05707 DNA polymerase III su 97.2 0.0025 5.3E-08 58.9 9.3 43 294-336 105-147 (328)
146 TIGR00362 DnaA chromosomal rep 97.2 0.0011 2.3E-08 63.4 7.1 103 215-334 136-241 (405)
147 PRK11034 clpA ATP-dependent Cl 97.1 0.0019 4.2E-08 65.9 8.8 119 189-320 459-582 (758)
148 cd01394 radB RadB. The archaea 97.1 0.0016 3.5E-08 56.5 7.1 89 213-305 17-113 (218)
149 PRK06620 hypothetical protein; 97.1 0.00072 1.6E-08 58.5 4.6 23 216-238 45-67 (214)
150 PF00158 Sigma54_activat: Sigm 97.1 0.0012 2.7E-08 54.8 5.8 130 190-334 1-143 (168)
151 TIGR03689 pup_AAA proteasome A 97.1 0.0016 3.5E-08 63.3 7.4 52 188-239 182-240 (512)
152 PRK06696 uridine kinase; Valid 97.1 0.00088 1.9E-08 58.4 5.2 44 192-238 2-45 (223)
153 PRK04296 thymidine kinase; Pro 97.1 0.0011 2.3E-08 56.4 5.5 114 216-336 3-117 (190)
154 COG0572 Udk Uridine kinase [Nu 97.1 0.0017 3.7E-08 55.6 6.6 26 213-238 6-31 (218)
155 PRK14087 dnaA chromosomal repl 97.0 0.0012 2.7E-08 63.6 6.4 105 215-334 141-248 (450)
156 TIGR03499 FlhF flagellar biosy 97.0 0.0033 7.1E-08 56.9 8.7 87 214-304 193-281 (282)
157 PRK04301 radA DNA repair and r 97.0 0.002 4.3E-08 59.4 7.4 91 213-304 100-207 (317)
158 cd01131 PilT Pilus retraction 97.0 0.00097 2.1E-08 57.0 4.9 111 216-339 2-113 (198)
159 TIGR02012 tigrfam_recA protein 97.0 0.0023 4.9E-08 58.6 7.3 87 212-305 52-143 (321)
160 KOG1969 DNA replication checkp 97.0 0.0023 5E-08 63.3 7.5 75 211-306 322-398 (877)
161 COG2255 RuvB Holliday junction 97.0 0.00073 1.6E-08 59.6 3.7 51 187-238 25-75 (332)
162 CHL00176 ftsH cell division pr 97.0 0.0034 7.4E-08 63.0 8.9 51 188-238 183-239 (638)
163 COG1484 DnaC DNA replication p 97.0 0.0025 5.4E-08 56.7 7.1 82 214-313 104-185 (254)
164 cd00983 recA RecA is a bacter 97.0 0.0024 5.1E-08 58.5 7.1 87 212-305 52-143 (325)
165 PRK12422 chromosomal replicati 96.9 0.0053 1.1E-07 59.1 9.7 102 214-334 140-244 (445)
166 PRK06835 DNA replication prote 96.9 0.0022 4.7E-08 59.2 6.7 102 216-334 184-288 (329)
167 PF00448 SRP54: SRP54-type pro 96.9 0.0035 7.6E-08 53.4 7.4 55 215-271 1-56 (196)
168 PRK08233 hypothetical protein; 96.9 0.0035 7.7E-08 52.5 7.5 24 215-238 3-26 (182)
169 KOG0991 Replication factor C, 96.9 0.0026 5.6E-08 54.6 6.4 45 188-238 27-71 (333)
170 PRK09354 recA recombinase A; P 96.9 0.0031 6.8E-08 58.2 7.5 87 212-305 57-148 (349)
171 cd03281 ABC_MSH5_euk MutS5 hom 96.9 0.0011 2.3E-08 57.4 4.3 122 215-341 29-160 (213)
172 COG2812 DnaX DNA polymerase II 96.9 0.0016 3.4E-08 63.1 5.7 138 188-337 16-162 (515)
173 cd01133 F1-ATPase_beta F1 ATP 96.9 0.0032 7E-08 56.1 7.2 88 215-304 69-172 (274)
174 PRK13695 putative NTPase; Prov 96.9 0.00061 1.3E-08 56.9 2.4 23 217-239 2-24 (174)
175 cd03247 ABCC_cytochrome_bd The 96.9 0.0027 5.9E-08 53.2 6.4 119 215-339 28-161 (178)
176 KOG2228 Origin recognition com 96.9 0.0039 8.4E-08 56.4 7.5 144 188-336 24-183 (408)
177 PRK15455 PrkA family serine pr 96.9 0.00089 1.9E-08 65.2 3.6 50 189-238 77-126 (644)
178 cd03214 ABC_Iron-Siderophores_ 96.8 0.0098 2.1E-07 49.9 9.5 124 215-341 25-164 (180)
179 PF08423 Rad51: Rad51; InterP 96.8 0.0037 8.1E-08 55.7 7.3 90 214-304 37-142 (256)
180 cd01120 RecA-like_NTPases RecA 96.8 0.0064 1.4E-07 49.5 8.3 40 217-258 1-40 (165)
181 TIGR02236 recomb_radA DNA repa 96.8 0.004 8.6E-08 57.2 7.6 92 213-305 93-202 (310)
182 PF13604 AAA_30: AAA domain; P 96.8 0.0012 2.7E-08 56.3 4.0 104 216-332 19-128 (196)
183 COG0468 RecA RecA/RadA recombi 96.8 0.0063 1.4E-07 54.5 8.4 92 212-306 57-152 (279)
184 cd02025 PanK Pantothenate kina 96.8 0.0061 1.3E-07 53.0 8.2 22 217-238 1-22 (220)
185 PRK06871 DNA polymerase III su 96.8 0.014 3E-07 53.7 10.8 126 197-335 11-147 (325)
186 cd03282 ABC_MSH4_euk MutS4 hom 96.8 0.0021 4.6E-08 55.2 5.2 122 215-343 29-159 (204)
187 PRK00149 dnaA chromosomal repl 96.8 0.003 6.5E-08 61.2 6.8 101 215-334 148-253 (450)
188 cd03238 ABC_UvrA The excision 96.8 0.0077 1.7E-07 50.4 8.3 115 215-339 21-153 (176)
189 TIGR00554 panK_bact pantothena 96.8 0.0094 2E-07 53.9 9.4 26 212-237 59-84 (290)
190 PTZ00454 26S protease regulato 96.8 0.0043 9.4E-08 58.8 7.5 52 187-238 144-202 (398)
191 PRK06067 flagellar accessory p 96.8 0.0058 1.3E-07 53.6 7.9 89 212-305 22-130 (234)
192 PRK14086 dnaA chromosomal repl 96.8 0.0032 6.9E-08 62.2 6.7 102 216-334 315-419 (617)
193 PTZ00301 uridine kinase; Provi 96.8 0.0029 6.3E-08 54.5 5.7 24 215-238 3-26 (210)
194 TIGR01241 FtsH_fam ATP-depende 96.7 0.0043 9.4E-08 60.8 7.6 51 188-238 55-111 (495)
195 KOG0729 26S proteasome regulat 96.7 0.0033 7.2E-08 55.0 5.9 57 188-246 177-240 (435)
196 COG4608 AppF ABC-type oligopep 96.7 0.0058 1.3E-07 53.9 7.4 127 214-343 38-178 (268)
197 PF12061 DUF3542: Protein of u 96.7 0.0035 7.7E-08 55.8 5.9 78 11-88 296-374 (402)
198 PRK05439 pantothenate kinase; 96.7 0.014 3.1E-07 53.2 10.1 84 212-296 83-166 (311)
199 PRK14722 flhF flagellar biosyn 96.7 0.0073 1.6E-07 56.5 8.3 90 215-307 137-227 (374)
200 KOG0733 Nuclear AAA ATPase (VC 96.7 0.0075 1.6E-07 58.6 8.4 97 188-305 190-292 (802)
201 TIGR02858 spore_III_AA stage I 96.7 0.016 3.5E-07 51.9 10.2 130 196-340 97-234 (270)
202 TIGR00959 ffh signal recogniti 96.7 0.012 2.6E-07 56.2 9.8 25 214-238 98-122 (428)
203 PRK08769 DNA polymerase III su 96.7 0.02 4.3E-07 52.6 10.9 128 196-335 12-153 (319)
204 cd03228 ABCC_MRP_Like The MRP 96.7 0.0073 1.6E-07 50.2 7.5 122 215-340 28-160 (171)
205 COG0563 Adk Adenylate kinase a 96.7 0.0033 7.2E-08 52.7 5.4 22 217-238 2-23 (178)
206 PRK11889 flhF flagellar biosyn 96.7 0.02 4.4E-07 53.7 10.7 25 214-238 240-264 (436)
207 PLN03187 meiotic recombination 96.7 0.013 2.9E-07 54.2 9.6 92 213-305 124-231 (344)
208 PLN03186 DNA repair protein RA 96.6 0.011 2.5E-07 54.7 9.2 91 213-304 121-227 (342)
209 PRK00771 signal recognition pa 96.6 0.016 3.5E-07 55.5 10.2 90 213-305 93-185 (437)
210 COG0593 DnaA ATPase involved i 96.6 0.025 5.4E-07 53.3 11.2 103 214-334 112-217 (408)
211 PLN00020 ribulose bisphosphate 96.6 0.0045 9.7E-08 57.2 6.1 27 212-238 145-171 (413)
212 COG0396 sufC Cysteine desulfur 96.6 0.017 3.7E-07 49.7 9.2 131 215-347 30-216 (251)
213 PTZ00361 26 proteosome regulat 96.6 0.0021 4.5E-08 61.5 4.1 51 188-238 183-240 (438)
214 TIGR02238 recomb_DMC1 meiotic 96.6 0.0055 1.2E-07 56.2 6.6 92 213-305 94-201 (313)
215 PF14532 Sigma54_activ_2: Sigm 96.6 0.0028 6E-08 50.8 4.2 108 191-335 1-110 (138)
216 PF05659 RPW8: Arabidopsis bro 96.6 0.095 2.1E-06 42.3 12.9 82 5-86 3-85 (147)
217 KOG0744 AAA+-type ATPase [Post 96.6 0.01 2.3E-07 53.4 7.9 79 215-304 177-259 (423)
218 PRK05703 flhF flagellar biosyn 96.6 0.012 2.6E-07 56.3 9.0 24 215-238 221-244 (424)
219 COG1419 FlhF Flagellar GTP-bin 96.6 0.01 2.2E-07 55.4 8.1 75 214-290 202-278 (407)
220 COG1136 SalX ABC-type antimicr 96.5 0.023 5.1E-07 49.1 9.8 57 285-341 150-209 (226)
221 PRK09270 nucleoside triphospha 96.5 0.016 3.4E-07 50.8 9.0 27 212-238 30-56 (229)
222 cd03216 ABC_Carb_Monos_I This 96.5 0.0083 1.8E-07 49.5 6.8 118 215-340 26-147 (163)
223 PF00485 PRK: Phosphoribulokin 96.5 0.0021 4.5E-08 54.8 3.3 79 217-297 1-85 (194)
224 COG2884 FtsE Predicted ATPase 96.5 0.023 5E-07 47.5 9.1 59 284-342 144-204 (223)
225 PRK06090 DNA polymerase III su 96.5 0.033 7.1E-07 51.1 11.2 126 196-335 11-148 (319)
226 PRK05480 uridine/cytidine kina 96.5 0.0024 5.1E-08 55.1 3.6 26 213-238 4-29 (209)
227 PF12775 AAA_7: P-loop contain 96.5 0.0023 5.1E-08 57.4 3.6 34 198-238 23-56 (272)
228 PRK05917 DNA polymerase III su 96.5 0.034 7.5E-07 50.1 11.0 112 197-334 6-134 (290)
229 PRK12723 flagellar biosynthesi 96.5 0.021 4.5E-07 53.9 10.0 90 214-307 173-266 (388)
230 TIGR02239 recomb_RAD51 DNA rep 96.5 0.0087 1.9E-07 55.0 7.4 91 213-304 94-200 (316)
231 PRK07667 uridine kinase; Provi 96.5 0.0041 8.9E-08 52.9 4.9 38 197-238 3-40 (193)
232 cd03221 ABCF_EF-3 ABCF_EF-3 E 96.5 0.018 4E-07 46.4 8.4 106 215-340 26-132 (144)
233 PTZ00035 Rad51 protein; Provis 96.5 0.022 4.8E-07 52.8 9.9 93 212-305 115-223 (337)
234 PRK12727 flagellar biosynthesi 96.5 0.019 4.1E-07 55.8 9.6 25 214-238 349-373 (559)
235 PF13238 AAA_18: AAA domain; P 96.5 0.0024 5.2E-08 50.0 3.0 21 218-238 1-21 (129)
236 TIGR00235 udk uridine kinase. 96.5 0.0028 6E-08 54.6 3.7 26 213-238 4-29 (207)
237 COG1102 Cmk Cytidylate kinase 96.5 0.0038 8.3E-08 50.5 4.1 44 217-273 2-45 (179)
238 cd03222 ABC_RNaseL_inhibitor T 96.5 0.015 3.3E-07 48.7 7.9 109 215-340 25-137 (177)
239 PHA02244 ATPase-like protein 96.4 0.012 2.6E-07 54.6 7.7 22 217-238 121-142 (383)
240 COG1618 Predicted nucleotide k 96.4 0.0042 9E-08 50.3 4.1 33 214-247 4-36 (179)
241 cd03223 ABCD_peroxisomal_ALDP 96.4 0.027 5.8E-07 46.6 9.2 117 215-339 27-152 (166)
242 PRK15429 formate hydrogenlyase 96.4 0.016 3.4E-07 59.3 9.3 133 188-334 376-520 (686)
243 PRK12724 flagellar biosynthesi 96.4 0.011 2.5E-07 55.8 7.4 25 214-238 222-246 (432)
244 PF13671 AAA_33: AAA domain; P 96.4 0.0032 6.9E-08 50.5 3.3 22 217-238 1-22 (143)
245 PRK10867 signal recognition pa 96.4 0.015 3.2E-07 55.7 8.2 25 214-238 99-123 (433)
246 PRK08699 DNA polymerase III su 96.4 0.023 4.9E-07 52.5 9.2 43 294-336 112-154 (325)
247 TIGR02974 phageshock_pspF psp 96.3 0.015 3.2E-07 53.9 7.9 44 191-238 2-45 (329)
248 TIGR01243 CDC48 AAA family ATP 96.3 0.0073 1.6E-07 62.2 6.4 51 188-238 178-235 (733)
249 PRK06002 fliI flagellum-specif 96.3 0.019 4.1E-07 54.8 8.6 87 215-304 165-263 (450)
250 KOG0735 AAA+-type ATPase [Post 96.3 0.0084 1.8E-07 59.3 6.3 70 214-304 430-503 (952)
251 PRK07993 DNA polymerase III su 96.3 0.044 9.6E-07 50.8 10.8 126 196-335 10-148 (334)
252 PRK11608 pspF phage shock prot 96.3 0.013 2.9E-07 54.1 7.5 47 188-238 6-52 (326)
253 TIGR03877 thermo_KaiC_1 KaiC d 96.3 0.021 4.6E-07 50.2 8.4 115 213-334 19-170 (237)
254 cd03230 ABC_DR_subfamily_A Thi 96.3 0.012 2.6E-07 49.0 6.5 123 215-340 26-160 (173)
255 PRK12726 flagellar biosynthesi 96.3 0.026 5.7E-07 52.7 9.0 91 213-306 204-296 (407)
256 cd03215 ABC_Carb_Monos_II This 96.3 0.015 3.3E-07 48.9 7.0 24 215-238 26-49 (182)
257 PF03969 AFG1_ATPase: AFG1-lik 96.3 0.0087 1.9E-07 55.9 6.0 80 213-307 60-139 (362)
258 PF00154 RecA: recA bacterial 96.3 0.015 3.3E-07 53.1 7.4 87 212-305 50-141 (322)
259 PRK05022 anaerobic nitric oxid 96.3 0.02 4.2E-07 56.4 8.7 134 187-334 186-331 (509)
260 cd03115 SRP The signal recogni 96.3 0.016 3.6E-07 48.1 7.1 22 217-238 2-23 (173)
261 PF03308 ArgK: ArgK protein; 96.3 0.0057 1.2E-07 53.7 4.3 69 196-268 14-82 (266)
262 PRK06964 DNA polymerase III su 96.2 0.034 7.4E-07 51.6 9.7 42 294-335 131-172 (342)
263 cd00561 CobA_CobO_BtuR ATP:cor 96.2 0.014 3.1E-07 47.7 6.4 119 216-336 3-139 (159)
264 smart00534 MUTSac ATPase domai 96.2 0.0028 6E-08 53.6 2.4 119 217-341 1-128 (185)
265 cd01121 Sms Sms (bacterial rad 96.2 0.033 7.1E-07 52.4 9.6 83 214-304 81-167 (372)
266 cd03246 ABCC_Protease_Secretio 96.2 0.012 2.6E-07 49.0 6.1 121 215-339 28-160 (173)
267 PTZ00088 adenylate kinase 1; P 96.2 0.0061 1.3E-07 53.3 4.4 22 217-238 8-29 (229)
268 COG1703 ArgK Putative periplas 96.2 0.006 1.3E-07 54.4 4.3 70 198-271 38-107 (323)
269 cd01135 V_A-ATPase_B V/A-type 96.2 0.021 4.5E-07 51.0 7.7 90 215-304 69-175 (276)
270 PTZ00185 ATPase alpha subunit; 96.2 0.032 6.9E-07 53.9 9.4 90 215-304 189-298 (574)
271 KOG0734 AAA+-type ATPase conta 96.2 0.0093 2E-07 57.1 5.7 51 190-240 306-362 (752)
272 PRK14974 cell division protein 96.2 0.035 7.5E-07 51.4 9.4 25 214-238 139-163 (336)
273 TIGR01420 pilT_fam pilus retra 96.2 0.028 6.2E-07 52.3 8.9 113 215-339 122-234 (343)
274 COG1875 NYN ribonuclease and A 96.2 0.028 6E-07 51.6 8.4 39 191-235 227-265 (436)
275 PRK06547 hypothetical protein; 96.1 0.0054 1.2E-07 51.1 3.6 26 213-238 13-38 (172)
276 cd02019 NK Nucleoside/nucleoti 96.1 0.0043 9.3E-08 43.2 2.5 22 217-238 1-22 (69)
277 PRK13531 regulatory ATPase Rav 96.1 0.007 1.5E-07 58.2 4.7 43 188-238 20-62 (498)
278 TIGR01817 nifA Nif-specific re 96.1 0.017 3.7E-07 57.2 7.5 132 187-334 195-340 (534)
279 PRK06762 hypothetical protein; 96.1 0.0052 1.1E-07 50.8 3.2 24 215-238 2-25 (166)
280 PF08298 AAA_PrkA: PrkA AAA do 96.1 0.0084 1.8E-07 55.1 4.7 52 187-238 60-111 (358)
281 cd02024 NRK1 Nicotinamide ribo 96.1 0.013 2.8E-07 49.5 5.5 22 217-238 1-22 (187)
282 COG1222 RPT1 ATP-dependent 26S 96.1 0.0097 2.1E-07 54.4 5.0 56 188-245 151-213 (406)
283 TIGR01360 aden_kin_iso1 adenyl 96.1 0.0052 1.1E-07 51.8 3.1 25 214-238 2-26 (188)
284 COG1223 Predicted ATPase (AAA+ 96.0 0.0073 1.6E-07 52.8 3.9 55 186-240 119-176 (368)
285 PRK14721 flhF flagellar biosyn 96.0 0.046 1E-06 52.0 9.6 25 214-238 190-214 (420)
286 KOG2170 ATPase of the AAA+ sup 96.0 0.016 3.4E-07 51.8 5.9 116 188-320 82-203 (344)
287 cd01122 GP4d_helicase GP4d_hel 96.0 0.072 1.6E-06 47.7 10.6 118 215-335 30-191 (271)
288 cd01125 repA Hexameric Replica 96.0 0.027 5.9E-07 49.6 7.6 22 217-238 3-24 (239)
289 PF07724 AAA_2: AAA domain (Cd 96.0 0.0043 9.3E-08 51.7 2.3 43 215-258 3-45 (171)
290 cd02028 UMPK_like Uridine mono 96.0 0.015 3.2E-07 48.9 5.6 22 217-238 1-22 (179)
291 PRK03839 putative kinase; Prov 96.0 0.0056 1.2E-07 51.4 3.0 22 217-238 2-23 (180)
292 PRK09280 F0F1 ATP synthase sub 96.0 0.034 7.4E-07 53.4 8.5 89 215-304 144-247 (463)
293 cd03243 ABC_MutS_homologs The 96.0 0.0047 1E-07 52.9 2.5 122 216-342 30-158 (202)
294 TIGR00064 ftsY signal recognit 96.0 0.049 1.1E-06 48.9 9.1 26 213-238 70-95 (272)
295 PRK08972 fliI flagellum-specif 95.9 0.021 4.5E-07 54.4 6.9 86 215-304 162-261 (444)
296 cd02023 UMPK Uridine monophosp 95.9 0.005 1.1E-07 52.6 2.5 22 217-238 1-22 (198)
297 PRK12597 F0F1 ATP synthase sub 95.9 0.023 5E-07 54.6 7.2 89 215-304 143-246 (461)
298 PF14516 AAA_35: AAA-like doma 95.9 0.099 2.1E-06 48.5 11.3 110 188-306 11-138 (331)
299 cd03217 ABC_FeS_Assembly ABC-t 95.9 0.024 5.3E-07 48.4 6.8 24 215-238 26-49 (200)
300 PRK08149 ATP synthase SpaL; Va 95.9 0.029 6.3E-07 53.4 7.7 86 215-304 151-250 (428)
301 PRK10751 molybdopterin-guanine 95.9 0.0081 1.8E-07 49.9 3.5 26 213-238 4-29 (173)
302 PF00910 RNA_helicase: RNA hel 95.9 0.0051 1.1E-07 46.9 2.2 21 218-238 1-21 (107)
303 cd03285 ABC_MSH2_euk MutS2 hom 95.9 0.0061 1.3E-07 53.1 2.9 121 214-341 29-159 (222)
304 cd03287 ABC_MSH3_euk MutS3 hom 95.9 0.0099 2.1E-07 51.7 4.1 121 215-341 31-160 (222)
305 KOG1051 Chaperone HSP104 and r 95.9 0.053 1.1E-06 55.9 9.8 118 189-320 563-685 (898)
306 PRK04040 adenylate kinase; Pro 95.9 0.0077 1.7E-07 51.0 3.3 24 215-238 2-25 (188)
307 PRK00131 aroK shikimate kinase 95.9 0.0072 1.6E-07 50.1 3.1 25 214-238 3-27 (175)
308 PF08433 KTI12: Chromatin asso 95.9 0.026 5.5E-07 50.6 6.8 23 216-238 2-24 (270)
309 PRK08927 fliI flagellum-specif 95.9 0.031 6.7E-07 53.3 7.6 87 214-304 157-257 (442)
310 PF06309 Torsin: Torsin; Inte 95.8 0.019 4.1E-07 44.8 5.1 50 189-238 26-76 (127)
311 COG3903 Predicted ATPase [Gene 95.8 0.0021 4.6E-08 59.6 -0.2 115 214-336 13-128 (414)
312 COG0194 Gmk Guanylate kinase [ 95.8 0.011 2.4E-07 49.1 4.1 24 215-238 4-27 (191)
313 PRK05922 type III secretion sy 95.8 0.029 6.2E-07 53.5 7.3 86 215-304 157-256 (434)
314 PHA00729 NTP-binding motif con 95.8 0.014 3E-07 50.5 4.8 25 214-238 16-40 (226)
315 TIGR00390 hslU ATP-dependent p 95.8 0.034 7.4E-07 52.5 7.6 51 188-238 12-70 (441)
316 TIGR03498 FliI_clade3 flagella 95.8 0.033 7.1E-07 53.0 7.6 86 215-304 140-239 (418)
317 PRK09519 recA DNA recombinatio 95.8 0.036 7.8E-07 56.5 8.3 87 212-305 57-148 (790)
318 PF13481 AAA_25: AAA domain; P 95.8 0.033 7.2E-07 47.1 7.1 42 216-257 33-82 (193)
319 PRK14723 flhF flagellar biosyn 95.8 0.049 1.1E-06 55.5 9.2 87 215-305 185-273 (767)
320 PRK04328 hypothetical protein; 95.8 0.035 7.5E-07 49.3 7.2 42 213-256 21-62 (249)
321 PRK06995 flhF flagellar biosyn 95.8 0.055 1.2E-06 52.4 9.0 25 215-239 256-280 (484)
322 TIGR01243 CDC48 AAA family ATP 95.8 0.033 7.2E-07 57.4 8.0 51 188-238 453-510 (733)
323 TIGR02322 phosphon_PhnN phosph 95.8 0.0082 1.8E-07 50.3 3.0 23 216-238 2-24 (179)
324 COG3899 Predicted ATPase [Gene 95.8 0.027 5.8E-07 58.7 7.4 46 190-238 2-47 (849)
325 COG0467 RAD55 RecA-superfamily 95.8 0.024 5.3E-07 50.6 6.3 89 212-305 20-134 (260)
326 TIGR01359 UMP_CMP_kin_fam UMP- 95.7 0.0067 1.4E-07 51.0 2.5 22 217-238 1-22 (183)
327 TIGR02768 TraA_Ti Ti-type conj 95.7 0.065 1.4E-06 55.1 9.9 104 216-332 369-474 (744)
328 PF00006 ATP-synt_ab: ATP synt 95.7 0.044 9.4E-07 47.4 7.4 83 216-304 16-114 (215)
329 cd00267 ABC_ATPase ABC (ATP-bi 95.7 0.024 5.1E-07 46.4 5.6 117 216-341 26-146 (157)
330 TIGR03263 guanyl_kin guanylate 95.7 0.0083 1.8E-07 50.2 2.9 23 216-238 2-24 (180)
331 TIGR01069 mutS2 MutS2 family p 95.7 0.0081 1.8E-07 61.7 3.3 120 215-340 322-450 (771)
332 PRK07594 type III secretion sy 95.7 0.047 1E-06 52.1 8.1 86 215-304 155-254 (433)
333 PRK06936 type III secretion sy 95.7 0.041 8.8E-07 52.5 7.6 87 214-304 161-261 (439)
334 PRK15453 phosphoribulokinase; 95.7 0.079 1.7E-06 47.5 9.0 78 214-294 4-89 (290)
335 PRK10820 DNA-binding transcrip 95.7 0.041 8.9E-07 54.3 8.0 133 188-334 204-348 (520)
336 PF08477 Miro: Miro-like prote 95.7 0.01 2.2E-07 45.8 3.0 22 218-239 2-23 (119)
337 PF07726 AAA_3: ATPase family 95.7 0.011 2.3E-07 46.4 3.1 27 218-246 2-28 (131)
338 cd01136 ATPase_flagellum-secre 95.7 0.041 8.9E-07 50.6 7.4 86 215-304 69-168 (326)
339 PRK00625 shikimate kinase; Pro 95.6 0.0088 1.9E-07 49.9 2.8 22 217-238 2-23 (173)
340 PRK00889 adenylylsulfate kinas 95.6 0.012 2.6E-07 49.1 3.6 25 214-238 3-27 (175)
341 PF03205 MobB: Molybdopterin g 95.6 0.011 2.5E-07 47.4 3.3 39 216-255 1-39 (140)
342 cd01132 F1_ATPase_alpha F1 ATP 95.6 0.073 1.6E-06 47.5 8.6 86 215-304 69-170 (274)
343 cd00227 CPT Chloramphenicol (C 95.6 0.0097 2.1E-07 49.7 2.9 23 216-238 3-25 (175)
344 PRK06217 hypothetical protein; 95.6 0.011 2.3E-07 49.9 3.2 35 216-251 2-38 (183)
345 cd02021 GntK Gluconate kinase 95.6 0.0087 1.9E-07 48.5 2.5 22 217-238 1-22 (150)
346 PRK06793 fliI flagellum-specif 95.6 0.074 1.6E-06 50.7 9.1 124 215-343 156-294 (432)
347 TIGR02788 VirB11 P-type DNA tr 95.6 0.026 5.7E-07 51.7 5.9 114 215-339 144-257 (308)
348 TIGR01425 SRP54_euk signal rec 95.6 0.083 1.8E-06 50.4 9.3 26 213-238 98-123 (429)
349 KOG1532 GTPase XAB1, interacts 95.6 0.012 2.6E-07 51.7 3.4 64 212-275 16-88 (366)
350 PRK09099 type III secretion sy 95.6 0.049 1.1E-06 52.2 7.7 88 214-304 162-262 (441)
351 PRK08533 flagellar accessory p 95.5 0.076 1.7E-06 46.5 8.5 49 214-266 23-71 (230)
352 PHA02774 E1; Provisional 95.5 0.042 9E-07 53.9 7.3 48 197-253 421-468 (613)
353 PRK00300 gmk guanylate kinase; 95.5 0.011 2.4E-07 50.6 3.2 24 215-238 5-28 (205)
354 COG0542 clpA ATP-binding subun 95.5 0.011 2.4E-07 59.8 3.5 45 188-238 170-214 (786)
355 PF06745 KaiC: KaiC; InterPro 95.5 0.017 3.7E-07 50.4 4.3 88 213-304 17-124 (226)
356 PF00625 Guanylate_kin: Guanyl 95.5 0.015 3.3E-07 48.9 3.9 36 215-252 2-37 (183)
357 PRK11823 DNA repair protein Ra 95.5 0.075 1.6E-06 51.3 9.1 84 214-305 79-166 (446)
358 TIGR03522 GldA_ABC_ATP gliding 95.5 0.069 1.5E-06 48.8 8.5 24 215-238 28-51 (301)
359 PF13245 AAA_19: Part of AAA d 95.5 0.024 5.2E-07 40.3 4.3 22 216-237 11-33 (76)
360 PF13086 AAA_11: AAA domain; P 95.5 0.018 3.9E-07 49.9 4.4 52 217-268 19-75 (236)
361 TIGR00708 cobA cob(I)alamin ad 95.5 0.05 1.1E-06 45.1 6.7 119 215-335 5-140 (173)
362 COG1066 Sms Predicted ATP-depe 95.5 0.054 1.2E-06 50.6 7.5 82 214-304 92-177 (456)
363 PRK05201 hslU ATP-dependent pr 95.5 0.044 9.5E-07 51.9 7.1 52 187-238 14-73 (443)
364 TIGR03305 alt_F1F0_F1_bet alte 95.5 0.023 5.1E-07 54.3 5.4 89 215-304 138-241 (449)
365 PRK12678 transcription termina 95.5 0.019 4.1E-07 56.1 4.8 100 199-304 405-512 (672)
366 cd00544 CobU Adenosylcobinamid 95.5 0.036 7.7E-07 46.0 5.9 79 218-304 2-82 (169)
367 TIGR03878 thermo_KaiC_2 KaiC d 95.5 0.059 1.3E-06 48.1 7.6 43 213-257 34-76 (259)
368 COG1936 Predicted nucleotide k 95.4 0.011 2.3E-07 48.6 2.5 20 217-236 2-21 (180)
369 cd02020 CMPK Cytidine monophos 95.4 0.011 2.3E-07 47.6 2.5 22 217-238 1-22 (147)
370 PRK11388 DNA-binding transcrip 95.4 0.052 1.1E-06 55.1 8.0 115 188-320 325-441 (638)
371 PRK05688 fliI flagellum-specif 95.4 0.052 1.1E-06 52.0 7.4 86 215-304 168-267 (451)
372 PRK10078 ribose 1,5-bisphospho 95.4 0.013 2.8E-07 49.5 2.9 23 216-238 3-25 (186)
373 PF03193 DUF258: Protein of un 95.4 0.025 5.3E-07 46.4 4.4 35 195-238 24-58 (161)
374 TIGR00416 sms DNA repair prote 95.4 0.093 2E-06 50.8 9.1 85 213-305 92-180 (454)
375 TIGR02655 circ_KaiC circadian 95.4 0.091 2E-06 51.4 9.2 88 212-304 260-362 (484)
376 KOG0736 Peroxisome assembly fa 95.3 0.11 2.3E-06 52.3 9.3 97 189-306 673-775 (953)
377 COG1428 Deoxynucleoside kinase 95.3 0.015 3.2E-07 49.4 3.1 25 215-239 4-28 (216)
378 TIGR01041 ATP_syn_B_arch ATP s 95.3 0.062 1.4E-06 51.7 7.6 90 215-304 141-247 (458)
379 PRK14530 adenylate kinase; Pro 95.3 0.014 2.9E-07 50.6 2.9 23 216-238 4-26 (215)
380 PF10443 RNA12: RNA12 protein; 95.3 0.065 1.4E-06 50.5 7.5 40 193-238 1-41 (431)
381 PRK05342 clpX ATP-dependent pr 95.3 0.056 1.2E-06 51.5 7.2 51 188-238 71-131 (412)
382 PRK03846 adenylylsulfate kinas 95.3 0.018 3.9E-07 49.1 3.6 26 213-238 22-47 (198)
383 cd00071 GMPK Guanosine monopho 95.3 0.013 2.8E-07 46.9 2.5 22 217-238 1-22 (137)
384 TIGR03881 KaiC_arch_4 KaiC dom 95.3 0.11 2.3E-06 45.3 8.6 117 213-334 18-165 (229)
385 PRK13947 shikimate kinase; Pro 95.3 0.014 3E-07 48.4 2.8 22 217-238 3-24 (171)
386 TIGR00150 HI0065_YjeE ATPase, 95.3 0.032 6.9E-07 44.3 4.6 25 215-239 22-46 (133)
387 PRK13949 shikimate kinase; Pro 95.3 0.014 3.1E-07 48.5 2.8 23 216-238 2-24 (169)
388 PRK14737 gmk guanylate kinase; 95.3 0.019 4.1E-07 48.5 3.6 25 214-238 3-27 (186)
389 COG1124 DppF ABC-type dipeptid 95.3 0.015 3.2E-07 50.4 2.9 58 287-344 151-211 (252)
390 PF03266 NTPase_1: NTPase; In 95.3 0.015 3.2E-07 48.3 2.8 22 218-239 2-23 (168)
391 PRK14738 gmk guanylate kinase; 95.2 0.02 4.3E-07 49.2 3.8 26 213-238 11-36 (206)
392 cd01672 TMPK Thymidine monopho 95.2 0.04 8.6E-07 46.6 5.6 22 217-238 2-23 (200)
393 KOG0730 AAA+-type ATPase [Post 95.2 0.083 1.8E-06 52.1 8.2 32 212-245 465-496 (693)
394 PF01583 APS_kinase: Adenylyls 95.2 0.02 4.4E-07 46.7 3.5 88 215-304 2-108 (156)
395 PRK10463 hydrogenase nickel in 95.2 0.083 1.8E-06 47.6 7.7 88 213-306 102-195 (290)
396 TIGR01313 therm_gnt_kin carboh 95.2 0.012 2.7E-07 48.4 2.3 21 218-238 1-21 (163)
397 cd00464 SK Shikimate kinase (S 95.2 0.016 3.5E-07 47.0 2.8 21 218-238 2-22 (154)
398 TIGR01447 recD exodeoxyribonuc 95.2 0.048 1E-06 54.4 6.6 23 216-238 161-183 (586)
399 cd03286 ABC_MSH6_euk MutS6 hom 95.2 0.027 5.9E-07 48.8 4.3 122 215-342 30-160 (218)
400 TIGR03496 FliI_clade1 flagella 95.2 0.081 1.8E-06 50.3 7.8 86 215-304 137-236 (411)
401 PRK07196 fliI flagellum-specif 95.2 0.059 1.3E-06 51.5 6.9 87 214-304 154-254 (434)
402 COG0464 SpoVK ATPases of the A 95.2 0.035 7.7E-07 54.4 5.7 26 213-238 274-299 (494)
403 CHL00195 ycf46 Ycf46; Provisio 95.1 0.032 6.9E-07 54.3 5.2 26 213-238 257-282 (489)
404 cd01134 V_A-ATPase_A V/A-type 95.1 0.19 4.2E-06 46.4 9.9 60 199-267 146-206 (369)
405 COG4240 Predicted kinase [Gene 95.1 0.11 2.5E-06 44.6 7.7 83 212-295 47-133 (300)
406 PRK04132 replication factor C 95.1 0.088 1.9E-06 54.4 8.5 95 223-334 574-669 (846)
407 PRK07721 fliI flagellum-specif 95.1 0.074 1.6E-06 51.0 7.5 88 214-304 157-257 (438)
408 TIGR01039 atpD ATP synthase, F 95.1 0.13 2.8E-06 49.4 9.0 90 214-304 142-246 (461)
409 cd00984 DnaB_C DnaB helicase C 95.1 0.19 4.2E-06 44.1 9.8 41 214-255 12-52 (242)
410 PRK14527 adenylate kinase; Pro 95.1 0.019 4.2E-07 48.6 3.2 25 214-238 5-29 (191)
411 COG0541 Ffh Signal recognition 95.1 0.24 5.3E-06 46.7 10.5 74 197-273 79-157 (451)
412 cd00820 PEPCK_HprK Phosphoenol 95.1 0.021 4.5E-07 43.4 2.9 22 215-236 15-36 (107)
413 PRK13975 thymidylate kinase; P 95.1 0.02 4.3E-07 48.7 3.2 24 216-239 3-26 (196)
414 cd02029 PRK_like Phosphoribulo 95.1 0.079 1.7E-06 47.1 6.9 78 217-296 1-85 (277)
415 PRK00409 recombination and DNA 95.1 0.014 3.1E-07 60.1 2.6 125 214-342 326-457 (782)
416 cd01129 PulE-GspE PulE/GspE Th 95.0 0.055 1.2E-06 48.4 6.1 107 216-339 81-188 (264)
417 PRK13765 ATP-dependent proteas 95.0 0.052 1.1E-06 54.5 6.5 74 188-271 31-104 (637)
418 PF05970 PIF1: PIF1-like helic 95.0 0.05 1.1E-06 51.1 6.0 27 214-240 21-47 (364)
419 TIGR00041 DTMP_kinase thymidyl 95.0 0.057 1.2E-06 45.7 5.9 23 216-238 4-26 (195)
420 cd03284 ABC_MutS1 MutS1 homolo 95.0 0.023 5.1E-07 49.2 3.5 21 216-236 31-51 (216)
421 TIGR01448 recD_rel helicase, p 95.0 0.07 1.5E-06 54.7 7.5 104 216-331 339-449 (720)
422 COG2401 ABC-type ATPase fused 95.0 0.025 5.3E-07 52.9 3.7 159 188-346 371-579 (593)
423 PLN02200 adenylate kinase fami 95.0 0.023 5E-07 49.9 3.5 25 214-238 42-66 (234)
424 COG0714 MoxR-like ATPases [Gen 95.0 0.057 1.2E-06 50.0 6.3 65 189-266 25-89 (329)
425 PRK05800 cobU adenosylcobinami 95.0 0.084 1.8E-06 43.9 6.6 82 216-304 2-85 (170)
426 PRK12339 2-phosphoglycerate ki 95.0 0.023 4.9E-07 48.5 3.3 24 215-238 3-26 (197)
427 TIGR00073 hypB hydrogenase acc 95.0 0.023 5E-07 48.9 3.4 27 212-238 19-45 (207)
428 TIGR02546 III_secr_ATP type II 94.9 0.15 3.4E-06 48.7 9.1 86 215-304 145-244 (422)
429 PF03215 Rad17: Rad17 cell cyc 94.9 0.033 7.1E-07 54.6 4.6 60 189-253 20-79 (519)
430 PRK13889 conjugal transfer rel 94.9 0.19 4.1E-06 53.0 10.3 103 217-332 364-468 (988)
431 cd01124 KaiC KaiC is a circadi 94.9 0.029 6.4E-07 47.1 3.9 37 218-256 2-38 (187)
432 KOG0727 26S proteasome regulat 94.9 0.077 1.7E-06 46.3 6.3 51 188-238 155-212 (408)
433 PF06414 Zeta_toxin: Zeta toxi 94.9 0.023 5E-07 48.5 3.2 120 213-338 13-134 (199)
434 cd04155 Arl3 Arl3 subfamily. 94.9 0.023 5.1E-07 46.9 3.1 25 214-238 13-37 (173)
435 PRK10875 recD exonuclease V su 94.9 0.092 2E-06 52.6 7.7 52 215-266 167-219 (615)
436 COG1126 GlnQ ABC-type polar am 94.9 0.037 8E-07 47.3 4.2 125 214-341 27-202 (240)
437 CHL00059 atpA ATP synthase CF1 94.9 0.15 3.2E-06 49.2 8.8 86 215-304 141-242 (485)
438 PRK08472 fliI flagellum-specif 94.9 0.13 2.8E-06 49.2 8.3 86 215-304 157-255 (434)
439 COG1100 GTPase SAR1 and relate 94.9 0.02 4.3E-07 49.4 2.7 23 216-238 6-28 (219)
440 TIGR00764 lon_rel lon-related 94.9 0.079 1.7E-06 53.2 7.3 74 188-271 18-91 (608)
441 PRK13545 tagH teichoic acids e 94.9 0.2 4.2E-06 49.1 9.6 24 215-238 50-73 (549)
442 CHL00081 chlI Mg-protoporyphyr 94.9 0.031 6.8E-07 51.8 4.1 47 186-238 15-61 (350)
443 cd02027 APSK Adenosine 5'-phos 94.9 0.02 4.3E-07 46.5 2.5 22 217-238 1-22 (149)
444 PF00005 ABC_tran: ABC transpo 94.9 0.024 5.3E-07 45.0 3.0 23 216-238 12-34 (137)
445 PRK05057 aroK shikimate kinase 94.8 0.023 5.1E-07 47.3 3.0 24 215-238 4-27 (172)
446 COG1116 TauB ABC-type nitrate/ 94.8 0.023 5E-07 49.5 2.9 126 215-342 29-198 (248)
447 PRK06731 flhF flagellar biosyn 94.8 0.24 5.1E-06 44.4 9.5 24 215-238 75-98 (270)
448 PF03029 ATP_bind_1: Conserved 94.8 0.019 4E-07 50.6 2.4 21 220-240 1-21 (238)
449 TIGR01026 fliI_yscN ATPase Fli 94.8 0.12 2.6E-06 49.7 8.1 86 215-304 163-262 (440)
450 KOG3347 Predicted nucleotide k 94.8 0.046 1E-06 43.8 4.3 25 214-238 6-30 (176)
451 smart00487 DEXDc DEAD-like hel 94.8 0.073 1.6E-06 44.4 6.0 22 216-237 25-47 (201)
452 PTZ00494 tuzin-like protein; P 94.8 0.35 7.5E-06 46.1 10.6 80 185-275 368-447 (664)
453 PRK07132 DNA polymerase III su 94.8 0.53 1.2E-05 42.9 11.8 104 214-334 17-129 (299)
454 PRK00698 tmk thymidylate kinas 94.8 0.069 1.5E-06 45.6 5.8 23 216-238 4-26 (205)
455 cd04139 RalA_RalB RalA/RalB su 94.8 0.027 5.8E-07 45.9 3.1 22 217-238 2-23 (164)
456 PF01078 Mg_chelatase: Magnesi 94.8 0.05 1.1E-06 46.4 4.7 42 188-237 3-44 (206)
457 PLN02348 phosphoribulokinase 94.7 0.031 6.7E-07 52.4 3.7 26 213-238 47-72 (395)
458 TIGR03497 FliI_clade2 flagella 94.7 0.084 1.8E-06 50.3 6.7 87 214-304 136-236 (413)
459 TIGR03575 selen_PSTK_euk L-ser 94.7 0.1 2.3E-06 48.2 7.1 21 218-238 2-22 (340)
460 PRK14532 adenylate kinase; Pro 94.6 0.026 5.7E-07 47.6 2.8 21 218-238 3-23 (188)
461 PRK08356 hypothetical protein; 94.6 0.033 7.1E-07 47.4 3.4 20 216-235 6-25 (195)
462 KOG0733 Nuclear AAA ATPase (VC 94.6 0.082 1.8E-06 51.7 6.3 31 213-245 543-573 (802)
463 PRK13948 shikimate kinase; Pro 94.6 0.032 6.9E-07 46.9 3.2 25 214-238 9-33 (182)
464 PF01926 MMR_HSR1: 50S ribosom 94.6 0.032 6.9E-07 42.9 3.0 21 218-238 2-22 (116)
465 cd03227 ABC_Class2 ABC-type Cl 94.6 0.083 1.8E-06 43.5 5.7 46 295-340 99-146 (162)
466 COG3640 CooC CO dehydrogenase 94.6 0.058 1.3E-06 46.6 4.7 21 217-237 2-22 (255)
467 PRK06761 hypothetical protein; 94.6 0.056 1.2E-06 48.6 4.9 24 216-239 4-27 (282)
468 PRK09825 idnK D-gluconate kina 94.6 0.03 6.5E-07 46.8 3.0 23 216-238 4-26 (176)
469 PF07693 KAP_NTPase: KAP famil 94.6 0.14 3.1E-06 47.1 7.8 71 197-270 5-80 (325)
470 TIGR02868 CydC thiol reductant 94.6 0.1 2.2E-06 51.6 7.3 25 214-238 360-384 (529)
471 PRK07276 DNA polymerase III su 94.6 0.41 8.9E-06 43.3 10.4 42 294-335 103-144 (290)
472 PF13521 AAA_28: AAA domain; P 94.6 0.027 5.8E-07 46.4 2.6 21 218-238 2-22 (163)
473 COG2019 AdkA Archaeal adenylat 94.6 0.035 7.6E-07 45.3 3.1 24 215-238 4-27 (189)
474 TIGR02902 spore_lonB ATP-depen 94.5 0.043 9.4E-07 54.2 4.5 45 188-238 65-109 (531)
475 cd01130 VirB11-like_ATPase Typ 94.5 0.056 1.2E-06 45.6 4.6 36 196-238 13-48 (186)
476 cd01428 ADK Adenylate kinase ( 94.5 0.028 6.1E-07 47.5 2.8 21 218-238 2-22 (194)
477 PF02374 ArsA_ATPase: Anion-tr 94.5 0.05 1.1E-06 49.8 4.6 22 216-237 2-23 (305)
478 TIGR00176 mobB molybdopterin-g 94.5 0.027 5.8E-07 46.1 2.5 23 217-239 1-23 (155)
479 TIGR01040 V-ATPase_V1_B V-type 94.5 0.083 1.8E-06 50.5 6.1 90 215-304 141-256 (466)
480 COG1763 MobB Molybdopterin-gua 94.5 0.031 6.7E-07 45.8 2.8 24 215-238 2-25 (161)
481 PRK04182 cytidylate kinase; Pr 94.5 0.032 6.9E-07 46.5 3.0 22 217-238 2-23 (180)
482 PRK11160 cysteine/glutathione 94.5 0.25 5.4E-06 49.5 9.9 25 214-238 365-389 (574)
483 PRK06820 type III secretion sy 94.5 0.21 4.5E-06 47.9 8.8 86 215-304 163-262 (440)
484 PRK10416 signal recognition pa 94.5 0.037 7.9E-07 50.9 3.6 25 214-238 113-137 (318)
485 smart00173 RAS Ras subfamily o 94.5 0.031 6.6E-07 45.7 2.8 22 217-238 2-23 (164)
486 PRK13946 shikimate kinase; Pro 94.5 0.031 6.8E-07 47.1 2.9 24 215-238 10-33 (184)
487 PRK09435 membrane ATPase/prote 94.5 0.082 1.8E-06 48.8 5.8 26 213-238 54-79 (332)
488 TIGR02173 cyt_kin_arch cytidyl 94.5 0.034 7.3E-07 46.0 3.0 22 217-238 2-23 (171)
489 cd03116 MobB Molybdenum is an 94.4 0.037 8E-07 45.4 3.2 23 216-238 2-24 (159)
490 PRK05986 cob(I)alamin adenolsy 94.4 0.12 2.6E-06 43.5 6.3 119 215-335 22-158 (191)
491 TIGR00750 lao LAO/AO transport 94.4 0.067 1.4E-06 48.9 5.1 26 213-238 32-57 (300)
492 PRK01184 hypothetical protein; 94.4 0.033 7.1E-07 46.8 2.8 18 216-233 2-19 (184)
493 PRK07960 fliI flagellum-specif 94.4 0.13 2.8E-06 49.3 7.0 25 214-238 174-198 (455)
494 TIGR03574 selen_PSTK L-seryl-t 94.4 0.028 6.1E-07 49.8 2.5 22 217-238 1-22 (249)
495 COG0003 ArsA Predicted ATPase 94.4 0.076 1.7E-06 48.7 5.3 23 215-237 2-24 (322)
496 PLN02318 phosphoribulokinase/u 94.4 0.041 8.9E-07 54.2 3.7 26 213-238 63-88 (656)
497 PRK14531 adenylate kinase; Pro 94.4 0.036 7.8E-07 46.6 3.0 23 216-238 3-25 (183)
498 cd04119 RJL RJL (RabJ-Like) su 94.4 0.034 7.3E-07 45.4 2.8 21 218-238 3-23 (168)
499 PHA02530 pseT polynucleotide k 94.4 0.036 7.7E-07 50.6 3.2 23 216-238 3-25 (300)
500 PLN02796 D-glycerate 3-kinase 94.3 0.04 8.6E-07 50.8 3.5 26 213-238 98-123 (347)
No 1
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=100.00 E-value=3.1e-35 Score=297.54 Aligned_cols=301 Identities=29% Similarity=0.429 Sum_probs=236.6
Q ss_pred HHHHhhHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhcccCChHHHHHHHHHHHHhhchhhhhhhHHHHHHHHHHh
Q 048163 17 VNKLASEGIRLFARQEQIQADLKKWKNMLVMIKAVLADAEEKKTTDQSVKLWLGELQNLAYDVEDLLDEFQTEVFRRKLL 96 (350)
Q Consensus 17 ~~~l~~~~~~~~~~~~~v~~~~~~L~~~l~~i~~~l~~a~~~~~~~~~~~~Wl~~lr~~ay~~eD~lD~~~~~~~~~~~~ 96 (350)
++++.+.+..++....+.++++..|+..|..++.++++++.++........|.+.+++++|++||.++.|.......+..
T Consensus 9 ~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~ 88 (889)
T KOG4658|consen 9 VEKLDQLLNRESECLDGKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKAN 88 (889)
T ss_pred hhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445556667888889999999999999999999999999998899999999999999999999999999988766543
Q ss_pred hCCCCCCcccCCCCCccccccccccccccccccCCCcchhhhHHHHHHHHHHHHHHHHHHhhhhhCCCcccCCCCc--cc
Q 048163 97 LGNGEPAAALDQPSSSRTRTSKFRKLIPTCCTTFAPQSIQFDYAIMSKIKEINGRFQEIVTQKDSLGLNVSSGGRT--IK 174 (350)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~l~~i~~~~~~~~~~~~~~~~~--~~ 174 (350)
+ .-. ......... |+. .+.+.....+..+.+++..+.+....++......... ..
T Consensus 89 ~-------------~l~-~~~~~~~~~--c~~-------~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~ 145 (889)
T KOG4658|consen 89 D-------------LLS-TRSVERQRL--CLC-------GFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLD 145 (889)
T ss_pred H-------------Hhh-hhHHHHHHH--hhh-------hhHhHhhhhhHhHHHHHHHHHHHHHHhccccceeccccccc
Confidence 2 000 000111111 221 2345566666677777777777777776443221111 11
Q ss_pred ccccccccccccccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccc-cccccCceeEEEe
Q 048163 175 DRQRRETTSLVKEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQ-VQDHFDLKAWTCV 253 (350)
Q Consensus 175 ~~~~~~~~~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~-~~~~F~~~~wv~~ 253 (350)
+....+..+..+... +|.++.++++.+.|..++ ..+++|+||||+||||||++++|+.. +..+|+.++||++
T Consensus 146 ~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~V 218 (889)
T KOG4658|consen 146 PREKVETRPIQSESD-VGLETMLEKLWNRLMEDD------VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVV 218 (889)
T ss_pred chhhcccCCCCcccc-ccHHHHHHHHHHHhccCC------CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEE
Confidence 222233344334444 999999999999999875 28999999999999999999999987 9999999999999
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec
Q 048163 254 SDDFDVFRLTKTILISIVPDQNV-DNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA 332 (350)
Q Consensus 254 ~~~~~~~~~~~~il~~l~~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt 332 (350)
|+.|+...++.+|+..++..... ......+++..|.+.|++|||||||||||+. .+|+.+..++|...+||+|++||
T Consensus 219 Sk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~dw~~I~~~~p~~~~g~KvvlTT 296 (889)
T KOG4658|consen 219 SKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VDWDKIGVPFPSRENGSKVVLTT 296 (889)
T ss_pred cccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEeccccc--ccHHhcCCCCCCccCCeEEEEEe
Confidence 99999999999999998875442 2334578999999999999999999999997 68999999999988999999999
Q ss_pred CChhHHHh-cCCCCceeC
Q 048163 333 RNQEVAAI-MGTVRAYQL 349 (350)
Q Consensus 333 r~~~va~~-~~~~~~~~l 349 (350)
|+++||.. |++..++++
T Consensus 297 Rs~~V~~~~m~~~~~~~v 314 (889)
T KOG4658|consen 297 RSEEVCGRAMGVDYPIEV 314 (889)
T ss_pred ccHhhhhccccCCccccc
Confidence 99999999 888777765
No 2
>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=99.92 E-value=3.6e-25 Score=201.11 Aligned_cols=151 Identities=38% Similarity=0.638 Sum_probs=122.0
Q ss_pred chhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCC
Q 048163 193 RETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVP 272 (350)
Q Consensus 193 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~ 272 (350)
|+.++++|.++|.... +..++|+|+|+||+||||||.+++++..++.+|+.++|++++...+..+++..|+.++..
T Consensus 1 re~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~ 76 (287)
T PF00931_consen 1 REKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGE 76 (287)
T ss_dssp -HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTC
T ss_pred CHHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccc
Confidence 6889999999998743 468999999999999999999999987789999999999999999999999999999988
Q ss_pred CCCC--CCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChhHHHhcCC-CCceeC
Q 048163 273 DQNV--DNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQEVAAIMGT-VRAYQL 349 (350)
Q Consensus 273 ~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~~~~~-~~~~~l 349 (350)
.... ...+.......+.+.|++++|||||||||+. ..|+.+...++....||+||+|||+..++..++. ...|+|
T Consensus 77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l 154 (287)
T PF00931_consen 77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE--EDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIEL 154 (287)
T ss_dssp C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH--HHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEEC
T ss_pred cccccccccccccccccchhhhccccceeeeeeeccc--ccccccccccccccccccccccccccccccccccccccccc
Confidence 7542 4567888999999999999999999999876 5888888888777789999999999999877654 345554
No 3
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.77 E-value=4.5e-18 Score=180.54 Aligned_cols=153 Identities=21% Similarity=0.363 Sum_probs=112.6
Q ss_pred cccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEe---CCC------
Q 048163 186 KEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCV---SDD------ 256 (350)
Q Consensus 186 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~---~~~------ 256 (350)
....++|++..++++..+|.-. ....++|+||||||+||||||+.+|+. +..+|+..+|+.. ...
T Consensus 182 ~~~~~vG~~~~l~~l~~lL~l~----~~~~~vvgI~G~gGiGKTTLA~~l~~~--l~~~F~g~vfv~~~~v~~~~~~~~~ 255 (1153)
T PLN03210 182 DFEDFVGIEDHIAKMSSLLHLE----SEEVRMVGIWGSSGIGKTTIARALFSR--LSRQFQSSVFIDRAFISKSMEIYSS 255 (1153)
T ss_pred ccccccchHHHHHHHHHHHccc----cCceEEEEEEcCCCCchHHHHHHHHHH--HhhcCCeEEEeeccccccchhhccc
Confidence 3467999999999999888533 346899999999999999999999996 6778988888742 110
Q ss_pred -----CC-HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE
Q 048163 257 -----FD-VFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV 330 (350)
Q Consensus 257 -----~~-~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv 330 (350)
++ ...+..+++..+........... ..+++.|+++|+||||||||+. ..|+.+........+||+|||
T Consensus 256 ~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~----~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIi 329 (1153)
T PLN03210 256 ANPDDYNMKLHLQRAFLSEILDKKDIKIYHL----GAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIV 329 (1153)
T ss_pred ccccccchhHHHHHHHHHHHhCCCCcccCCH----HHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEE
Confidence 11 12344455555433221111222 4567788999999999999875 678888776555578999999
Q ss_pred ecCChhHHHhcCCCCceeCC
Q 048163 331 TARNQEVAAIMGTVRAYQLK 350 (350)
Q Consensus 331 Ttr~~~va~~~~~~~~~~l~ 350 (350)
|||++.++..+++.+.|.|+
T Consensus 330 TTrd~~vl~~~~~~~~~~v~ 349 (1153)
T PLN03210 330 ITKDKHFLRAHGIDHIYEVC 349 (1153)
T ss_pred EeCcHHHHHhcCCCeEEEec
Confidence 99999999888877777764
No 4
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=99.15 E-value=4.7e-10 Score=106.62 Aligned_cols=120 Identities=15% Similarity=0.166 Sum_probs=88.1
Q ss_pred cccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHH
Q 048163 186 KEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKT 265 (350)
Q Consensus 186 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 265 (350)
.+..++||++++++|...|...- .......+.|+|++|+|||++++.++++.......-..+++++....+...++..
T Consensus 28 ~P~~l~~Re~e~~~l~~~l~~~~--~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~ 105 (394)
T PRK00411 28 VPENLPHREEQIEELAFALRPAL--RGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSE 105 (394)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHh--CCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHH
Confidence 45679999999999999885432 1223456789999999999999999987433332345677888877788899999
Q ss_pred HHHHhCCC-CCCCCCCHHHHHHHHHHHcC--CceEEEEEeCCCCC
Q 048163 266 ILISIVPD-QNVDNHNLNKLQEELKKKLS--GKIFLLVLDDVWNE 307 (350)
Q Consensus 266 il~~l~~~-~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~ 307 (350)
|+.++... .+....+..++...+.+.+. ++..+||||+++..
T Consensus 106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l 150 (394)
T PRK00411 106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYL 150 (394)
T ss_pred HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHh
Confidence 99998763 22133456667777777764 45789999999653
No 5
>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=99.03 E-value=4.4e-09 Score=98.92 Aligned_cols=119 Identities=14% Similarity=0.188 Sum_probs=83.9
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccc-ccc---CceeEEEeCCCCCHHHH
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ-DHF---DLKAWTCVSDDFDVFRL 262 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~-~~F---~~~~wv~~~~~~~~~~~ 262 (350)
+..++||++++++|..+|...- .......+.|+|++|+|||++++.+++..... ... -..+|+++....+...+
T Consensus 14 p~~l~gRe~e~~~l~~~l~~~~--~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~ 91 (365)
T TIGR02928 14 PDRIVHRDEQIEELAKALRPIL--RGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQV 91 (365)
T ss_pred CCCCCCcHHHHHHHHHHHHHHH--cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHH
Confidence 4578999999999999987532 12234678999999999999999999863211 111 24578888877788899
Q ss_pred HHHHHHHhC---CCCCCCCCCHHHHHHHHHHHc--CCceEEEEEeCCCCC
Q 048163 263 TKTILISIV---PDQNVDNHNLNKLQEELKKKL--SGKIFLLVLDDVWNE 307 (350)
Q Consensus 263 ~~~il~~l~---~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~ 307 (350)
+..|+.++. ...+....+..++...+.+.+ .+++++||||+++..
T Consensus 92 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L 141 (365)
T TIGR02928 92 LVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL 141 (365)
T ss_pred HHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence 999999984 222212234455555565655 356899999999654
No 6
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.88 E-value=2.8e-09 Score=84.79 Aligned_cols=118 Identities=17% Similarity=0.197 Sum_probs=79.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccc---cccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQ---DHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKK 290 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~---~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~ 290 (350)
+.+.+.|+|++|+|||++++.+.++.... ..-...+|+.+....+...+...|+..++.... ...+...+...+.+
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~-~~~~~~~l~~~~~~ 81 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLK-SRQTSDELRSLLID 81 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSS-STS-HHHHHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCcccc-ccCCHHHHHHHHHH
Confidence 35789999999999999999998863210 013456799998888999999999999998765 34566777777777
Q ss_pred HcCC-ceEEEEEeCCCCC-CcccHhhhcCccCCCCCCceEEEecCC
Q 048163 291 KLSG-KIFLLVLDDVWNE-NYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 291 ~l~~-kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
.+.. +..+||+|++..- +...++.+.. +.+ ..+.++|+..+.
T Consensus 82 ~l~~~~~~~lviDe~~~l~~~~~l~~l~~-l~~-~~~~~vvl~G~~ 125 (131)
T PF13401_consen 82 ALDRRRVVLLVIDEADHLFSDEFLEFLRS-LLN-ESNIKVVLVGTP 125 (131)
T ss_dssp HHHHCTEEEEEEETTHHHHTHHHHHHHHH-HTC-SCBEEEEEEESS
T ss_pred HHHhcCCeEEEEeChHhcCCHHHHHHHHH-HHh-CCCCeEEEEECh
Confidence 7754 4469999999543 3334444433 222 567777776655
No 7
>PF05729 NACHT: NACHT domain
Probab=98.87 E-value=7.2e-09 Score=85.73 Aligned_cols=116 Identities=23% Similarity=0.251 Sum_probs=66.7
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccc----cCceeEEEeCCCCCHH---HHHHHHHHHhCCCCCCCCCCHHHHHHHH
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDH----FDLKAWTCVSDDFDVF---RLTKTILISIVPDQNVDNHNLNKLQEEL 288 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~----F~~~~wv~~~~~~~~~---~~~~~il~~l~~~~~~~~~~~~~~~~~l 288 (350)
+++.|+|.+|+||||+++.++........ +...+|.+........ .+...|..+... ...........+
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~----~~~~~~~~~~~~ 76 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPE----SIAPIEELLQEL 76 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhcc----chhhhHHHHHHH
Confidence 47899999999999999999876433222 4566777765543322 232233222221 111122111111
Q ss_pred HHHcCCceEEEEEeCCCCCCcc-------cHhhhc-CccCC-CCCCceEEEecCChhH
Q 048163 289 KKKLSGKIFLLVLDDVWNENYN-------DWDRLR-PPFEA-GAPGSKIIVTARNQEV 337 (350)
Q Consensus 289 ~~~l~~kr~LlVlDdv~~~~~~-------~~~~l~-~~l~~-~~~gs~iivTtr~~~v 337 (350)
. .+.++++||||++...... .+..+. ..++. ..+++++++|+|....
T Consensus 77 ~--~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~ 132 (166)
T PF05729_consen 77 L--EKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAF 132 (166)
T ss_pred H--HcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChH
Confidence 1 2578999999999554221 122222 22222 3568999999999776
No 8
>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=98.77 E-value=6.8e-08 Score=77.72 Aligned_cols=125 Identities=17% Similarity=0.077 Sum_probs=71.9
Q ss_pred ccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHh
Q 048163 191 YGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISI 270 (350)
Q Consensus 191 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l 270 (350)
+|++..+..+...+... ....+.|+|++|+|||++++.+++... ..-..++++..............+...
T Consensus 1 ~~~~~~~~~i~~~~~~~------~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~~- 71 (151)
T cd00009 1 VGQEEAIEALREALELP------PPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFGHF- 71 (151)
T ss_pred CchHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhHHHHHhhhh-
Confidence 36777888888887543 346888999999999999999998632 222345666665533322211111000
Q ss_pred CCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCC------CCCceEEEecCChh
Q 048163 271 VPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAG------APGSKIIVTARNQE 336 (350)
Q Consensus 271 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~------~~gs~iivTtr~~~ 336 (350)
............+..+||+||++.........+...+... ..+..||+||....
T Consensus 72 ------------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~ 131 (151)
T cd00009 72 ------------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL 131 (151)
T ss_pred ------------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence 0111112223456789999999753222222232222211 35788888888654
No 9
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=98.73 E-value=4.5e-08 Score=82.61 Aligned_cols=51 Identities=25% Similarity=0.362 Sum_probs=34.3
Q ss_pred ccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccc
Q 048163 189 KVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ 242 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~ 242 (350)
.|+||+++.+++...|... .....+.+.|+|++|+|||+|.+.++......
T Consensus 1 ~fvgR~~e~~~l~~~l~~~---~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 1 QFVGREEEIERLRDLLDAA---QSGSPRNLLLTGESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp --TT-HHHHHHHHHTTGGT---SS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHH---HcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 4799999999999999522 24457999999999999999999998874433
No 10
>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=98.71 E-value=2.3e-08 Score=88.18 Aligned_cols=91 Identities=19% Similarity=0.159 Sum_probs=63.5
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC--CCHHHHHHHHHHHhCCCCCCCCC-----CHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD--FDVFRLTKTILISIVPDQNVDNH-----NLNKLQE 286 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~il~~l~~~~~~~~~-----~~~~~~~ 286 (350)
.-..+.|+|++|+|||||++.+|++.... +|+..+|+.+... +++.++++.+...+-..+...+. -......
T Consensus 15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~ 93 (249)
T cd01128 15 KGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLE 93 (249)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHH
Confidence 34678999999999999999999985444 8999999997766 78999999984433332221111 1112223
Q ss_pred HHHHH-cCCceEEEEEeCCC
Q 048163 287 ELKKK-LSGKIFLLVLDDVW 305 (350)
Q Consensus 287 ~l~~~-l~~kr~LlVlDdv~ 305 (350)
....+ -.+++.++++|++.
T Consensus 94 ~a~~~~~~G~~vll~iDei~ 113 (249)
T cd01128 94 KAKRLVEHGKDVVILLDSIT 113 (249)
T ss_pred HHHHHHHCCCCEEEEEECHH
Confidence 33332 25899999999993
No 11
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=98.68 E-value=6.3e-08 Score=88.45 Aligned_cols=115 Identities=29% Similarity=0.410 Sum_probs=72.5
Q ss_pred ccccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 185 VKEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 185 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
..+.+++|-...+.++++ .+.+....+|||+|+||||||+.+... ....| ..++..++-..-++
T Consensus 27 vGQ~HLlg~~~~lrr~v~---------~~~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f-----~~~sAv~~gvkdlr 90 (436)
T COG2256 27 VGQEHLLGEGKPLRRAVE---------AGHLHSMILWGPPGTGKTTLARLIAGT--TNAAF-----EALSAVTSGVKDLR 90 (436)
T ss_pred cChHhhhCCCchHHHHHh---------cCCCceeEEECCCCCCHHHHHHHHHHh--hCCce-----EEeccccccHHHHH
Confidence 344555666555555544 346788889999999999999999875 33333 23333332222222
Q ss_pred HHHHHhCCCCCCCCCCHHHHHHHH-HHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE--ecCChh
Q 048163 265 TILISIVPDQNVDNHNLNKLQEEL-KKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV--TARNQE 336 (350)
Q Consensus 265 ~il~~l~~~~~~~~~~~~~~~~~l-~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv--Ttr~~~ 336 (350)
.++ +.- +....+++.+|++|+|...+..+.+.+.+ ....|.-|+| ||.+.+
T Consensus 91 ~i~------------------e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp---~vE~G~iilIGATTENPs 144 (436)
T COG2256 91 EII------------------EEARKNRLLGRRTILFLDEIHRFNKAQQDALLP---HVENGTIILIGATTENPS 144 (436)
T ss_pred HHH------------------HHHHHHHhcCCceEEEEehhhhcChhhhhhhhh---hhcCCeEEEEeccCCCCC
Confidence 222 222 22335899999999998777666666644 4456877776 777664
No 12
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=98.67 E-value=6.5e-08 Score=87.09 Aligned_cols=101 Identities=20% Similarity=0.265 Sum_probs=69.1
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL 292 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l 292 (350)
+....+.+||++|+||||||+.+.+..+... ..+|..|....-..-.++|+++.... ..+
T Consensus 160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~~----------------~~l 219 (554)
T KOG2028|consen 160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQNE----------------KSL 219 (554)
T ss_pred CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHHH----------------Hhh
Confidence 3578889999999999999999998744333 56777776655555556666553321 234
Q ss_pred CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE--ecCChh
Q 048163 293 SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV--TARNQE 336 (350)
Q Consensus 293 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv--Ttr~~~ 336 (350)
..+|.+|.+|+|...+..+.+.+ ||.-..|+-++| ||.+.+
T Consensus 220 ~krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPS 262 (554)
T KOG2028|consen 220 TKRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPS 262 (554)
T ss_pred hcceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCc
Confidence 57899999999976655555554 444456766666 676654
No 13
>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=98.65 E-value=6.4e-07 Score=80.48 Aligned_cols=98 Identities=27% Similarity=0.265 Sum_probs=64.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc--
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL-- 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-- 292 (350)
...+.|+|++|+|||||++.+++..... .+ ...|+ +....+..+++..|+..++.... ..+...+...+.+.+
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~--~~~~~~~~~~l~~~l~~ 117 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKL-VNTRVDAEDLLRMVAADFGLETE--GRDKAALLRELEDFLIE 117 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeee-eCCCCCHHHHHHHHHHHcCCCCC--CCCHHHHHHHHHHHHHH
Confidence 4688999999999999999999864321 11 12233 33345778899999988876432 233333333333322
Q ss_pred ---CCceEEEEEeCCCCCCcccHhhhcC
Q 048163 293 ---SGKIFLLVLDDVWNENYNDWDRLRP 317 (350)
Q Consensus 293 ---~~kr~LlVlDdv~~~~~~~~~~l~~ 317 (350)
.+++++||+||++......++.+..
T Consensus 118 ~~~~~~~~vliiDe~~~l~~~~~~~l~~ 145 (269)
T TIGR03015 118 QFAAGKRALLVVDEAQNLTPELLEELRM 145 (269)
T ss_pred HHhCCCCeEEEEECcccCCHHHHHHHHH
Confidence 6788999999998876556666543
No 14
>PF13173 AAA_14: AAA domain
Probab=98.64 E-value=4.7e-08 Score=77.63 Aligned_cols=102 Identities=21% Similarity=0.245 Sum_probs=67.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
-+++.|.|+.|+|||||+++++.+.. ....++++++......... ..+ +.+.+.+....
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~-----------------~~~-~~~~~~~~~~~ 60 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLA-----------------DPD-LLEYFLELIKP 60 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHh-----------------hhh-hHHHHHHhhcc
Confidence 36899999999999999999987633 3455677776653221100 000 22333333334
Q ss_pred ceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChhHHH
Q 048163 295 KIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~ 339 (350)
++.+|+||++.. ..+|......+.+..+..+|++|+.+.....
T Consensus 61 ~~~~i~iDEiq~--~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~ 103 (128)
T PF13173_consen 61 GKKYIFIDEIQY--LPDWEDALKFLVDNGPNIKIILTGSSSSLLS 103 (128)
T ss_pred CCcEEEEehhhh--hccHHHHHHHHHHhccCceEEEEccchHHHh
Confidence 788899999943 4678877777765555679999999877664
No 15
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=3.8e-07 Score=85.01 Aligned_cols=116 Identities=19% Similarity=0.183 Sum_probs=87.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
..+.+|+.+.+++...|...- .......+.|+|+.|+|||++++.|.+..+....=...++|++....+..+++..|+
T Consensus 17 ~~l~~Re~ei~~l~~~l~~~~--~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~ 94 (366)
T COG1474 17 EELPHREEEINQLASFLAPAL--RGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKIL 94 (366)
T ss_pred ccccccHHHHHHHHHHHHHHh--cCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHH
Confidence 348899999999999887643 122334499999999999999999998643222112279999999999999999999
Q ss_pred HHhCCCCCCCCCCHHHHHHHHHHHc--CCceEEEEEeCCCC
Q 048163 268 ISIVPDQNVDNHNLNKLQEELKKKL--SGKIFLLVLDDVWN 306 (350)
Q Consensus 268 ~~l~~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~ 306 (350)
.+++.... ......+....+.+.+ .++.+++|||++..
T Consensus 95 ~~~~~~p~-~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~ 134 (366)
T COG1474 95 NKLGKVPL-TGDSSLEILKRLYDNLSKKGKTVIVILDEVDA 134 (366)
T ss_pred HHcCCCCC-CCCchHHHHHHHHHHHHhcCCeEEEEEcchhh
Confidence 99974332 4455566666777766 45889999999954
No 16
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=98.61 E-value=2.3e-07 Score=92.87 Aligned_cols=120 Identities=18% Similarity=0.095 Sum_probs=81.3
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccc---cccc--CceeEEEeCCCCCHHH
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQV---QDHF--DLKAWTCVSDDFDVFR 261 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~---~~~F--~~~~wv~~~~~~~~~~ 261 (350)
+..+.||++|+++|...|...-. +.....++.|+|++|+|||++++.|...... .... -..++|++..-.+...
T Consensus 754 PD~LPhREeEIeeLasfL~paIk-gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s 832 (1164)
T PTZ00112 754 PKYLPCREKEIKEVHGFLESGIK-QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA 832 (1164)
T ss_pred CCcCCChHHHHHHHHHHHHHHHh-cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence 46789999999999998875321 1223467889999999999999999875321 1111 2357888877677888
Q ss_pred HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc-C--CceEEEEEeCCCCC
Q 048163 262 LTKTILISIVPDQNVDNHNLNKLQEELKKKL-S--GKIFLLVLDDVWNE 307 (350)
Q Consensus 262 ~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-~--~kr~LlVlDdv~~~ 307 (350)
++..|..++....+.......+....+...+ . ....+||||++...
T Consensus 833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L 881 (1164)
T PTZ00112 833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYL 881 (1164)
T ss_pred HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhh
Confidence 9999998885544333333344444555444 2 23468999999543
No 17
>PTZ00202 tuzin; Provisional
Probab=98.57 E-value=1.2e-06 Score=81.69 Aligned_cols=106 Identities=18% Similarity=0.212 Sum_probs=72.1
Q ss_pred ccccccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHH
Q 048163 183 SLVKEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRL 262 (350)
Q Consensus 183 ~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 262 (350)
.+.+...|+||+.+...|...|...+. ...+++.|.|++|+|||||++.+..... +. ...++.. +..++
T Consensus 257 lPa~~~~FVGReaEla~Lr~VL~~~d~---~~privvLtG~~G~GKTTLlR~~~~~l~----~~-qL~vNpr---g~eEl 325 (550)
T PTZ00202 257 APAVIRQFVSREAEESWVRQVLRRLDT---AHPRIVVFTGFRGCGKSSLCRSAVRKEG----MP-AVFVDVR---GTEDT 325 (550)
T ss_pred CCCCccCCCCcHHHHHHHHHHHhccCC---CCceEEEEECCCCCCHHHHHHHHHhcCC----ce-EEEECCC---CHHHH
Confidence 334567899999999999999875432 2346999999999999999999986422 21 2222222 67999
Q ss_pred HHHHHHHhCCCCCCCCCCHHHHHHHHHHHc-----C-CceEEEEEe
Q 048163 263 TKTILISIVPDQNVDNHNLNKLQEELKKKL-----S-GKIFLLVLD 302 (350)
Q Consensus 263 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-----~-~kr~LlVlD 302 (350)
++.++.+|+.+.. ....++.+.|.+.| . +++-+||+-
T Consensus 326 Lr~LL~ALGV~p~---~~k~dLLrqIqeaLl~~~~e~GrtPVLII~ 368 (550)
T PTZ00202 326 LRSVVKALGVPNV---EACGDLLDFISEACRRAKKMNGETPLLVLK 368 (550)
T ss_pred HHHHHHHcCCCCc---ccHHHHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence 9999999997332 22233333443333 2 667777765
No 18
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=98.54 E-value=1.8e-07 Score=86.48 Aligned_cols=101 Identities=18% Similarity=0.191 Sum_probs=66.9
Q ss_pred HHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC--CHHHHHHHHHHHhCCCCCC
Q 048163 199 DVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF--DVFRLTKTILISIVPDQNV 276 (350)
Q Consensus 199 ~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~il~~l~~~~~~ 276 (350)
++++++..-. .-....|+|++|+|||||++.+|++.... +|+..+||.+.+.+ .+.++++.++..+-..+..
T Consensus 158 rvID~l~PIG-----kGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d 231 (416)
T PRK09376 158 RIIDLIAPIG-----KGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFD 231 (416)
T ss_pred eeeeeecccc-----cCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCC
Confidence 4555555432 34567899999999999999999985444 89999999998887 6778888776433222221
Q ss_pred CCCCH-----HHHHHHHHHH-cCCceEEEEEeCCC
Q 048163 277 DNHNL-----NKLQEELKKK-LSGKIFLLVLDDVW 305 (350)
Q Consensus 277 ~~~~~-----~~~~~~l~~~-l~~kr~LlVlDdv~ 305 (350)
+.... ......-+.+ ..+++.||++|++.
T Consensus 232 ~~~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsIt 266 (416)
T PRK09376 232 EPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSIT 266 (416)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChH
Confidence 11111 1112222222 26899999999993
No 19
>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=98.52 E-value=1.4e-07 Score=82.39 Aligned_cols=60 Identities=25% Similarity=0.346 Sum_probs=41.7
Q ss_pred cccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC
Q 048163 190 VYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF 257 (350)
Q Consensus 190 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~ 257 (350)
|+||+++++.|.+++.... ...+.|+|+.|+|||+|++.+.+..+ ...+ ..+|+......
T Consensus 1 F~gR~~el~~l~~~l~~~~------~~~~~l~G~rg~GKTsLl~~~~~~~~-~~~~-~~~y~~~~~~~ 60 (234)
T PF01637_consen 1 FFGREKELEKLKELLESGP------SQHILLYGPRGSGKTSLLKEFINELK-EKGY-KVVYIDFLEES 60 (234)
T ss_dssp S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHHCT---EE-CCCHHCCTTBS
T ss_pred CCCHHHHHHHHHHHHHhhc------CcEEEEEcCCcCCHHHHHHHHHHHhh-hcCC-cEEEEecccch
Confidence 6899999999999886542 57899999999999999999998632 1122 44555444433
No 20
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=98.51 E-value=9.4e-07 Score=81.28 Aligned_cols=126 Identities=17% Similarity=0.235 Sum_probs=85.8
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcc----ccccccCceeEEEe-CCCCCHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDK----QVQDHFDLKAWTCV-SDDFDVFRL 262 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~----~~~~~F~~~~wv~~-~~~~~~~~~ 262 (350)
.+++|.+..++.|..++.... -.+...++|+.|+||||+|+.++... ....|++...|... +...++++
T Consensus 4 ~~i~g~~~~~~~l~~~~~~~~-----~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~- 77 (313)
T PRK05564 4 HTIIGHENIKNRIKNSIIKNR-----FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD- 77 (313)
T ss_pred hhccCcHHHHHHHHHHHHcCC-----CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-
Confidence 456888888899999886543 35678899999999999999998742 23356666555442 22233333
Q ss_pred HHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChh
Q 048163 263 TKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQE 336 (350)
Q Consensus 263 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~ 336 (350)
++++...+.... ..+++-++|+|++...+...++.+...|...+.++.+|++|.+.+
T Consensus 78 ir~~~~~~~~~p-----------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~ 134 (313)
T PRK05564 78 IRNIIEEVNKKP-----------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLE 134 (313)
T ss_pred HHHHHHHHhcCc-----------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence 334444333211 124566777888866666789999999987778899998886654
No 21
>PRK04841 transcriptional regulator MalT; Provisional
Probab=98.51 E-value=8e-07 Score=93.44 Aligned_cols=133 Identities=19% Similarity=0.237 Sum_probs=83.0
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC-CCCHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD-DFDVFRLTKTI 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i 266 (350)
..++-|.. |.+.|... ...+++.|.||+|.||||++.++... ++.++|+++.. +.+...++..+
T Consensus 14 ~~~~~R~r----l~~~l~~~-----~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l 78 (903)
T PRK04841 14 HNTVVRER----LLAKLSGA-----NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYL 78 (903)
T ss_pred cccCcchH----HHHHHhcc-----cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHH
Confidence 44556654 44444322 25789999999999999999998753 23689999964 44666777777
Q ss_pred HHHhCCCCCC------------CCCCHHHHHHHHHHHcC--CceEEEEEeCCCCCCcccHhh-hcCccCCCCCCceEEEe
Q 048163 267 LISIVPDQNV------------DNHNLNKLQEELKKKLS--GKIFLLVLDDVWNENYNDWDR-LRPPFEAGAPGSKIIVT 331 (350)
Q Consensus 267 l~~l~~~~~~------------~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~~~~~~-l~~~l~~~~~gs~iivT 331 (350)
+..+...... ...+...+...+...+. +.+++|||||+...+...... +...+.....+.++|+|
T Consensus 79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~ 158 (903)
T PRK04841 79 IAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVL 158 (903)
T ss_pred HHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEE
Confidence 7777422111 01223333443443332 678999999996543333333 33333344556788899
Q ss_pred cCCh
Q 048163 332 ARNQ 335 (350)
Q Consensus 332 tr~~ 335 (350)
||..
T Consensus 159 sR~~ 162 (903)
T PRK04841 159 SRNL 162 (903)
T ss_pred eCCC
Confidence 9983
No 22
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=98.44 E-value=1.2e-06 Score=86.99 Aligned_cols=136 Identities=18% Similarity=0.275 Sum_probs=77.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..++.|..++.... -.+.+.++|+.|+||||+|+.+.+.......+. +.++..-...+.|.
T Consensus 16 dEVIGQe~Vv~~L~~aL~~gR-----L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~-------~~PCG~C~sCr~I~ 83 (830)
T PRK07003 16 ASLVGQEHVVRALTHALDGGR-----LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVT-------SQPCGVCRACREID 83 (830)
T ss_pred HHHcCcHHHHHHHHHHHhcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCC-------CCCCcccHHHHHHh
Confidence 567999999999999986543 345667999999999999998877532111110 01111111111221
Q ss_pred HHhCCC----CCCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 268 ISIVPD----QNVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 268 ~~l~~~----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
..-... ...+....+++.+.+... ..++.-++|||++...+...++.|...|.......++|++|.+.
T Consensus 84 ~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~ 159 (830)
T PRK07003 84 EGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDP 159 (830)
T ss_pred cCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECCh
Confidence 100000 000111222222222211 13456689999998777778898888775545577777777654
No 23
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.41 E-value=2.6e-06 Score=79.98 Aligned_cols=134 Identities=16% Similarity=0.255 Sum_probs=74.0
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..++.|...+.... -.+.+.++|+.|+||||+|+.+.+.......+. ..++..-....++.
T Consensus 16 ~~iiGq~~~~~~l~~~~~~~~-----~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~-------~~pc~~c~~c~~~~ 83 (363)
T PRK14961 16 RDIIGQKHIVTAISNGLSLGR-----IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT-------SNPCRKCIICKEIE 83 (363)
T ss_pred hhccChHHHHHHHHHHHHcCC-----CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCCCHHHHHHh
Confidence 567899999999988886543 346789999999999999999987532111000 00111011111111
Q ss_pred HHhCCC----CCCCCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 268 ISIVPD----QNVDNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 268 ~~l~~~----~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
...... ........+... .+.+.+ .+++-++|+|++...+...++.+...+.......++|++|.+
T Consensus 84 ~~~~~d~~~~~~~~~~~v~~ir-~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~ 158 (363)
T PRK14961 84 KGLCLDLIEIDAASRTKVEEMR-EILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTD 158 (363)
T ss_pred cCCCCceEEecccccCCHHHHH-HHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCC
Confidence 110000 000001122211 111111 245669999999766655688887777654556667766644
No 24
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=98.38 E-value=1.8e-06 Score=80.13 Aligned_cols=45 Identities=13% Similarity=0.248 Sum_probs=37.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++|++..++.|..++..+ ..+.+.++|+.|+||||+|+.+.+.
T Consensus 15 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~ 59 (337)
T PRK12402 15 EDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARE 59 (337)
T ss_pred HHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHH
Confidence 56789999999998888543 2345789999999999999999875
No 25
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.36 E-value=3.5e-06 Score=82.74 Aligned_cols=140 Identities=17% Similarity=0.265 Sum_probs=77.9
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccc---ccCceeEEEeCCCCCHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD---HFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~---~F~~~~wv~~~~~~~~~~~~~ 264 (350)
.+++|.+..++.|.+++.... -.+.+.++|+.|+||||+|+.+.+...... .... .+.++......+
T Consensus 16 ddVIGQe~vv~~L~~al~~gR-----LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~-----~~~PCG~C~sC~ 85 (700)
T PRK12323 16 TTLVGQEHVVRALTHALEQQR-----LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGI-----TAQPCGQCRACT 85 (700)
T ss_pred HHHcCcHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccC-----CCCCCcccHHHH
Confidence 568999999999999997554 356778999999999999999976532110 0000 000111111111
Q ss_pred HHHHHhCCC----CCCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE-ecCCh
Q 048163 265 TILISIVPD----QNVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV-TARNQ 335 (350)
Q Consensus 265 ~il~~l~~~----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv-Ttr~~ 335 (350)
.|...-... ...+....+++.+.+... ..++.-++|||++...+...++.|...|..-..++.+|+ ||...
T Consensus 86 ~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~ 165 (700)
T PRK12323 86 EIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQ 165 (700)
T ss_pred HHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChH
Confidence 111100000 000112223222222221 145677999999988777888988888854445556555 44444
Q ss_pred hH
Q 048163 336 EV 337 (350)
Q Consensus 336 ~v 337 (350)
.+
T Consensus 166 kL 167 (700)
T PRK12323 166 KI 167 (700)
T ss_pred hh
Confidence 44
No 26
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=98.35 E-value=8.8e-07 Score=82.29 Aligned_cols=91 Identities=16% Similarity=0.135 Sum_probs=64.4
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC--CCHHHHHHHHHHHhCCCCCCCCCCH-----HHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD--FDVFRLTKTILISIVPDQNVDNHNL-----NKLQE 286 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~il~~l~~~~~~~~~~~-----~~~~~ 286 (350)
.-..++|+|++|+|||||++.+++.... ++|+..+||.+... ..+.++++.++..+-..+....... ....+
T Consensus 167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e 245 (415)
T TIGR00767 167 KGQRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIE 245 (415)
T ss_pred CCCEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHH
Confidence 3467899999999999999999997433 37999999998866 6889999999665544433221111 12222
Q ss_pred HHHHH-cCCceEEEEEeCCC
Q 048163 287 ELKKK-LSGKIFLLVLDDVW 305 (350)
Q Consensus 287 ~l~~~-l~~kr~LlVlDdv~ 305 (350)
..+.+ -.+++.+|++|++.
T Consensus 246 ~Ae~~~~~GkdVVLlIDEit 265 (415)
T TIGR00767 246 KAKRLVEHKKDVVILLDSIT 265 (415)
T ss_pred HHHHHHHcCCCeEEEEEChh
Confidence 23332 26899999999993
No 27
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.34 E-value=2.8e-06 Score=83.58 Aligned_cols=135 Identities=16% Similarity=0.219 Sum_probs=76.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+.....|..++.... -.+.+.++|+.|+||||+|+.+.+...... ++.. .+++.-...+.+.
T Consensus 15 ddVIGQe~vv~~L~~aI~~gr-----l~HAyLF~GPpGvGKTTlAriLAK~LnC~~------~~~~-~pCg~C~sC~~I~ 82 (702)
T PRK14960 15 NELVGQNHVSRALSSALERGR-----LHHAYLFTGTRGVGKTTIARILAKCLNCET------GVTS-TPCEVCATCKAVN 82 (702)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCc------CCCC-CCCccCHHHHHHh
Confidence 568999999999999987543 357889999999999999999877522111 1110 1111111111111
Q ss_pred HHhCCCC----CCCCCCHHHHHHHHHH---H-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 268 ISIVPDQ----NVDNHNLNKLQEELKK---K-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 268 ~~l~~~~----~~~~~~~~~~~~~l~~---~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
..-.... ..+....+...+.+.. . ..++.-++|+|++...+....+.|...+.....+.++|++|.+
T Consensus 83 ~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd 157 (702)
T PRK14960 83 EGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTD 157 (702)
T ss_pred cCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECC
Confidence 1000000 0011122222221111 1 1356679999999777667788888877654556677776654
No 28
>PRK13342 recombination factor protein RarA; Reviewed
Probab=98.34 E-value=1.2e-06 Score=83.65 Aligned_cols=109 Identities=21% Similarity=0.330 Sum_probs=63.9
Q ss_pred cccccchhhHHH---HHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 188 AKVYGRETEKKD---VVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 188 ~~~vGr~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
.+++|.+..+.. |..++... ....+.++|++|+||||||+.+++.. ... |+.++......+-++
T Consensus 12 ~d~vGq~~~v~~~~~L~~~i~~~------~~~~ilL~GppGtGKTtLA~~ia~~~--~~~-----~~~l~a~~~~~~~ir 78 (413)
T PRK13342 12 DEVVGQEHLLGPGKPLRRMIEAG------RLSSMILWGPPGTGKTTLARIIAGAT--DAP-----FEALSAVTSGVKDLR 78 (413)
T ss_pred HHhcCcHHHhCcchHHHHHHHcC------CCceEEEECCCCCCHHHHHHHHHHHh--CCC-----EEEEecccccHHHHH
Confidence 457777766544 66666433 35578889999999999999998852 222 222222111111122
Q ss_pred HHHHHhCCCCCCCCCCHHHHHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE
Q 048163 265 TILISIVPDQNVDNHNLNKLQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV 330 (350)
Q Consensus 265 ~il~~l~~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv 330 (350)
.++. ..... ..+++.+|++|+++.......+.+...+.. |..+++
T Consensus 79 ~ii~------------------~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI 124 (413)
T PRK13342 79 EVIE------------------EARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLI 124 (413)
T ss_pred HHHH------------------HHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEE
Confidence 2222 12111 145788999999987765666666655543 545444
No 29
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.33 E-value=2.8e-06 Score=86.01 Aligned_cols=123 Identities=15% Similarity=0.237 Sum_probs=75.4
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccc-------------------cCce
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDH-------------------FDLK 248 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~-------------------F~~~ 248 (350)
.+++|.+..+..|.+++.... -...+.++|+.|+||||+|+.+++....... |...
T Consensus 16 ddIIGQe~Iv~~LknaI~~~r-----l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv 90 (944)
T PRK14949 16 EQMVGQSHVLHALTNALTQQR-----LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL 90 (944)
T ss_pred HHhcCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence 568999999999999886543 3456689999999999999999876321111 1111
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCce
Q 048163 249 AWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSK 327 (350)
Q Consensus 249 ~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ 327 (350)
+++.......+ .+..++.+.+... ..+++-++|||++...+...++.|+..+-......+
T Consensus 91 iEidAas~~kV-------------------DdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vr 151 (944)
T PRK14949 91 IEVDAASRTKV-------------------DDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVK 151 (944)
T ss_pred EEeccccccCH-------------------HHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeE
Confidence 22211111111 1122222222211 146778999999988777788888887754445566
Q ss_pred EEEecCC
Q 048163 328 IIVTARN 334 (350)
Q Consensus 328 iivTtr~ 334 (350)
+|++|.+
T Consensus 152 FILaTTe 158 (944)
T PRK14949 152 FLLATTD 158 (944)
T ss_pred EEEECCC
Confidence 5555443
No 30
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=98.32 E-value=6.1e-06 Score=77.96 Aligned_cols=109 Identities=13% Similarity=0.107 Sum_probs=72.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.++++.+...+.+...|... +.+.++|++|+|||++|+.+++.......|..+.||.++..++..+++..+
T Consensus 175 ~d~~i~e~~le~l~~~L~~~--------~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~- 245 (459)
T PRK11331 175 NDLFIPETTIETILKRLTIK--------KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGY- 245 (459)
T ss_pred hcccCCHHHHHHHHHHHhcC--------CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhccc-
Confidence 45778888999999988643 467889999999999999999875555678889999999988866655422
Q ss_pred HHhCCCCCCCCCCHHHHHHHHHHHc--CCceEEEEEeCCCCCC
Q 048163 268 ISIVPDQNVDNHNLNKLQEELKKKL--SGKIFLLVLDDVWNEN 308 (350)
Q Consensus 268 ~~l~~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~ 308 (350)
......-.....-+.+.+.... .+++++||+|++...+
T Consensus 246 ---rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRan 285 (459)
T PRK11331 246 ---RPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRAN 285 (459)
T ss_pred ---CCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccC
Confidence 1111000000111222222222 2468999999995543
No 31
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.30 E-value=4.2e-06 Score=81.72 Aligned_cols=126 Identities=18% Similarity=0.225 Sum_probs=76.3
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccc-------------------cccCce
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ-------------------DHFDLK 248 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~-------------------~~F~~~ 248 (350)
.+++|.+..+..|...+.... -.+.+.++|+.|+||||+|+.+++...-. +.|...
T Consensus 16 ~diiGq~~~v~~L~~~i~~~r-----l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl 90 (546)
T PRK14957 16 AEVAGQQHALNSLVHALETQK-----VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL 90 (546)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence 467899999999998886543 34667899999999999999998642110 012222
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCce
Q 048163 249 AWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSK 327 (350)
Q Consensus 249 ~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ 327 (350)
+++.......+. +...+.+.+... ..+++-++|+|++...+...++.+...+......+.
T Consensus 91 ieidaas~~gvd-------------------~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~ 151 (546)
T PRK14957 91 IEIDAASRTGVE-------------------ETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVK 151 (546)
T ss_pred EEeecccccCHH-------------------HHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCce
Confidence 222222222221 112222222211 235677999999977776778888888865555665
Q ss_pred EEE-ecCChhH
Q 048163 328 IIV-TARNQEV 337 (350)
Q Consensus 328 iiv-Ttr~~~v 337 (350)
+|+ ||....+
T Consensus 152 fIL~Ttd~~ki 162 (546)
T PRK14957 152 FILATTDYHKI 162 (546)
T ss_pred EEEEECChhhh
Confidence 554 5443333
No 32
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=98.30 E-value=9.5e-06 Score=80.83 Aligned_cols=130 Identities=22% Similarity=0.270 Sum_probs=90.2
Q ss_pred HHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhCCCCCC
Q 048163 198 KDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIVPDQNV 276 (350)
Q Consensus 198 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~ 276 (350)
.+|.+.|... ...+.+.|..|+|.|||||+-++... ...-..+.|.++.+. .+...++.-++..++...+.
T Consensus 25 ~rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~~---~~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~ 96 (894)
T COG2909 25 PRLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWREL---AADGAAVAWLSLDESDNDPARFLSYLIAALQQATPT 96 (894)
T ss_pred HHHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHHh---cCcccceeEeecCCccCCHHHHHHHHHHHHHHhCcc
Confidence 4566666544 36899999999999999999999752 223356899998665 46778888888888754432
Q ss_pred ------------CCCCHHHHHHHHHHHcC--CceEEEEEeCCCCCCcccHhh-hcCccCCCCCCceEEEecCCh
Q 048163 277 ------------DNHNLNKLQEELKKKLS--GKIFLLVLDDVWNENYNDWDR-LRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 277 ------------~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~~~~~~-l~~~l~~~~~gs~iivTtr~~ 335 (350)
...+...+...+...+. .+++++||||..-......+. +...+...+.+-..++|||+.
T Consensus 97 ~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~r 170 (894)
T COG2909 97 LGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSR 170 (894)
T ss_pred ccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccC
Confidence 22334445555555554 368999999996554445554 444445566788999999985
No 33
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.29 E-value=4.8e-06 Score=81.14 Aligned_cols=124 Identities=16% Similarity=0.192 Sum_probs=77.1
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccc-------------------ccCce
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD-------------------HFDLK 248 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~-------------------~F~~~ 248 (350)
.+++|-+..+..|.+++.... -...+.++|+.|+||||+|+.+.+...-.. .|...
T Consensus 16 ~divGq~~v~~~L~~~~~~~~-----l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~ 90 (509)
T PRK14958 16 QEVIGQAPVVRALSNALDQQY-----LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL 90 (509)
T ss_pred HHhcCCHHHHHHHHHHHHhCC-----CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence 567999999999999996543 345678999999999999999887532111 11112
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceE
Q 048163 249 AWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKI 328 (350)
Q Consensus 249 ~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i 328 (350)
+.+..+....+.++ ++++..+... -..++.-++|+|++...+....+.+...|......+++
T Consensus 91 ~eidaas~~~v~~i-R~l~~~~~~~-----------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~f 152 (509)
T PRK14958 91 FEVDAASRTKVEDT-RELLDNIPYA-----------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKF 152 (509)
T ss_pred EEEcccccCCHHHH-HHHHHHHhhc-----------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEE
Confidence 22322222222221 2222222110 01356678999999877777888888887655556776
Q ss_pred EEecCC
Q 048163 329 IVTARN 334 (350)
Q Consensus 329 ivTtr~ 334 (350)
|++|.+
T Consensus 153 Ilattd 158 (509)
T PRK14958 153 ILATTD 158 (509)
T ss_pred EEEECC
Confidence 665533
No 34
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.27 E-value=6.3e-06 Score=81.60 Aligned_cols=137 Identities=15% Similarity=0.235 Sum_probs=75.9
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccccc--CceeEEEeCCCCCHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF--DLKAWTCVSDDFDVFRLTKT 265 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~ 265 (350)
.+++|.+..+..|.+++.... -...+.++|+.|+||||+|+.+.+........ .... ..+++.-...+.
T Consensus 16 ~dviGQe~vv~~L~~~l~~~r-----l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~----~~pCg~C~~C~~ 86 (618)
T PRK14951 16 SEMVGQEHVVQALTNALTQQR-----LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGIT----ATPCGVCQACRD 86 (618)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCC----CCCCCccHHHHH
Confidence 567898888889999887553 34678899999999999999986542211100 0000 011111122222
Q ss_pred HHHHhCCCC----CCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecC
Q 048163 266 ILISIVPDQ----NVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTAR 333 (350)
Q Consensus 266 il~~l~~~~----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr 333 (350)
|...-.... .......++..+.+... ..++.-++|||++...+...++.+...+......+++|++|.
T Consensus 87 i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Tt 162 (618)
T PRK14951 87 IDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATT 162 (618)
T ss_pred HHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEEC
Confidence 211000000 00112222222222211 124556899999988877888888888865555666665543
No 35
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.25 E-value=7.2e-06 Score=79.78 Aligned_cols=137 Identities=20% Similarity=0.198 Sum_probs=74.4
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..++.|..++.... -...+.++|++|+||||+|+.+++.....+.+...+|.|.+-. .+......-+
T Consensus 14 ~dvvGq~~v~~~L~~~i~~~~-----l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~-~i~~~~h~dv 87 (504)
T PRK14963 14 DEVVGQEHVKEVLLAALRQGR-----LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCL-AVRRGAHPDV 87 (504)
T ss_pred HHhcChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhH-HHhcCCCCce
Confidence 467899988888888886543 3466799999999999999999876432222222222221100 0000000000
Q ss_pred HHhCCCCCCCCCCHHH---HHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecC
Q 048163 268 ISIVPDQNVDNHNLNK---LQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTAR 333 (350)
Q Consensus 268 ~~l~~~~~~~~~~~~~---~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr 333 (350)
..+... .....+. +...+... +.+++-++|||+++..+...++.+...+......+.+|++|.
T Consensus 88 ~el~~~---~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~ 154 (504)
T PRK14963 88 LEIDAA---SNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATT 154 (504)
T ss_pred EEeccc---ccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcC
Confidence 000000 1111222 22222111 134667899999977766678888887765444555555443
No 36
>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=98.24 E-value=7.9e-06 Score=76.23 Aligned_cols=142 Identities=22% Similarity=0.205 Sum_probs=93.6
Q ss_pred cccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHH
Q 048163 186 KEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKT 265 (350)
Q Consensus 186 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 265 (350)
.+..+.||+.+++.+.+|+...- +.+....+-|.|.+|.|||.+...++.+......=.+++++++-.-.....+|..
T Consensus 148 ~p~~l~gRe~e~~~v~~F~~~hl--e~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k 225 (529)
T KOG2227|consen 148 PPGTLKGRELEMDIVREFFSLHL--ELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK 225 (529)
T ss_pred CCCCccchHHHHHHHHHHHHhhh--hcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence 46678999999999999997653 3456778899999999999999999987432222235578887776777888888
Q ss_pred HHHHhCCCCCCCCCCHHHHHHHHHHHcCC--ceEEEEEeCCCCCCcccHhhhcCccC-CCCCCceEEE
Q 048163 266 ILISIVPDQNVDNHNLNKLQEELKKKLSG--KIFLLVLDDVWNENYNDWDRLRPPFE-AGAPGSKIIV 330 (350)
Q Consensus 266 il~~l~~~~~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~gs~iiv 330 (350)
|...+-.... ......+.+..+.....+ +-+|+|+|+++.........+...|. +..+++++|+
T Consensus 226 I~~~~~q~~~-s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iL 292 (529)
T KOG2227|consen 226 IFSSLLQDLV-SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIIL 292 (529)
T ss_pred HHHHHHHHhc-CCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeee
Confidence 8887732222 112224455555555544 36999999995432222333333332 2245666554
No 37
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.23 E-value=1.1e-05 Score=79.01 Aligned_cols=124 Identities=16% Similarity=0.229 Sum_probs=74.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccc-------------------ccCce
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD-------------------HFDLK 248 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~-------------------~F~~~ 248 (350)
.+++|.+..++.|..++.... -.+.+.++|+.|+||||+|+.+........ .|...
T Consensus 16 ~divGq~~v~~~L~~~i~~~~-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~ 90 (527)
T PRK14969 16 SELVGQEHVVRALTNALEQQR-----LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL 90 (527)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence 467899999999999887543 346678999999999999999976522110 11112
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceE
Q 048163 249 AWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKI 328 (350)
Q Consensus 249 ~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i 328 (350)
+++..+....+ +-+++++..+... -..+++-++|+|++...+....+.+...+......+.+
T Consensus 91 ~ei~~~~~~~v-d~ir~l~~~~~~~-----------------p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~f 152 (527)
T PRK14969 91 IEVDAASNTQV-DAMRELLDNAQYA-----------------PTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKF 152 (527)
T ss_pred eEeeccccCCH-HHHHHHHHHHhhC-----------------cccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEE
Confidence 22222211111 1122222221110 01356779999999776666788888877654456666
Q ss_pred EEecCC
Q 048163 329 IVTARN 334 (350)
Q Consensus 329 ivTtr~ 334 (350)
|++|.+
T Consensus 153 IL~t~d 158 (527)
T PRK14969 153 ILATTD 158 (527)
T ss_pred EEEeCC
Confidence 655533
No 38
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=98.22 E-value=8.1e-06 Score=80.99 Aligned_cols=134 Identities=19% Similarity=0.260 Sum_probs=73.3
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..+..|..++.... -.+.+.++|+.|+||||+|+.+........... + .++......+.+.
T Consensus 16 ddIIGQe~vv~~L~~ai~~~r-----l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~---~----~pCg~C~sCr~i~ 83 (709)
T PRK08691 16 ADLVGQEHVVKALQNALDEGR-----LHHAYLLTGTRGVGKTTIARILAKSLNCENAQH---G----EPCGVCQSCTQID 83 (709)
T ss_pred HHHcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCC---C----CCCcccHHHHHHh
Confidence 568999999999999987543 346789999999999999999876421111000 0 0000001111110
Q ss_pred HHh-----CCCCCCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 268 ISI-----VPDQNVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 268 ~~l-----~~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
..- ..... .....+.+.+.+... ..+++-++|||++...+....+.|...|......+++|++|.+
T Consensus 84 ~g~~~DvlEidaA-s~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd 158 (709)
T PRK08691 84 AGRYVDLLEIDAA-SNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTD 158 (709)
T ss_pred ccCccceEEEecc-ccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCC
Confidence 000 00000 111222222222111 1356678999999766555677777777543445666666644
No 39
>PRK06893 DNA replication initiation factor; Validated
Probab=98.21 E-value=2.4e-06 Score=74.89 Aligned_cols=107 Identities=20% Similarity=0.223 Sum_probs=59.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
.+.+.|+|+.|+|||+|++.+++.. ........|+++... ..... .+.+.+.
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~--~~~~~~~~y~~~~~~---~~~~~----------------------~~~~~~~- 90 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHY--LLNQRTAIYIPLSKS---QYFSP----------------------AVLENLE- 90 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHH--HHcCCCeEEeeHHHh---hhhhH----------------------HHHhhcc-
Confidence 3678999999999999999999863 222334566665321 00000 1111122
Q ss_pred ceEEEEEeCCCCCC-cccHhh-hcCccCCC-CCCceEEE-ecCC---------hhHHHhcCCCCceeC
Q 048163 295 KIFLLVLDDVWNEN-YNDWDR-LRPPFEAG-APGSKIIV-TARN---------QEVAAIMGTVRAYQL 349 (350)
Q Consensus 295 kr~LlVlDdv~~~~-~~~~~~-l~~~l~~~-~~gs~iiv-Ttr~---------~~va~~~~~~~~~~l 349 (350)
+.-+|+|||+|... ...|.. +...+... ..|+.+|+ |+.. .++.+.++....+++
T Consensus 91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l 158 (229)
T PRK06893 91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQL 158 (229)
T ss_pred cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeC
Confidence 23489999998642 245553 33323211 24556655 4443 466666654444443
No 40
>PRK04195 replication factor C large subunit; Provisional
Probab=98.21 E-value=6.8e-06 Score=80.11 Aligned_cols=122 Identities=20% Similarity=0.196 Sum_probs=73.0
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.++.+++|.+|+.... .....+.+.|+|++|+||||+|+.+++... |. .+-++++...+. +.+..++
T Consensus 14 ~dlvg~~~~~~~l~~~l~~~~--~g~~~~~lLL~GppG~GKTtla~ala~el~----~~-~ielnasd~r~~-~~i~~~i 85 (482)
T PRK04195 14 SDVVGNEKAKEQLREWIESWL--KGKPKKALLLYGPPGVGKTSLAHALANDYG----WE-VIELNASDQRTA-DVIERVA 85 (482)
T ss_pred HHhcCCHHHHHHHHHHHHHHh--cCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CC-EEEEcccccccH-HHHHHHH
Confidence 568999999999999987643 122368899999999999999999988632 22 233344443222 2333333
Q ss_pred HHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCc----ccHhhhcCccCCCCCCceEEEecCC
Q 048163 268 ISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENY----NDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 268 ~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
........ .+..++-+||||++..... ..+..+...+.. .+..||+|+.+
T Consensus 86 ~~~~~~~s---------------l~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~ 139 (482)
T PRK04195 86 GEAATSGS---------------LFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTAND 139 (482)
T ss_pred HHhhccCc---------------ccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccC
Confidence 32221111 0113678999999965422 234555554442 23456666543
No 41
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=98.21 E-value=6.6e-06 Score=81.68 Aligned_cols=135 Identities=16% Similarity=0.225 Sum_probs=76.3
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+.-+..|...+.... -.+.+.++|+.|+||||+|+.+.+.......+ ...++......+.|.
T Consensus 16 ~divGQe~vv~~L~~~l~~~r-----l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~-------~~~pCg~C~~C~~i~ 83 (647)
T PRK07994 16 AEVVGQEHVLTALANALDLGR-----LHHAYLFSGTRGVGKTTIARLLAKGLNCETGI-------TATPCGECDNCREIE 83 (647)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhhhccCC-------CCCCCCCCHHHHHHH
Confidence 567999999999988886543 24567899999999999999998753211100 011111112222222
Q ss_pred HHhCCC----CCCCCCCHHH---HHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 268 ISIVPD----QNVDNHNLNK---LQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 268 ~~l~~~----~~~~~~~~~~---~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
..-... ........++ +.+.+... ..+++-++|||++...+....+.|...+-......++|++|.+
T Consensus 84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~ 158 (647)
T PRK07994 84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTD 158 (647)
T ss_pred cCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCC
Confidence 110000 0000112222 22222211 2467779999999887777888888877654445555554443
No 42
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=98.19 E-value=8.7e-06 Score=75.00 Aligned_cols=120 Identities=18% Similarity=0.192 Sum_probs=70.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+...+.+..++.... ....+.++|++|+|||++|+.+++.. ... ...++.+. .. .+.++..+
T Consensus 21 ~~~~~~~~~~~~l~~~~~~~~-----~~~~lll~G~~G~GKT~la~~l~~~~--~~~---~~~i~~~~-~~-~~~i~~~l 88 (316)
T PHA02544 21 DECILPAADKETFKSIVKKGR-----IPNMLLHSPSPGTGKTTVAKALCNEV--GAE---VLFVNGSD-CR-IDFVRNRL 88 (316)
T ss_pred HHhcCcHHHHHHHHHHHhcCC-----CCeEEEeeCcCCCCHHHHHHHHHHHh--Ccc---ceEeccCc-cc-HHHHHHHH
Confidence 567899999999999886432 35677889999999999999998752 111 23344443 22 22222211
Q ss_pred HHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 268 ISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 268 ~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
....... -+.+.+-+||+|++... .....+.+...+.....++++|+||...
T Consensus 89 ~~~~~~~----------------~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~ 141 (316)
T PHA02544 89 TRFASTV----------------SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK 141 (316)
T ss_pred HHHHHhh----------------cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence 1111000 01134567899999544 2223334444344344577888888653
No 43
>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=98.18 E-value=0.00029 Score=70.54 Aligned_cols=142 Identities=22% Similarity=0.219 Sum_probs=85.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccccc---CceeEEEeCCC---CCHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF---DLKAWTCVSDD---FDVFR 261 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F---~~~~wv~~~~~---~~~~~ 261 (350)
+.++|++..+..+...+... ....+.|+|++|+||||||+.+++..+....+ ...-|+.+... .+...
T Consensus 154 ~~iiGqs~~~~~l~~~ia~~------~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~ 227 (615)
T TIGR02903 154 SEIVGQERAIKALLAKVASP------FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPRE 227 (615)
T ss_pred HhceeCcHHHHHHHHHHhcC------CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHH
Confidence 45789998888887776432 34579999999999999999998764333322 12345544321 12222
Q ss_pred HHHH---------------HHHHhCCCCC---------------CCCCC-HHHHHHHHHHHcCCceEEEEEeCCCCCCcc
Q 048163 262 LTKT---------------ILISIVPDQN---------------VDNHN-LNKLQEELKKKLSGKIFLLVLDDVWNENYN 310 (350)
Q Consensus 262 ~~~~---------------il~~l~~~~~---------------~~~~~-~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~ 310 (350)
+... .+...+.... ++... ....+..|.+.+.+++++++-|+.|..+..
T Consensus 228 i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~ 307 (615)
T TIGR02903 228 VTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPN 307 (615)
T ss_pred HhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcc
Confidence 1111 1111111000 01111 234677888888889999998888776666
Q ss_pred cHhhhcCccCCCCCCceEEE--ecCCh
Q 048163 311 DWDRLRPPFEAGAPGSKIIV--TARNQ 335 (350)
Q Consensus 311 ~~~~l~~~l~~~~~gs~iiv--Ttr~~ 335 (350)
.|+.+...+....+...+++ ||++.
T Consensus 308 ~~~~ik~~~~~~~~~~~VLI~aTt~~~ 334 (615)
T TIGR02903 308 VPKYIKKLFEEGAPADFVLIGATTRDP 334 (615)
T ss_pred cchhhhhhcccCccceEEEEEeccccc
Confidence 78877776665555555555 56644
No 44
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=98.16 E-value=1.7e-05 Score=76.96 Aligned_cols=143 Identities=19% Similarity=0.241 Sum_probs=77.9
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCc-eeEEEeCCCCCHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDL-KAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i 266 (350)
.+++|.+..+..|...+.... -...+.++|+.|+||||+|+.+++.......+.. -.+..+.. ......+
T Consensus 21 ~dliGq~~vv~~L~~ai~~~r-----i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~----C~~C~~i 91 (507)
T PRK06645 21 AELQGQEVLVKVLSYTILNDR-----LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQ----CTNCISF 91 (507)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCC----ChHHHHH
Confidence 467899988888888775443 3467889999999999999999875321111000 00000000 0001111
Q ss_pred HHHhCCCC----CCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEE-EecCChhH
Q 048163 267 LISIVPDQ----NVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKII-VTARNQEV 337 (350)
Q Consensus 267 l~~l~~~~----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-vTtr~~~v 337 (350)
........ .......+++...+... +.+++-++|+|+++..+...++.+...+....+.+.+| .||+...+
T Consensus 92 ~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI 171 (507)
T PRK06645 92 NNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKI 171 (507)
T ss_pred hcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHh
Confidence 10000000 00111222222222211 24567799999998877778999888886555565655 45555555
Q ss_pred HH
Q 048163 338 AA 339 (350)
Q Consensus 338 a~ 339 (350)
..
T Consensus 172 ~~ 173 (507)
T PRK06645 172 PA 173 (507)
T ss_pred hH
Confidence 43
No 45
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.16 E-value=1.3e-05 Score=77.37 Aligned_cols=46 Identities=26% Similarity=0.384 Sum_probs=36.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++|.+.....|...+.... -.+.+.++|++|+||||+|+.+.+.
T Consensus 14 ~divGq~~i~~~L~~~i~~~~-----l~~~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 14 SEVVGQDHVKKLIINALKKNS-----ISHAYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 568898888787877775443 2466899999999999999999775
No 46
>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=98.15 E-value=2.6e-05 Score=69.79 Aligned_cols=108 Identities=18% Similarity=0.192 Sum_probs=79.2
Q ss_pred hhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccc----ccCceeEEEeCCCCCHHHHHHHHHHHh
Q 048163 195 TEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD----HFDLKAWTCVSDDFDVFRLTKTILISI 270 (350)
Q Consensus 195 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~il~~l 270 (350)
+.+++|.++|..+. ....+.+.|+|..|.|||++++++....-... .--.++.|.+....+...++..|+.++
T Consensus 44 ~~L~~L~~Ll~~P~---~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~l 120 (302)
T PF05621_consen 44 EALDRLEELLEYPK---RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEAL 120 (302)
T ss_pred HHHHHHHHHHhCCc---ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHh
Confidence 45566777666553 45678899999999999999999986532111 112577788888899999999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHcCC-ceEEEEEeCCCC
Q 048163 271 VPDQNVDNHNLNKLQEELKKKLSG-KIFLLVLDDVWN 306 (350)
Q Consensus 271 ~~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~ 306 (350)
+.... .......+.....+.|+. +--+||+|++.+
T Consensus 121 gaP~~-~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~ 156 (302)
T PF05621_consen 121 GAPYR-PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHN 156 (302)
T ss_pred CcccC-CCCCHHHHHHHHHHHHHHcCCcEEEeechHH
Confidence 99876 445555555555566643 556899999954
No 47
>PLN03025 replication factor C subunit; Provisional
Probab=98.13 E-value=1.5e-05 Score=73.59 Aligned_cols=125 Identities=14% Similarity=0.156 Sum_probs=70.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCc-eeEEEeCCCCCHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDL-KAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i 266 (350)
.+++|.+..++.|..++... ..+.+.++|++|+||||+|+.+.+... ...|.. .+-++.+...+. +.++.+
T Consensus 13 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~eln~sd~~~~-~~vr~~ 84 (319)
T PLN03025 13 DDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHELL-GPNYKEAVLELNASDDRGI-DVVRNK 84 (319)
T ss_pred HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHHh-cccCccceeeecccccccH-HHHHHH
Confidence 45788888888888776543 234467899999999999999987521 112221 111222222222 223333
Q ss_pred HHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 267 LISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 267 l~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
+..+..... . .-.++.-+++||++...+....+.+...+......+++|+++..
T Consensus 85 i~~~~~~~~-~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~ 138 (319)
T PLN03025 85 IKMFAQKKV-T-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNT 138 (319)
T ss_pred HHHHHhccc-c-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCC
Confidence 322211000 0 00245679999999776655666666655433445677776644
No 48
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.13 E-value=1.9e-05 Score=76.18 Aligned_cols=127 Identities=18% Similarity=0.198 Sum_probs=77.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccc-------------------cccCce
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ-------------------DHFDLK 248 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~-------------------~~F~~~ 248 (350)
.+++|.+..++.|.+.+.... -...+.++|+.|+||||+|+.+....... +.+..+
T Consensus 13 ~dliGQe~vv~~L~~a~~~~r-----i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv 87 (491)
T PRK14964 13 KDLVGQDVLVRILRNAFTLNK-----IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV 87 (491)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence 567899988888888876543 24588999999999999999887531100 111223
Q ss_pred eEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceE
Q 048163 249 AWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKI 328 (350)
Q Consensus 249 ~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i 328 (350)
+.++.+...++.+ .++++....... +.++.-++|+|++...+....+.+...+....+.+++
T Consensus 88 ~eidaas~~~vdd-IR~Iie~~~~~P-----------------~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~f 149 (491)
T PRK14964 88 IEIDAASNTSVDD-IKVILENSCYLP-----------------ISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKF 149 (491)
T ss_pred EEEecccCCCHHH-HHHHHHHHHhcc-----------------ccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEE
Confidence 3344433333322 223332221100 1346678999999776666788888888655566666
Q ss_pred EEec-CChhH
Q 048163 329 IVTA-RNQEV 337 (350)
Q Consensus 329 ivTt-r~~~v 337 (350)
|++| ....+
T Consensus 150 Ilatte~~Kl 159 (491)
T PRK14964 150 ILATTEVKKI 159 (491)
T ss_pred EEEeCChHHH
Confidence 6555 33444
No 49
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=98.13 E-value=2.4e-05 Score=72.04 Aligned_cols=122 Identities=15% Similarity=0.196 Sum_probs=69.0
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEe--CCCCCHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCV--SDDFDVFRLTKT 265 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~--~~~~~~~~~~~~ 265 (350)
.+++|++..++.+..++... ..+.+.++|+.|+||||+++.+.+..... .+.. .++.+ +..... +.+.+
T Consensus 17 ~~~~g~~~~~~~l~~~i~~~------~~~~~ll~G~~G~GKt~~~~~l~~~l~~~-~~~~-~~i~~~~~~~~~~-~~~~~ 87 (319)
T PRK00440 17 DEIVGQEEIVERLKSYVKEK------NMPHLLFAGPPGTGKTTAALALARELYGE-DWRE-NFLELNASDERGI-DVIRN 87 (319)
T ss_pred HHhcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHcCC-cccc-ceEEeccccccch-HHHHH
Confidence 45789999999999988543 23457999999999999999998753211 1211 12222 222211 12222
Q ss_pred HHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecC
Q 048163 266 ILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTAR 333 (350)
Q Consensus 266 il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr 333 (350)
.+..+....+ .....+-++++|++.......++.+...+......+.+|+++.
T Consensus 88 ~i~~~~~~~~---------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~ 140 (319)
T PRK00440 88 KIKEFARTAP---------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCN 140 (319)
T ss_pred HHHHHHhcCC---------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeC
Confidence 2222111110 0012356899999865544445566665554444567777664
No 50
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=98.13 E-value=2.1e-05 Score=71.65 Aligned_cols=112 Identities=21% Similarity=0.236 Sum_probs=81.6
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHH
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
++.+.+|+.+...+..++.... ..-+..|-|.|..|.|||.+.+++.+.... .-+|+++-+.++...++..|
T Consensus 5 ~~~v~~Re~qi~~L~~Llg~~~---~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~I 76 (438)
T KOG2543|consen 5 EPNVPCRESQIRRLKSLLGNNS---CTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKI 76 (438)
T ss_pred ccCccchHHHHHHHHHHhCCCC---cccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHH
Confidence 5678899999999999886653 223556689999999999999999987522 35899999999999999999
Q ss_pred HHHhCCCCCCCC------CCHHHHHHHHHHH--c--CCceEEEEEeCCCC
Q 048163 267 LISIVPDQNVDN------HNLNKLQEELKKK--L--SGKIFLLVLDDVWN 306 (350)
Q Consensus 267 l~~l~~~~~~~~------~~~~~~~~~l~~~--l--~~kr~LlVlDdv~~ 306 (350)
+.+.+....+.. .+.......+.++ . +++.++|||||+..
T Consensus 77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~ 126 (438)
T KOG2543|consen 77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADA 126 (438)
T ss_pred HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHh
Confidence 999863222111 1223334444442 1 24689999999943
No 51
>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=98.12 E-value=1.3e-05 Score=73.51 Aligned_cols=51 Identities=27% Similarity=0.445 Sum_probs=39.8
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
.+|+|++..+++|..++..... .......+.++|++|+|||+||+.+.+..
T Consensus 4 ~~~iG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 4 AEFIGQEKVKEQLQLFIEAAKM-RQEALDHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred HHHcCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 4689999999999888864321 12235567899999999999999998863
No 52
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=98.09 E-value=1.9e-05 Score=80.87 Aligned_cols=138 Identities=13% Similarity=0.093 Sum_probs=77.0
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..++.|..++.... -.+.+.++|+.|+||||+|+.+.+.......+.. .+++.-...+.|.
T Consensus 15 ~eiiGqe~v~~~L~~~i~~~r-----i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~-------~pCg~C~sC~~~~ 82 (824)
T PRK07764 15 AEVIGQEHVTEPLSTALDSGR-----INHAYLFSGPRGCGKTSSARILARSLNCVEGPTS-------TPCGECDSCVALA 82 (824)
T ss_pred HHhcCcHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCC-------CCCcccHHHHHHH
Confidence 467899999999999986543 3467889999999999999999775321111100 0011111111111
Q ss_pred HHhCCC------CCCCCCCHHHHHH---HHHH-HcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec-CChh
Q 048163 268 ISIVPD------QNVDNHNLNKLQE---ELKK-KLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA-RNQE 336 (350)
Q Consensus 268 ~~l~~~------~~~~~~~~~~~~~---~l~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt-r~~~ 336 (350)
..-... .......++++.+ .+.. -..++.-++|||++...+...++.|...|..-...+.+|++| ....
T Consensus 83 ~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~k 162 (824)
T PRK07764 83 PGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDK 162 (824)
T ss_pred cCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhh
Confidence 100000 0001112222222 1111 123566688999998888788899998887655566666555 4334
Q ss_pred H
Q 048163 337 V 337 (350)
Q Consensus 337 v 337 (350)
+
T Consensus 163 L 163 (824)
T PRK07764 163 V 163 (824)
T ss_pred h
Confidence 4
No 53
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=98.09 E-value=2.1e-05 Score=78.02 Aligned_cols=136 Identities=16% Similarity=0.226 Sum_probs=75.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCc--eeEEEeCCCCCHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDL--KAWTCVSDDFDVFRLTKT 265 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~--~~wv~~~~~~~~~~~~~~ 265 (350)
.+++|.+..++.|.+++.... -...+.++|+.|+||||+|+.+.+.......... ..+ .++..-.-.+.
T Consensus 24 ~dliGq~~~v~~L~~~~~~gr-----i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~----~~cg~c~~C~~ 94 (598)
T PRK09111 24 DDLIGQEAMVRTLTNAFETGR-----IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTI----DLCGVGEHCQA 94 (598)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCcc----ccCcccHHHHH
Confidence 568999999999999887543 3567889999999999999999875321111100 000 00111111122
Q ss_pred HHHHhCCCC----CCCCCCHHHHH---HHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec
Q 048163 266 ILISIVPDQ----NVDNHNLNKLQ---EELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA 332 (350)
Q Consensus 266 il~~l~~~~----~~~~~~~~~~~---~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt 332 (350)
|...-.... .......+++. +.+... +.+++-++|+|++...+....+.|...|......+++|++|
T Consensus 95 i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~t 169 (598)
T PRK09111 95 IMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFAT 169 (598)
T ss_pred HhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEe
Confidence 221111100 00112222222 222111 12456689999997766667888888876555566666554
No 54
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=98.09 E-value=2.5e-05 Score=73.72 Aligned_cols=138 Identities=17% Similarity=0.165 Sum_probs=73.6
Q ss_pred cccccchhhHHHHHHHHhcCCC----CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDL----SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLT 263 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~----~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~ 263 (350)
.+++|.+..++.|..++..+.. ....-.+.+.++|+.|+|||++|+.+.....-...- + .+++.-...
T Consensus 5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~----~----~~Cg~C~~C 76 (394)
T PRK07940 5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD----E----PGCGECRAC 76 (394)
T ss_pred hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC----C----CCCCCCHHH
Confidence 4578999999999998876431 001135678899999999999999987642111000 0 001111111
Q ss_pred HHHHHHhCCCC-----CCCCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecC
Q 048163 264 KTILISIVPDQ-----NVDNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTAR 333 (350)
Q Consensus 264 ~~il~~l~~~~-----~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr 333 (350)
+.+...-.... .......+++.+ +.+.+ .+++-++++|++...+....+.+...+.....+..+|++|.
T Consensus 77 ~~~~~~~hpD~~~i~~~~~~i~i~~iR~-l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~ 155 (394)
T PRK07940 77 RTVLAGTHPDVRVVAPEGLSIGVDEVRE-LVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAP 155 (394)
T ss_pred HHHhcCCCCCEEEeccccccCCHHHHHH-HHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEEC
Confidence 11111000000 001112222221 11111 24566888899977766677778777754455666666555
Q ss_pred C
Q 048163 334 N 334 (350)
Q Consensus 334 ~ 334 (350)
+
T Consensus 156 ~ 156 (394)
T PRK07940 156 S 156 (394)
T ss_pred C
Confidence 5
No 55
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=98.07 E-value=2.3e-05 Score=76.95 Aligned_cols=133 Identities=17% Similarity=0.208 Sum_probs=73.1
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..++.|..++.... -.+.+.++|+.|+||||+|+.+.+... |.-|... .+++.....+.+.
T Consensus 16 ~dIIGQe~iv~~L~~aI~~~r-----l~hA~Lf~GP~GvGKTTlA~~lAk~L~------C~~~~~~-~~Cg~C~sCr~i~ 83 (605)
T PRK05896 16 KQIIGQELIKKILVNAILNNK-----LTHAYIFSGPRGIGKTSIAKIFAKAIN------CLNPKDG-DCCNSCSVCESIN 83 (605)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhc------CCCCCCC-CCCcccHHHHHHH
Confidence 567899999999999886543 246788999999999999999976521 1112111 1111112222221
Q ss_pred HHhCCCC----CCCCCCHHHH---HHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec
Q 048163 268 ISIVPDQ----NVDNHNLNKL---QEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA 332 (350)
Q Consensus 268 ~~l~~~~----~~~~~~~~~~---~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt 332 (350)
....... .......+++ ...+... ..+++-++|+|++...+...++.|...+......+.+|++|
T Consensus 84 ~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~T 156 (605)
T PRK05896 84 TNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFAT 156 (605)
T ss_pred cCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEEC
Confidence 1111000 0001112222 2211111 12344579999997766667888888775444455555544
No 56
>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=98.07 E-value=4.4e-05 Score=71.43 Aligned_cols=124 Identities=18% Similarity=0.197 Sum_probs=72.4
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccc--------------------cccCc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ--------------------DHFDL 247 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~--------------------~~F~~ 247 (350)
.+++|.+..++.|.+++.... -...+.++|+.|+|||++|+.+.....-. .+|+.
T Consensus 14 ~~iig~~~~~~~l~~~~~~~~-----~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~ 88 (355)
T TIGR02397 14 EDVIGQEHIVQTLKNAIKNGR-----IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV 88 (355)
T ss_pred hhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE
Confidence 467899999999999886543 34678899999999999999887652111 01221
Q ss_pred eeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCce
Q 048163 248 KAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSK 327 (350)
Q Consensus 248 ~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ 327 (350)
++++.....+. +-+++++..+.... +.+++-++|+|++...+....+.+...+......+.
T Consensus 89 -~~~~~~~~~~~-~~~~~l~~~~~~~p-----------------~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~ 149 (355)
T TIGR02397 89 -IEIDAASNNGV-DDIREILDNVKYAP-----------------SSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVV 149 (355)
T ss_pred -EEeeccccCCH-HHHHHHHHHHhcCc-----------------ccCCceEEEEeChhhcCHHHHHHHHHHHhCCcccee
Confidence 22222211111 11122222211100 124556889999865544567777777754445666
Q ss_pred EEEecCCh
Q 048163 328 IIVTARNQ 335 (350)
Q Consensus 328 iivTtr~~ 335 (350)
+|++|.+.
T Consensus 150 lIl~~~~~ 157 (355)
T TIGR02397 150 FILATTEP 157 (355)
T ss_pred EEEEeCCH
Confidence 66666543
No 57
>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=98.05 E-value=1.2e-05 Score=68.95 Aligned_cols=51 Identities=27% Similarity=0.371 Sum_probs=34.9
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.+|+|.+.-++.+.-++..... ....+..+.+|||+|+||||||+-+.+.
T Consensus 23 L~efiGQ~~l~~~l~i~i~aa~~-r~~~l~h~lf~GPPG~GKTTLA~IIA~e 73 (233)
T PF05496_consen 23 LDEFIGQEHLKGNLKILIRAAKK-RGEALDHMLFYGPPGLGKTTLARIIANE 73 (233)
T ss_dssp CCCS-S-HHHHHHHHHHHHHHHC-TTS---EEEEESSTTSSHHHHHHHHHHH
T ss_pred HHHccCcHHHHhhhHHHHHHHHh-cCCCcceEEEECCCccchhHHHHHHHhc
Confidence 46789999888876655543211 2346788999999999999999999986
No 58
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.05 E-value=2e-05 Score=75.40 Aligned_cols=138 Identities=17% Similarity=0.211 Sum_probs=76.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..+..|..++.... -...+.++|+.|+||||+|+.+.+......... ...+....+ ...+.
T Consensus 18 ~dvVGQe~iv~~L~~~i~~~r-----i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~---~~pCg~C~s----C~~i~ 85 (484)
T PRK14956 18 RDVIHQDLAIGALQNALKSGK-----IGHAYIFFGPRGVGKTTIARILAKRLNCENPIG---NEPCNECTS----CLEIT 85 (484)
T ss_pred HHHhChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhcCcccccC---ccccCCCcH----HHHHH
Confidence 567899988888888886543 235689999999999999999987532111000 000111111 11222
Q ss_pred HHhCCC-------CCCCCCCHHHHHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEE-EecCChhH
Q 048163 268 ISIVPD-------QNVDNHNLNKLQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKII-VTARNQEV 337 (350)
Q Consensus 268 ~~l~~~-------~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-vTtr~~~v 337 (350)
...... ......+..++.+.+... ..++.-++|+|++...+...++.+...+........+| .||....+
T Consensus 86 ~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI 164 (484)
T PRK14956 86 KGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKI 164 (484)
T ss_pred ccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhc
Confidence 111110 000111222233333221 23566799999998777778888888775433454544 45544444
No 59
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.04 E-value=4.8e-05 Score=72.27 Aligned_cols=139 Identities=15% Similarity=0.215 Sum_probs=75.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEE-eCCCCCHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTC-VSDDFDVFRLTKTI 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i 266 (350)
.+++|.+.-++.|..++.... -...+.++|+.|+||||+|+.+.+...-...+....|.. ...++..-...+.+
T Consensus 16 ~eiiGq~~~~~~L~~~~~~~~-----~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~ 90 (397)
T PRK14955 16 ADITAQEHITRTIQNSLRMGR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDF 90 (397)
T ss_pred hhccChHHHHHHHHHHHHhCC-----cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHH
Confidence 567899988888888886543 345688999999999999999877532211111111110 01111111222222
Q ss_pred HHHhCCCC----CCCCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec
Q 048163 267 LISIVPDQ----NVDNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA 332 (350)
Q Consensus 267 l~~l~~~~----~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt 332 (350)
......+. .......+++.+ +.+.+ .+++-++|+|++...+...++.+...+....+.+.+|++|
T Consensus 91 ~~~~~~n~~~~~~~~~~~id~Ir~-l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t 164 (397)
T PRK14955 91 DAGTSLNISEFDAASNNSVDDIRL-LRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFAT 164 (397)
T ss_pred hcCCCCCeEeecccccCCHHHHHH-HHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEe
Confidence 21111110 001111333332 22222 3456688999997666567888888876555566666555
No 60
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=98.03 E-value=1.3e-05 Score=81.09 Aligned_cols=109 Identities=26% Similarity=0.347 Sum_probs=62.6
Q ss_pred cccccchhhHH---HHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 188 AKVYGRETEKK---DVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 188 ~~~vGr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
.+++|.+..+. .|...+... ....+.++|++|+||||||+.+++. ...+|.. ++++. ..+
T Consensus 28 dd~vGQe~ii~~~~~L~~~i~~~------~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f~~---lna~~-~~i----- 90 (725)
T PRK13341 28 EEFVGQDHILGEGRLLRRAIKAD------RVGSLILYGPPGVGKTTLARIIANH--TRAHFSS---LNAVL-AGV----- 90 (725)
T ss_pred HHhcCcHHHhhhhHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHH--hcCccee---ehhhh-hhh-----
Confidence 45788876663 455555432 3567789999999999999999975 3333311 11110 000
Q ss_pred HHHHHhCCCCCCCCCCHHHHHHHHHHHc--CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE
Q 048163 265 TILISIVPDQNVDNHNLNKLQEELKKKL--SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV 330 (350)
Q Consensus 265 ~il~~l~~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv 330 (350)
.+.........+.+ .+++.+|+|||++..+...++.+...+. .|+.+++
T Consensus 91 --------------~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI 141 (725)
T PRK13341 91 --------------KDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLI 141 (725)
T ss_pred --------------HHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEE
Confidence 11111112222222 2467899999997766566666665443 3555555
No 61
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.01 E-value=4.9e-05 Score=75.05 Aligned_cols=138 Identities=14% Similarity=0.120 Sum_probs=76.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..++.|..++.... -.+.+.++|+.|+||||+|+.+.....-..... ..+++.-...+.|.
T Consensus 13 ~eivGq~~i~~~L~~~i~~~r-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-------~~pCg~C~~C~~i~ 80 (584)
T PRK14952 13 AEVVGQEHVTEPLSSALDAGR-----INHAYLFSGPRGCGKTSSARILARSLNCAQGPT-------ATPCGVCESCVALA 80 (584)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-------CCcccccHHHHHhh
Confidence 567899999999999986543 346678999999999999999987522111000 00111111111111
Q ss_pred HH---------hCCCCCCCCCCHHHHHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE-ecCChh
Q 048163 268 IS---------IVPDQNVDNHNLNKLQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV-TARNQE 336 (350)
Q Consensus 268 ~~---------l~~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv-Ttr~~~ 336 (350)
.. +.........+..++.+.+... ..+++-++|+|++...+....+.|...+......+.+|+ ||....
T Consensus 81 ~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~k 160 (584)
T PRK14952 81 PNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEK 160 (584)
T ss_pred cccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHh
Confidence 10 0000000111122222222211 135566899999987777788888888865445655554 544444
Q ss_pred H
Q 048163 337 V 337 (350)
Q Consensus 337 v 337 (350)
+
T Consensus 161 l 161 (584)
T PRK14952 161 V 161 (584)
T ss_pred h
Confidence 3
No 62
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=97.99 E-value=3.1e-05 Score=71.72 Aligned_cols=52 Identities=25% Similarity=0.372 Sum_probs=40.3
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
-.+|+|+++.++.+..++..... .......+.++|++|+|||+||+.+.+..
T Consensus 24 ~~~~vG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 24 LDEFIGQEKVKENLKIFIEAAKK-RGEALDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred HHHhcCcHHHHHHHHHHHHHHHh-cCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence 35689999999998887764211 12345678899999999999999998863
No 63
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=97.99 E-value=1.2e-05 Score=70.12 Aligned_cols=55 Identities=13% Similarity=0.112 Sum_probs=36.9
Q ss_pred chhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC
Q 048163 193 RETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD 255 (350)
Q Consensus 193 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~ 255 (350)
.+..++.+..++... ....+.|+|+.|+|||+||+.+++... ......++++++.
T Consensus 22 ~~~~~~~l~~~~~~~------~~~~lll~G~~G~GKT~la~~~~~~~~--~~~~~~~~i~~~~ 76 (226)
T TIGR03420 22 NAELLAALRQLAAGK------GDRFLYLWGESGSGKSHLLQAACAAAE--ERGKSAIYLPLAE 76 (226)
T ss_pred cHHHHHHHHHHHhcC------CCCeEEEECCCCCCHHHHHHHHHHHHH--hcCCcEEEEeHHH
Confidence 344566666665322 357889999999999999999988632 2233455665544
No 64
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.96 E-value=6.8e-05 Score=74.75 Aligned_cols=136 Identities=13% Similarity=0.208 Sum_probs=76.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..++.|..++.... -...+.++|+.|+||||+|+.+.+.......+. -..+++.....+.+.
T Consensus 16 ~eiiGq~~~~~~L~~~i~~~~-----i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~i~ 84 (585)
T PRK14950 16 AELVGQEHVVQTLRNAIAEGR-----VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRAIA 84 (585)
T ss_pred HHhcCCHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHHHh
Confidence 578999999999988886543 346678999999999999999987532111000 011122233334443
Q ss_pred HHhCCCC---CC-CCCCHHHHH---HHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 268 ISIVPDQ---NV-DNHNLNKLQ---EELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 268 ~~l~~~~---~~-~~~~~~~~~---~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
....... .. .....+.+. +.+... ..+++-++|+|++...+....+.|...+......+.+|++|.+
T Consensus 85 ~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~ 159 (585)
T PRK14950 85 EGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTE 159 (585)
T ss_pred cCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence 3222110 00 112222222 211111 1245778999999665556677777777554456666665543
No 65
>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=97.95 E-value=1.4e-05 Score=63.15 Aligned_cols=22 Identities=41% Similarity=0.412 Sum_probs=20.0
Q ss_pred EEEeecCCCchHHHHHHHHhcc
Q 048163 218 IPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~~ 239 (350)
|.|+|++|+|||++|+.+.++.
T Consensus 1 ill~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT
T ss_pred CEEECcCCCCeeHHHHHHHhhc
Confidence 5799999999999999999873
No 66
>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=97.92 E-value=5.7e-05 Score=59.87 Aligned_cols=88 Identities=19% Similarity=0.051 Sum_probs=47.8
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
..+.|+|++|+||||+++.+....... ....+.+..+........... ........ ...........+.+.....
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 77 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPP--GGGVIYIDGEDILEEVLDQLL--LIIVGGKK-ASGSGELRLRLALALARKL 77 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCC--CCCEEEECCEEccccCHHHHH--hhhhhccC-CCCCHHHHHHHHHHHHHhc
Confidence 578999999999999999998763222 233555555543322221111 01111111 2222233333444444333
Q ss_pred -eEEEEEeCCCCCC
Q 048163 296 -IFLLVLDDVWNEN 308 (350)
Q Consensus 296 -r~LlVlDdv~~~~ 308 (350)
..+|++|++....
T Consensus 78 ~~~viiiDei~~~~ 91 (148)
T smart00382 78 KPDVLILDEITSLL 91 (148)
T ss_pred CCCEEEEECCcccC
Confidence 4999999997653
No 67
>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=97.91 E-value=0.00014 Score=61.73 Aligned_cols=42 Identities=14% Similarity=0.183 Sum_probs=29.8
Q ss_pred CceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 294 GKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
+.+-++|+||+...+...++.+...+......+.+|++|.+.
T Consensus 95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~ 136 (188)
T TIGR00678 95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSP 136 (188)
T ss_pred CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence 456789999997666667788888776545566777766543
No 68
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.88 E-value=0.0001 Score=73.22 Aligned_cols=139 Identities=18% Similarity=0.267 Sum_probs=75.3
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+.....|..++.... -.+.+.++|+.|+||||+|+.+.+...-..... ..+++.....+.|.
T Consensus 16 ~~iiGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~-------~~~c~~c~~c~~i~ 83 (576)
T PRK14965 16 SDLTGQEHVSRTLQNAIDTGR-----VAHAFLFTGARGVGKTSTARILAKALNCEQGLT-------AEPCNVCPPCVEIT 83 (576)
T ss_pred HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC-------CCCCCccHHHHHHh
Confidence 567899988889998886543 346678999999999999999876522111000 00111111111111
Q ss_pred HHhCCC-------CCCCCCCHHHHHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE-ecCChhHH
Q 048163 268 ISIVPD-------QNVDNHNLNKLQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV-TARNQEVA 338 (350)
Q Consensus 268 ~~l~~~-------~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv-Ttr~~~va 338 (350)
..-... ......+..++...+... ..+++-++|+|++...+....+.|...|......+.+|+ ||....+-
T Consensus 84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~ 163 (576)
T PRK14965 84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVP 163 (576)
T ss_pred cCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhh
Confidence 100000 000011122222222211 134566899999977666778888888765445656554 54444443
No 69
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.87 E-value=0.00012 Score=68.81 Aligned_cols=46 Identities=20% Similarity=0.309 Sum_probs=38.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++|.+...+.+.+.+.... -.+.+.++|+.|+|||++|+.+.+.
T Consensus 17 ~~iig~~~~~~~l~~~i~~~~-----~~~~~L~~G~~G~GKt~~a~~la~~ 62 (367)
T PRK14970 17 DDVVGQSHITNTLLNAIENNH-----LAQALLFCGPRGVGKTTCARILARK 62 (367)
T ss_pred HhcCCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 567899999999999886543 3468889999999999999999765
No 70
>PRK08116 hypothetical protein; Validated
Probab=97.86 E-value=5.5e-05 Score=67.84 Aligned_cols=104 Identities=23% Similarity=0.249 Sum_probs=59.8
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
..+.++|..|+|||.||..+++... .....+++++ ..+++..+....... ...+... +.+.+.+-
T Consensus 115 ~gl~l~G~~GtGKThLa~aia~~l~--~~~~~v~~~~------~~~ll~~i~~~~~~~---~~~~~~~----~~~~l~~~ 179 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAACIANELI--EKGVPVIFVN------FPQLLNRIKSTYKSS---GKEDENE----IIRSLVNA 179 (268)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHH--HcCCeEEEEE------HHHHHHHHHHHHhcc---ccccHHH----HHHHhcCC
Confidence 4688999999999999999999732 2233445554 444555555443221 1112222 22334433
Q ss_pred eEEEEEeCCCCCCcccHhh--hcCccCC-CCCCceEEEecCCh
Q 048163 296 IFLLVLDDVWNENYNDWDR--LRPPFEA-GAPGSKIIVTARNQ 335 (350)
Q Consensus 296 r~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~iivTtr~~ 335 (350)
. ||||||+......+|.. +...+.. -..|..+|+||...
T Consensus 180 d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~ 221 (268)
T PRK08116 180 D-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS 221 (268)
T ss_pred C-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 3 89999996543345543 3332221 13466788888753
No 71
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=97.86 E-value=0.00016 Score=67.67 Aligned_cols=143 Identities=15% Similarity=0.086 Sum_probs=80.0
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCcee----EEEeCCCCCHHHH
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKA----WTCVSDDFDVFRL 262 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~----wv~~~~~~~~~~~ 262 (350)
-.+++|.+.....|.+.+.... -...+.++|+.|+||+++|..+.....-........ -.+... ......
T Consensus 18 ~~~iiGq~~~~~~L~~~~~~~r-----l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~-~~~c~~ 91 (365)
T PRK07471 18 TTALFGHAAAEAALLDAYRSGR-----LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAI-DPDHPV 91 (365)
T ss_pred hhhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccC-CCCChH
Confidence 4578999999999999887653 356789999999999999988876421111100000 000000 000011
Q ss_pred HHHHHHHhCCC-------CCC------CCCCHHHHHHHHHHHcC-----CceEEEEEeCCCCCCcccHhhhcCccCCCCC
Q 048163 263 TKTILISIVPD-------QNV------DNHNLNKLQEELKKKLS-----GKIFLLVLDDVWNENYNDWDRLRPPFEAGAP 324 (350)
Q Consensus 263 ~~~il~~l~~~-------~~~------~~~~~~~~~~~l~~~l~-----~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~ 324 (350)
.+.+...-... ... ..-..++ ++.+.+++. +.+-++|+|++...+....+.+...+.....
T Consensus 92 c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~ 170 (365)
T PRK07471 92 ARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPA 170 (365)
T ss_pred HHHHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCC
Confidence 11111110000 000 1112333 333444442 4567999999987777788888888765455
Q ss_pred CceEEEecCChh
Q 048163 325 GSKIIVTARNQE 336 (350)
Q Consensus 325 gs~iivTtr~~~ 336 (350)
++.+|++|.+.+
T Consensus 171 ~~~~IL~t~~~~ 182 (365)
T PRK07471 171 RSLFLLVSHAPA 182 (365)
T ss_pred CeEEEEEECCch
Confidence 667777776653
No 72
>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=97.86 E-value=0.00016 Score=59.75 Aligned_cols=122 Identities=15% Similarity=0.131 Sum_probs=74.5
Q ss_pred cchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccc------------------cccCceeEEEe
Q 048163 192 GRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ------------------DHFDLKAWTCV 253 (350)
Q Consensus 192 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~------------------~~F~~~~wv~~ 253 (350)
|.++..+.|...+.... -...+.++|+.|+||+++|..+....--. .......|+..
T Consensus 1 gq~~~~~~L~~~~~~~~-----l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~ 75 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGR-----LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKP 75 (162)
T ss_dssp S-HHHHHHHHHHHHCTC-------SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEET
T ss_pred CcHHHHHHHHHHHHcCC-----cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEec
Confidence 45566777777776543 35678999999999999999987642111 11223344433
Q ss_pred CCC---CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE
Q 048163 254 SDD---FDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV 330 (350)
Q Consensus 254 ~~~---~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv 330 (350)
... ..++++ +.+...+..... .+++=++|+||+...+...++.|...|-.....+.+|+
T Consensus 76 ~~~~~~i~i~~i-r~i~~~~~~~~~-----------------~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL 137 (162)
T PF13177_consen 76 DKKKKSIKIDQI-REIIEFLSLSPS-----------------EGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFIL 137 (162)
T ss_dssp TTSSSSBSHHHH-HHHHHHCTSS-T-----------------TSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEE
T ss_pred ccccchhhHHHH-HHHHHHHHHHHh-----------------cCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEE
Confidence 322 222222 233333322221 24577899999988788899999998876667889888
Q ss_pred ecCChh
Q 048163 331 TARNQE 336 (350)
Q Consensus 331 Ttr~~~ 336 (350)
+|.+.+
T Consensus 138 ~t~~~~ 143 (162)
T PF13177_consen 138 ITNNPS 143 (162)
T ss_dssp EES-GG
T ss_pred EECChH
Confidence 888764
No 73
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.86 E-value=0.00016 Score=70.28 Aligned_cols=46 Identities=22% Similarity=0.221 Sum_probs=37.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++|.+.-...|.+++.... -.+.+.++|+.|+||||+|+.+...
T Consensus 16 ~diiGq~~i~~~L~~~i~~~~-----i~hayLf~Gp~G~GKTtlAr~lAk~ 61 (486)
T PRK14953 16 KEVIGQEIVVRILKNAVKLQR-----VSHAYIFAGPRGTGKTTIARILAKV 61 (486)
T ss_pred HHccChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 467899999999999886543 2456778999999999999998764
No 74
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=97.82 E-value=0.00012 Score=63.60 Aligned_cols=125 Identities=23% Similarity=0.317 Sum_probs=74.1
Q ss_pred ccccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 185 VKEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 185 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
+.-..++|.+.+++.|++-...-- ......-+.+||..|+|||+|++.+.+....++ .+ -|.+..
T Consensus 24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl--~G~pannvLL~G~rGtGKSSlVkall~~y~~~G---LR-lIev~k--------- 88 (249)
T PF05673_consen 24 IRLDDLIGIERQKEALIENTEQFL--QGLPANNVLLWGARGTGKSSLVKALLNEYADQG---LR-LIEVSK--------- 88 (249)
T ss_pred CCHHHhcCHHHHHHHHHHHHHHHH--cCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC---ce-EEEECH---------
Confidence 345778999999998877433211 112456778899999999999999987532222 11 122221
Q ss_pred HHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCCC---CC-CceEEEecCChhH
Q 048163 265 TILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEAG---AP-GSKIIVTARNQEV 337 (350)
Q Consensus 265 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~---~~-gs~iivTtr~~~v 337 (350)
. +-.++..+.+.|+. +..||+|.+||+.-. ....+..+.+.|..+ .+ ...|..||-.+.+
T Consensus 89 ----------~-~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHL 153 (249)
T PF05673_consen 89 ----------E-DLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHL 153 (249)
T ss_pred ----------H-HhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhc
Confidence 0 23445555555553 457999999999543 224566666655422 22 3344455554443
No 75
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.81 E-value=0.00015 Score=71.74 Aligned_cols=134 Identities=16% Similarity=0.249 Sum_probs=73.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..+..|...+.... -...+.++|+.|+||||+|+.+.+......... ..+++.-...+.|.
T Consensus 16 ~dIiGQe~v~~~L~~ai~~~r-----i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~-------~~pCg~C~sC~~i~ 83 (624)
T PRK14959 16 AEVAGQETVKAILSRAAQENR-----VAPAYLFSGTRGVGKTTIARIFAKALNCETAPT-------GEPCNTCEQCRKVT 83 (624)
T ss_pred HHhcCCHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhccccCCCC-------CCCCcccHHHHHHh
Confidence 467898888888888775432 246788999999999999999987532111000 01122222222222
Q ss_pred HHhCCCCC----CCCCCHHHHHHHHHHH-----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 268 ISIVPDQN----VDNHNLNKLQEELKKK-----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 268 ~~l~~~~~----~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
........ ......+.+. .+.+. ..+++-+||+|++...+...++.|...+........+|++|.+
T Consensus 84 ~g~hpDv~eId~a~~~~Id~iR-~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~ 158 (624)
T PRK14959 84 QGMHVDVVEIDGASNRGIDDAK-RLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTE 158 (624)
T ss_pred cCCCCceEEEecccccCHHHHH-HHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCC
Confidence 21110000 0011122211 12221 1356779999999776666778888877543345555555544
No 76
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=97.81 E-value=6.6e-05 Score=70.59 Aligned_cols=52 Identities=21% Similarity=0.157 Sum_probs=39.3
Q ss_pred ccccccchhhHHHHHHHHhcCCC-------CCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDL-------SNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++.|+++.+++|.+.+..+-. .+-...+.+.++|++|+|||++|+.+++.
T Consensus 121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 45689999999999887743211 01123566999999999999999999985
No 77
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.79 E-value=0.00023 Score=70.89 Aligned_cols=145 Identities=14% Similarity=0.188 Sum_probs=76.9
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEE-eCCCCCHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTC-VSDDFDVFRLTKTI 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i 266 (350)
.+++|.+..+..|..++.... -...+.++|+.|+||||+|+.+.+.......++.-.|-. ...+++.-...+.+
T Consensus 16 ~eivGQe~i~~~L~~~i~~~r-----i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~ 90 (620)
T PRK14954 16 ADITAQEHITHTIQNSLRMDR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF 90 (620)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence 567899988888888886543 346688999999999999999876532211111001110 00111111222222
Q ss_pred HHHhCCCC----CCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec-CChhH
Q 048163 267 LISIVPDQ----NVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA-RNQEV 337 (350)
Q Consensus 267 l~~l~~~~----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt-r~~~v 337 (350)
...-..+. .......+++...+... ..+++-++|+|++...+....+.|...+......+.+|++| +...+
T Consensus 91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kL 170 (620)
T PRK14954 91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKI 170 (620)
T ss_pred hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence 11111100 00111233333222222 23456688999997766667888888886544455655444 43343
No 78
>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=97.75 E-value=9.5e-05 Score=76.58 Aligned_cols=45 Identities=27% Similarity=0.437 Sum_probs=38.4
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++||+.+++++++.|.... ...+.++|++|+|||++|+.+...
T Consensus 187 d~~iGr~~ei~~~i~~l~r~~------~~n~lLvG~pGvGKTal~~~La~~ 231 (852)
T TIGR03345 187 DPVLGRDDEIRQMIDILLRRR------QNNPILTGEAGVGKTAVVEGLALR 231 (852)
T ss_pred CcccCCHHHHHHHHHHHhcCC------cCceeEECCCCCCHHHHHHHHHHH
Confidence 468999999999999997653 345679999999999999999875
No 79
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=97.74 E-value=0.00031 Score=65.39 Aligned_cols=140 Identities=14% Similarity=0.161 Sum_probs=79.9
Q ss_pred cccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccc--ccCceeEEEeCCCCCHHHHH
Q 048163 186 KEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD--HFDLKAWTCVSDDFDVFRLT 263 (350)
Q Consensus 186 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~--~F~~~~wv~~~~~~~~~~~~ 263 (350)
.-..++|.++....|...+.... -...+.++|+.|+||||+|..+.....-.. .+... ....+.......
T Consensus 21 ~~~~l~Gh~~a~~~L~~a~~~gr-----l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c 92 (351)
T PRK09112 21 ENTRLFGHEEAEAFLAQAYREGK-----LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVW 92 (351)
T ss_pred chhhccCcHHHHHHHHHHHHcCC-----CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHH
Confidence 34668999999999999886553 356789999999999999999877532110 01111 011111111233
Q ss_pred HHHHHHhC-------CCCCC------CCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCC
Q 048163 264 KTILISIV-------PDQNV------DNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPG 325 (350)
Q Consensus 264 ~~il~~l~-------~~~~~------~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~g 325 (350)
+.+...-. ..... ..-..++. ..+.+++ .+++-++|+|++...+....+.+...+......
T Consensus 93 ~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~i-R~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~ 171 (351)
T PRK09112 93 RQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEI-RRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPAR 171 (351)
T ss_pred HHHHcCCCCCEEEeecccccccccccccCCHHHH-HHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC
Confidence 33322211 00000 11123333 3444444 256779999999877777788888877543344
Q ss_pred ceEEEecCC
Q 048163 326 SKIIVTARN 334 (350)
Q Consensus 326 s~iivTtr~ 334 (350)
..+|++|.+
T Consensus 172 ~~fiLit~~ 180 (351)
T PRK09112 172 ALFILISHS 180 (351)
T ss_pred ceEEEEECC
Confidence 554554443
No 80
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.73 E-value=0.00012 Score=76.02 Aligned_cols=45 Identities=33% Similarity=0.431 Sum_probs=38.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++||+++++++++.|.... ..-+.++|++|+|||++|+.++..
T Consensus 179 ~~~igr~~ei~~~~~~L~r~~------~~n~lL~G~pGvGKTal~~~la~~ 223 (821)
T CHL00095 179 DPVIGREKEIERVIQILGRRT------KNNPILIGEPGVGKTAIAEGLAQR 223 (821)
T ss_pred CCCCCcHHHHHHHHHHHcccc------cCCeEEECCCCCCHHHHHHHHHHH
Confidence 457999999999999997653 345579999999999999999875
No 81
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=97.73 E-value=6.4e-05 Score=65.62 Aligned_cols=37 Identities=30% Similarity=0.284 Sum_probs=29.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEe
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCV 253 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~ 253 (350)
.-.+.|+|+.|+|||||+..+..+ ....|..+++++-
T Consensus 13 ~fr~viIG~sGSGKT~li~~lL~~--~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 13 PFRMVIIGKSGSGKTTLIKSLLYY--LRHKFDHIFLITP 49 (241)
T ss_pred CceEEEECCCCCCHHHHHHHHHHh--hcccCCEEEEEec
Confidence 346889999999999999999876 6678877766644
No 82
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.73 E-value=0.00028 Score=70.49 Aligned_cols=136 Identities=14% Similarity=0.222 Sum_probs=75.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
..++|.+.....|..++.... -.+.+.++|+.|+||||+|+.++........+.. ...++..-+..+.+.
T Consensus 16 ~~liGq~~i~~~L~~~l~~~r-----l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~-----~~~~Cg~C~~C~~i~ 85 (620)
T PRK14948 16 DELVGQEAIATTLKNALISNR-----IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKP-----TPEPCGKCELCRAIA 85 (620)
T ss_pred hhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCC-----CCCCCcccHHHHHHh
Confidence 467899999999988887543 2356789999999999999999876321111100 001122222333332
Q ss_pred HHhCCCC----CCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecC
Q 048163 268 ISIVPDQ----NVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTAR 333 (350)
Q Consensus 268 ~~l~~~~----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr 333 (350)
....... .......+.+.+.+... ..+++-++|+|++...+...++.|...+......+.+|++|.
T Consensus 86 ~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~ 159 (620)
T PRK14948 86 AGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATT 159 (620)
T ss_pred cCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeC
Confidence 2221110 00112222222222211 124566899999976666678888887765444555555443
No 83
>PRK08118 topology modulation protein; Reviewed
Probab=97.73 E-value=1.7e-05 Score=65.86 Aligned_cols=36 Identities=36% Similarity=0.607 Sum_probs=29.1
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccc-cccCceeEE
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQ-DHFDLKAWT 251 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~-~~F~~~~wv 251 (350)
+.|.|+|++|+||||||+.+++..... -+|+..+|-
T Consensus 2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~ 38 (167)
T PRK08118 2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK 38 (167)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence 358999999999999999999875444 567777753
No 84
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=97.72 E-value=0.00036 Score=68.09 Aligned_cols=135 Identities=16% Similarity=0.197 Sum_probs=73.9
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|-+.....|...+.... -.+...++|+.|+||||+|+.+.....-....+. .++......+.+.
T Consensus 14 deiiGqe~v~~~L~~~I~~gr-----l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~-------~pC~~C~~C~~~~ 81 (535)
T PRK08451 14 DELIGQESVSKTLSLALDNNR-----LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSS-------TPCDTCIQCQSAL 81 (535)
T ss_pred HHccCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCC-------CCCcccHHHHHHh
Confidence 567899888899988886543 3567789999999999999988764211100000 0000000001110
Q ss_pred HHhCCCC----CCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 268 ISIVPDQ----NVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 268 ~~l~~~~----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
....... .......+.+.+.+... ..+++-++|+|++...+....+.+...+......+++|++|.+
T Consensus 82 ~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd 156 (535)
T PRK08451 82 ENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTD 156 (535)
T ss_pred hcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECC
Confidence 0000000 00011122322222210 1245678999999777777788888877554556776666654
No 85
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.71 E-value=0.00036 Score=69.76 Aligned_cols=126 Identities=14% Similarity=0.193 Sum_probs=75.3
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccc---------------------ccccC
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQV---------------------QDHFD 246 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~---------------------~~~F~ 246 (350)
.+++|.+...+.|..++.... -.+.+.++|+.|+||||+|+.+...... ..+|+
T Consensus 17 ~~viGq~~~~~~L~~~i~~~~-----l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n 91 (614)
T PRK14971 17 ESVVGQEALTTTLKNAIATNK-----LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN 91 (614)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc
Confidence 567899999999999986543 3567889999999999999988764211 11222
Q ss_pred ceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCc
Q 048163 247 LKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGS 326 (350)
Q Consensus 247 ~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs 326 (350)
. ..+......++. -++.++.++.... +-+++-++|+|++...+...++.|...+......+
T Consensus 92 ~-~~ld~~~~~~vd-~Ir~li~~~~~~P-----------------~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~t 152 (614)
T PRK14971 92 I-HELDAASNNSVD-DIRNLIEQVRIPP-----------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYA 152 (614)
T ss_pred e-EEecccccCCHH-HHHHHHHHHhhCc-----------------ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCe
Confidence 1 122222111111 1122222211100 12456688999997776677888888886555566
Q ss_pred eEEEec-CChhH
Q 048163 327 KIIVTA-RNQEV 337 (350)
Q Consensus 327 ~iivTt-r~~~v 337 (350)
.+|++| ....+
T Consensus 153 ifIL~tt~~~kI 164 (614)
T PRK14971 153 IFILATTEKHKI 164 (614)
T ss_pred EEEEEeCCchhc
Confidence 655544 44433
No 86
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=97.70 E-value=0.0003 Score=70.60 Aligned_cols=138 Identities=14% Similarity=0.205 Sum_probs=73.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..+..|..++.... -.+.+.++|+.|+||||+|+.+....-.....+ .+ .++. .+....-
T Consensus 18 ~dIiGQe~~v~~L~~aI~~~r-----l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~--~~----~pC~--~C~~~~~ 84 (725)
T PRK07133 18 DDIVGQDHIVQTLKNIIKSNK-----ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTD--LL----EPCQ--ECIENVN 84 (725)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccccCC--CC----Cchh--HHHHhhc
Confidence 467899998999999886543 356778999999999999999876421110000 00 0000 0000000
Q ss_pred H-----HhCCCCCCCCCCHHHHHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEE-EecCChhHH
Q 048163 268 I-----SIVPDQNVDNHNLNKLQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKII-VTARNQEVA 338 (350)
Q Consensus 268 ~-----~l~~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-vTtr~~~va 338 (350)
. .+.........+...+.+.+... ..+++-++|+|++...+...++.|...|-.....+.+| +|+....+-
T Consensus 85 ~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl 162 (725)
T PRK07133 85 NSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIP 162 (725)
T ss_pred CCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhh
Confidence 0 00000000011122222222221 13567799999997766677888888775434454544 555544443
No 87
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=97.70 E-value=0.00028 Score=68.06 Aligned_cols=46 Identities=22% Similarity=0.301 Sum_probs=38.1
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++|.+..+..|..++.... -...+.++|+.|+||||+|+.+.+.
T Consensus 17 ~diiGq~~~v~~L~~~i~~~~-----i~ha~Lf~Gp~G~GKtt~A~~lAk~ 62 (451)
T PRK06305 17 SEILGQDAVVAVLKNALRFNR-----AAHAYLFSGIRGTGKTTLARIFAKA 62 (451)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-----CceEEEEEcCCCCCHHHHHHHHHHH
Confidence 567899999999999886543 2467889999999999999998764
No 88
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=0.0014 Score=64.63 Aligned_cols=105 Identities=22% Similarity=0.283 Sum_probs=67.4
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHH
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
+.+-+|.++-.+++++++--..-.++-+-++++.+||+|||||.+++.++.- ....|. -++++.-.+..+|
T Consensus 410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~A--LnRkFf---RfSvGG~tDvAeI---- 480 (906)
T KOG2004|consen 410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARA--LNRKFF---RFSVGGMTDVAEI---- 480 (906)
T ss_pred cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHH--hCCceE---EEeccccccHHhh----
Confidence 3456899999999999886543334567899999999999999999999875 333332 1345554443332
Q ss_pred HHHhCCCCCC-CCCCHHHHHHHHHHHcCCceEEEEEeCCC
Q 048163 267 LISIVPDQNV-DNHNLNKLQEELKKKLSGKIFLLVLDDVW 305 (350)
Q Consensus 267 l~~l~~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdv~ 305 (350)
.+.... -..-...+++.|+.. +..+=|+.||+|.
T Consensus 481 ----kGHRRTYVGAMPGkiIq~LK~v-~t~NPliLiDEvD 515 (906)
T KOG2004|consen 481 ----KGHRRTYVGAMPGKIIQCLKKV-KTENPLILIDEVD 515 (906)
T ss_pred ----cccceeeeccCChHHHHHHHhh-CCCCceEEeehhh
Confidence 111110 112234455555553 4567788899994
No 89
>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=97.68 E-value=0.00031 Score=62.86 Aligned_cols=51 Identities=22% Similarity=0.290 Sum_probs=33.6
Q ss_pred cccccchhhHHHHHHH---Hhc------CCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVEL---LLR------DDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~---L~~------~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++|.+..++++.+. +.. ......+....+.++|++|+||||+|+.+++.
T Consensus 6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~ 65 (261)
T TIGR02881 6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKL 65 (261)
T ss_pred HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHH
Confidence 3478887666555433 211 11112344567889999999999999999764
No 90
>PRK12608 transcription termination factor Rho; Provisional
Probab=97.66 E-value=0.00031 Score=65.11 Aligned_cols=103 Identities=18% Similarity=0.170 Sum_probs=65.5
Q ss_pred hHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCc-eeEEEeCCCC-CHHHHHHHHHHHhCCC
Q 048163 196 EKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDL-KAWTCVSDDF-DVFRLTKTILISIVPD 273 (350)
Q Consensus 196 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~il~~l~~~ 273 (350)
...++++.+..-. .-..+.|+|+.|+|||||++.+.+... .++-+. ++|+.+.+.. .+.++++.+...+...
T Consensus 119 ~~~RvID~l~PiG-----kGQR~LIvG~pGtGKTTLl~~la~~i~-~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas 192 (380)
T PRK12608 119 LSMRVVDLVAPIG-----KGQRGLIVAPPRAGKTVLLQQIAAAVA-ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS 192 (380)
T ss_pred hhHhhhhheeecC-----CCceEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence 4456888887532 234569999999999999999887521 123344 4677776654 6778888888877654
Q ss_pred CCCCCCC----HHHHHHHHHHHc--CCceEEEEEeCC
Q 048163 274 QNVDNHN----LNKLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 274 ~~~~~~~----~~~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
..+.... .......+.+.+ ++++.+||+|++
T Consensus 193 t~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsl 229 (380)
T PRK12608 193 TFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSL 229 (380)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence 4312111 111111222222 589999999999
No 91
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.66 E-value=0.00021 Score=74.17 Aligned_cols=45 Identities=27% Similarity=0.411 Sum_probs=38.3
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++||+.+++++++.|.... ...+.++|++|+|||+||+.+...
T Consensus 178 ~~vigr~~ei~~~i~iL~r~~------~~n~lL~G~pGvGKT~l~~~la~~ 222 (857)
T PRK10865 178 DPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQR 222 (857)
T ss_pred CcCCCCHHHHHHHHHHHhcCC------cCceEEECCCCCCHHHHHHHHHHH
Confidence 458999999999999997654 345669999999999999999875
No 92
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=97.64 E-value=0.0006 Score=67.41 Aligned_cols=134 Identities=13% Similarity=0.089 Sum_probs=74.9
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+..+..|..++.... -.+.+.++|+.|+||||+|+.+.+.......... .+++.-...+.|.
T Consensus 16 ~diiGqe~iv~~L~~~i~~~~-----i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~-------~pC~~C~~C~~i~ 83 (563)
T PRK06647 16 NSLEGQDFVVETLKHSIESNK-----IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP-------MPCGECSSCKSID 83 (563)
T ss_pred HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC-------CCCccchHHHHHH
Confidence 567899999999999986543 3567889999999999999999875321110000 0000001111111
Q ss_pred HHhCCC----CCCCCCCHHHHHHHH---HHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecC
Q 048163 268 ISIVPD----QNVDNHNLNKLQEEL---KKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTAR 333 (350)
Q Consensus 268 ~~l~~~----~~~~~~~~~~~~~~l---~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr 333 (350)
..-... ........+.+.... ... ..+++-++|+|++...+...++.+...+......+.+|++|.
T Consensus 84 ~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tt 157 (563)
T PRK06647 84 NDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATT 157 (563)
T ss_pred cCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecC
Confidence 110000 000112222222211 111 135666899999977766778888888865455666665553
No 93
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.63 E-value=0.00026 Score=62.28 Aligned_cols=38 Identities=11% Similarity=0.107 Sum_probs=26.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVS 254 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~ 254 (350)
...+.|+|+.|+|||+|++.+++... ..-..+.++++.
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~~~--~~~~~v~y~~~~ 82 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAELS--QRGRAVGYVPLD 82 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH--hCCCeEEEEEHH
Confidence 35789999999999999999987532 222334555543
No 94
>PRK08727 hypothetical protein; Validated
Probab=97.61 E-value=0.00017 Score=63.39 Aligned_cols=36 Identities=22% Similarity=0.212 Sum_probs=26.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEe
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCV 253 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~ 253 (350)
..+.|+|+.|+|||+|++.+++.. .......+++++
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~--~~~~~~~~y~~~ 77 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAA--EQAGRSSAYLPL 77 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEeH
Confidence 459999999999999999998763 222334556554
No 95
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=97.61 E-value=0.00081 Score=66.63 Aligned_cols=136 Identities=16% Similarity=0.204 Sum_probs=74.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
.+++|.+...+.|.+++.... -.+.+.++|+.|+|||++|+.+.......... ...+++.-...+.|.
T Consensus 16 ~~viGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~-------~~~pC~~C~~C~~i~ 83 (559)
T PRK05563 16 EDVVGQEHITKTLKNAIKQGK-----ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPP-------DGEPCNECEICKAIT 83 (559)
T ss_pred HhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCC-------CCCCCCccHHHHHHh
Confidence 568999999999999987653 34667789999999999999987642111100 011112112222222
Q ss_pred HHhCCCC----CCCCCCHH---HHHHHHHHH-cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE-ecCCh
Q 048163 268 ISIVPDQ----NVDNHNLN---KLQEELKKK-LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV-TARNQ 335 (350)
Q Consensus 268 ~~l~~~~----~~~~~~~~---~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv-Ttr~~ 335 (350)
.....+. .......+ ++...+... ..+++-++|+|++...+...++.|...+........+|+ ||...
T Consensus 84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ 160 (559)
T PRK05563 84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPH 160 (559)
T ss_pred cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChh
Confidence 1111100 00111122 222222211 135677889999977666778888877754344545444 44433
No 96
>PRK10536 hypothetical protein; Provisional
Probab=97.60 E-value=0.00047 Score=60.64 Aligned_cols=55 Identities=15% Similarity=0.180 Sum_probs=39.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeE
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAW 250 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~w 250 (350)
..+.++......++.+|.. ..++.+.|+.|+|||+||..+..+.-..+.|..++-
T Consensus 55 ~~i~p~n~~Q~~~l~al~~--------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI 109 (262)
T PRK10536 55 SPILARNEAQAHYLKAIES--------KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIV 109 (262)
T ss_pred ccccCCCHHHHHHHHHHhc--------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEE
Confidence 3456778888888888853 249999999999999999998875322344554443
No 97
>CHL00181 cbbX CbbX; Provisional
Probab=97.58 E-value=0.00088 Score=60.68 Aligned_cols=24 Identities=29% Similarity=0.224 Sum_probs=20.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+.++|++|+|||++|+.++..
T Consensus 59 ~~~ill~G~pGtGKT~lAr~la~~ 82 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKMADI 82 (287)
T ss_pred CceEEEECCCCCCHHHHHHHHHHH
Confidence 345788999999999999999764
No 98
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=97.57 E-value=0.00015 Score=68.63 Aligned_cols=52 Identities=23% Similarity=0.159 Sum_probs=39.0
Q ss_pred ccccccchhhHHHHHHHHhcCCC-------CCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDL-------SNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++.|+++.++++.+.+..+-. .+-...+.|.++|++|+|||++|+.+++.
T Consensus 130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence 35688999999988887642110 01234567999999999999999999885
No 99
>PRK08939 primosomal protein DnaI; Reviewed
Probab=97.56 E-value=0.0003 Score=64.20 Aligned_cols=122 Identities=15% Similarity=0.171 Sum_probs=69.7
Q ss_pred cchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhC
Q 048163 192 GRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIV 271 (350)
Q Consensus 192 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~ 271 (350)
++........+++..-. ..+....+.++|+.|+|||.||..+++..- ...+ .+.++++ .+++.++-....
T Consensus 135 ~~~~~~~~~~~fi~~~~--~~~~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~-~v~~~~~------~~l~~~lk~~~~ 204 (306)
T PRK08939 135 DRLDALMAALDFLEAYP--PGEKVKGLYLYGDFGVGKSYLLAAIANELA-KKGV-SSTLLHF------PEFIRELKNSIS 204 (306)
T ss_pred HHHHHHHHHHHHHHHhh--ccCCCCeEEEECCCCCCHHHHHHHHHHHHH-HcCC-CEEEEEH------HHHHHHHHHHHh
Confidence 34444444555554322 112346899999999999999999998732 2223 3445444 355566554442
Q ss_pred CCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhh--hcCcc-CCC-CCCceEEEecCC
Q 048163 272 PDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDR--LRPPF-EAG-APGSKIIVTARN 334 (350)
Q Consensus 272 ~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~--l~~~l-~~~-~~gs~iivTtr~ 334 (350)
. .+... .+.. +. +-=||||||+.......|.. +...+ ... ..+..+|+||--
T Consensus 205 ~------~~~~~---~l~~-l~-~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl 260 (306)
T PRK08939 205 D------GSVKE---KIDA-VK-EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF 260 (306)
T ss_pred c------CcHHH---HHHH-hc-CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence 1 12222 2222 22 45689999997766677864 44433 221 245567777764
No 100
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=97.55 E-value=0.00056 Score=63.04 Aligned_cols=124 Identities=13% Similarity=0.097 Sum_probs=76.2
Q ss_pred cccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccc-------------------ccCceeE
Q 048163 190 VYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD-------------------HFDLKAW 250 (350)
Q Consensus 190 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~-------------------~F~~~~w 250 (350)
++|-+....++..+..... .....+.++|+.|+||||+|..+.....-.. .......
T Consensus 3 ~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~le 78 (325)
T COG0470 3 LVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLE 78 (325)
T ss_pred cccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEE
Confidence 4666777778888777443 1233699999999999999999887532111 1123344
Q ss_pred EEeCCCCC---HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCce
Q 048163 251 TCVSDDFD---VFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSK 327 (350)
Q Consensus 251 v~~~~~~~---~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ 327 (350)
++.+.... ..+..+++.+....... .++.-++++|++...+.+.-+.+...+......+.
T Consensus 79 l~~s~~~~~~i~~~~vr~~~~~~~~~~~-----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~ 141 (325)
T COG0470 79 LNPSDLRKIDIIVEQVRELAEFLSESPL-----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTR 141 (325)
T ss_pred ecccccCCCcchHHHHHHHHHHhccCCC-----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeE
Confidence 44444333 23333333333322111 25678899999976666667777777665556777
Q ss_pred EEEecCC
Q 048163 328 IIVTARN 334 (350)
Q Consensus 328 iivTtr~ 334 (350)
+|++|..
T Consensus 142 ~il~~n~ 148 (325)
T COG0470 142 FILITND 148 (325)
T ss_pred EEEEcCC
Confidence 7777763
No 101
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=97.55 E-value=0.0014 Score=67.29 Aligned_cols=52 Identities=27% Similarity=0.402 Sum_probs=40.1
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+.+.+|.++-+++|+++|......+.....++.++|++|+||||+++.+...
T Consensus 321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~ 372 (784)
T PRK10787 321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKA 372 (784)
T ss_pred hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 3457899999999998887422112234568999999999999999999874
No 102
>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=97.54 E-value=0.0002 Score=74.56 Aligned_cols=45 Identities=27% Similarity=0.407 Sum_probs=37.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++||+.+++++++.|.... ...+.++|++|+|||++|..+...
T Consensus 173 ~~~igr~~ei~~~~~~l~r~~------~~n~lL~G~pGvGKT~l~~~la~~ 217 (852)
T TIGR03346 173 DPVIGRDEEIRRTIQVLSRRT------KNNPVLIGEPGVGKTAIVEGLAQR 217 (852)
T ss_pred CcCCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHH
Confidence 458999999999999997653 344568999999999999998875
No 103
>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=97.53 E-value=0.00042 Score=71.87 Aligned_cols=137 Identities=15% Similarity=0.160 Sum_probs=77.6
Q ss_pred cccccchhhHHHHHHHHhcCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
..++|.+..++.+.+.+..... .......++.++||.|+|||.||+.+.... -+.....+-++++.....
T Consensus 566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l--~~~~~~~~~~dmse~~~~----- 638 (852)
T TIGR03345 566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL--YGGEQNLITINMSEFQEA----- 638 (852)
T ss_pred CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH--hCCCcceEEEeHHHhhhh-----
Confidence 5678999999999888864211 012345678999999999999999887642 111122233333332111
Q ss_pred HHHHHhCCCCCC--CCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCC-----------CCceEEEe
Q 048163 265 TILISIVPDQNV--DNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGA-----------PGSKIIVT 331 (350)
Q Consensus 265 ~il~~l~~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivT 331 (350)
.-...+.+..+. ....-..+...+++ ....+|+||++....+..++.+...+..+. ..+-||+|
T Consensus 639 ~~~~~l~g~~~gyvg~~~~g~L~~~v~~---~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~T 715 (852)
T TIGR03345 639 HTVSRLKGSPPGYVGYGEGGVLTEAVRR---KPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT 715 (852)
T ss_pred hhhccccCCCCCcccccccchHHHHHHh---CCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence 111122221110 11111223333333 456799999997666677777766655442 45667777
Q ss_pred cCC
Q 048163 332 ARN 334 (350)
Q Consensus 332 tr~ 334 (350)
|.-
T Consensus 716 SNl 718 (852)
T TIGR03345 716 SNA 718 (852)
T ss_pred CCC
Confidence 664
No 104
>PRK08181 transposase; Validated
Probab=97.52 E-value=0.00025 Score=63.44 Aligned_cols=101 Identities=21% Similarity=0.171 Sum_probs=54.9
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
..+.++|+.|+|||.||..+.+.. ......+++++ ..+++..+.... ...........+. +
T Consensus 107 ~nlll~Gp~GtGKTHLa~Aia~~a--~~~g~~v~f~~------~~~L~~~l~~a~------~~~~~~~~l~~l~-----~ 167 (269)
T PRK08181 107 ANLLLFGPPGGGKSHLAAAIGLAL--IENGWRVLFTR------TTDLVQKLQVAR------RELQLESAIAKLD-----K 167 (269)
T ss_pred ceEEEEecCCCcHHHHHHHHHHHH--HHcCCceeeee------HHHHHHHHHHHH------hCCcHHHHHHHHh-----c
Confidence 458999999999999999998752 22233345543 345555554331 1122222222221 2
Q ss_pred eEEEEEeCCCCCCcccHh--hhcCccCCCCCCceEEEecCCh
Q 048163 296 IFLLVLDDVWNENYNDWD--RLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 296 r~LlVlDdv~~~~~~~~~--~l~~~l~~~~~gs~iivTtr~~ 335 (350)
-=||||||+.......|. .+...+-....+..+|+||...
T Consensus 168 ~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~ 209 (269)
T PRK08181 168 FDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP 209 (269)
T ss_pred CCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence 349999999654333332 2333332111123677777653
No 105
>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=97.52 E-value=0.00056 Score=71.28 Aligned_cols=137 Identities=17% Similarity=0.230 Sum_probs=78.8
Q ss_pred cccccchhhHHHHHHHHhcCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
..++|.+..++.+...+..... .......++.++|+.|+|||++|+.+.... ...-...+-++++.......
T Consensus 565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l--~~~~~~~i~~d~s~~~~~~~--- 639 (852)
T TIGR03346 565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL--FDDEDAMVRIDMSEYMEKHS--- 639 (852)
T ss_pred cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh--cCCCCcEEEEechhhcccch---
Confidence 4578999999999888875321 012234677899999999999999998752 11122334455554322111
Q ss_pred HHHHHhCCCCCC--CCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCC-----------CCCceEEEe
Q 048163 265 TILISIVPDQNV--DNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAG-----------APGSKIIVT 331 (350)
Q Consensus 265 ~il~~l~~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivT 331 (350)
...+.+..+. .......+...++. ....+|+||++....+..++.|...|..+ ...+-||+|
T Consensus 640 --~~~l~g~~~g~~g~~~~g~l~~~v~~---~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~T 714 (852)
T TIGR03346 640 --VARLIGAPPGYVGYEEGGQLTEAVRR---KPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMT 714 (852)
T ss_pred --HHHhcCCCCCccCcccccHHHHHHHc---CCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEe
Confidence 1122121110 11111223333322 33459999999877777888777766433 123447777
Q ss_pred cCC
Q 048163 332 ARN 334 (350)
Q Consensus 332 tr~ 334 (350)
|.-
T Consensus 715 Sn~ 717 (852)
T TIGR03346 715 SNL 717 (852)
T ss_pred CCc
Confidence 765
No 106
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.51 E-value=0.00033 Score=71.86 Aligned_cols=45 Identities=27% Similarity=0.379 Sum_probs=38.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++||+++++++++.|.... ..-+.++|++|+|||++|+.+...
T Consensus 182 ~~~igr~~ei~~~~~~L~~~~------~~n~lL~G~pG~GKT~l~~~la~~ 226 (731)
T TIGR02639 182 DPLIGREDELERTIQVLCRRK------KNNPLLVGEPGVGKTAIAEGLALR 226 (731)
T ss_pred CcccCcHHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999886553 345679999999999999999875
No 107
>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=97.50 E-value=0.00036 Score=61.25 Aligned_cols=92 Identities=26% Similarity=0.194 Sum_probs=57.1
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhcccccc----ccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--------CCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD----HFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--------DNHN 280 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--------~~~~ 280 (350)
+.-.++.|+|++|+|||+|+.+++-...... ....++|++....++...+ .++++........ ...+
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~~~ 95 (235)
T cd01123 17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL-VQIAERFGLDPEEVLDNIYVARAYN 95 (235)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH-HHHHHHhccChHhHhcCEEEEecCC
Confidence 4568999999999999999999974322222 1367899999887775444 3333333221110 1122
Q ss_pred ---HHHHHHHHHHHc-CC-ceEEEEEeCCC
Q 048163 281 ---LNKLQEELKKKL-SG-KIFLLVLDDVW 305 (350)
Q Consensus 281 ---~~~~~~~l~~~l-~~-kr~LlVlDdv~ 305 (350)
...+...+.+.+ +. +--|||+|.+.
T Consensus 96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSis 125 (235)
T cd01123 96 SDHQLQLLEELEAILIESSRIKLVIVDSVT 125 (235)
T ss_pred HHHHHHHHHHHHHHHhhcCCeeEEEEeCcH
Confidence 233344455555 34 67899999994
No 108
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=97.49 E-value=0.00032 Score=61.23 Aligned_cols=88 Identities=16% Similarity=0.132 Sum_probs=53.7
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHH----h-CCCCCCCCCCH---HHH
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILIS----I-VPDQNVDNHNL---NKL 284 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~----l-~~~~~~~~~~~---~~~ 284 (350)
+.-.++.|+|++|+|||+++.+++... ...-..++|++.. .++...+ .++... + ..-.-....+. ...
T Consensus 21 ~~g~i~~i~G~~GsGKT~l~~~la~~~--~~~~~~v~yi~~e-~~~~~r~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (225)
T PRK09361 21 ERGTITQIYGPPGSGKTNICLQLAVEA--AKNGKKVIYIDTE-GLSPERF-KQIAGEDFEELLSNIIIFEPSSFEEQSEA 96 (225)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEECC-CCCHHHH-HHHHhhChHhHhhCeEEEeCCCHHHHHHH
Confidence 456899999999999999999998752 2334678999887 5554433 233322 0 00000012222 233
Q ss_pred HHHHHHHcCCceEEEEEeCC
Q 048163 285 QEELKKKLSGKIFLLVLDDV 304 (350)
Q Consensus 285 ~~~l~~~l~~kr~LlVlDdv 304 (350)
.+.+...+..+--++|+|.+
T Consensus 97 i~~~~~~~~~~~~lvVIDsi 116 (225)
T PRK09361 97 IRKAEKLAKENVGLIVLDSA 116 (225)
T ss_pred HHHHHHHHHhcccEEEEeCc
Confidence 34444444466779999998
No 109
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.49 E-value=0.00066 Score=69.66 Aligned_cols=121 Identities=17% Similarity=0.173 Sum_probs=69.8
Q ss_pred ccccchhhHHHHHHHHhcCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHH
Q 048163 189 KVYGRETEKKDVVELLLRDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKT 265 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 265 (350)
.++|.+..++.+.+.+..... .......++.++||.|+|||+||+.+.... +...+.+++++......
T Consensus 455 ~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~---- 525 (731)
T TIGR02639 455 KIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHT---- 525 (731)
T ss_pred ceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhccc----
Confidence 467888888888887764211 012234568899999999999999998752 23345566655322111
Q ss_pred HHHHhCCCCCC-CCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCC
Q 048163 266 ILISIVPDQNV-DNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEA 321 (350)
Q Consensus 266 il~~l~~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~ 321 (350)
+...++..... .......+...++. ...-+|+||++.....+.++.+...|..
T Consensus 526 ~~~lig~~~gyvg~~~~~~l~~~~~~---~p~~VvllDEieka~~~~~~~Ll~~ld~ 579 (731)
T TIGR02639 526 VSRLIGAPPGYVGFEQGGLLTEAVRK---HPHCVLLLDEIEKAHPDIYNILLQVMDY 579 (731)
T ss_pred HHHHhcCCCCCcccchhhHHHHHHHh---CCCeEEEEechhhcCHHHHHHHHHhhcc
Confidence 11111211110 11122223333322 3456999999987777777777776643
No 110
>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=97.46 E-value=0.00014 Score=67.08 Aligned_cols=53 Identities=15% Similarity=0.253 Sum_probs=43.2
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
..+++|.++.++++++++...........+++.++||+|+||||||+.+.+..
T Consensus 50 ~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l 102 (361)
T smart00763 50 DHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL 102 (361)
T ss_pred chhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 34799999999999999976542123456889999999999999999998763
No 111
>PRK05642 DNA replication initiation factor; Validated
Probab=97.45 E-value=0.00032 Score=61.68 Aligned_cols=93 Identities=23% Similarity=0.305 Sum_probs=51.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.|+|+.|+|||.|++.+++... ..-..++|++... +... .. .+.+.+.+
T Consensus 45 ~~~l~l~G~~G~GKTHLl~a~~~~~~--~~~~~v~y~~~~~------~~~~---------------~~----~~~~~~~~ 97 (234)
T PRK05642 45 ESLIYLWGKDGVGRSHLLQAACLRFE--QRGEPAVYLPLAE------LLDR---------------GP----ELLDNLEQ 97 (234)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH--hCCCcEEEeeHHH------HHhh---------------hH----HHHHhhhh
Confidence 46789999999999999999987522 2223456655432 2111 01 12222322
Q ss_pred ceEEEEEeCCCCC-CcccHhh-hcCccCC-CCCCceEEEecCCh
Q 048163 295 KIFLLVLDDVWNE-NYNDWDR-LRPPFEA-GAPGSKIIVTARNQ 335 (350)
Q Consensus 295 kr~LlVlDdv~~~-~~~~~~~-l~~~l~~-~~~gs~iivTtr~~ 335 (350)
-. +||+||+... ....|.. +...+-. ...|..||+|+...
T Consensus 98 ~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~ 140 (234)
T PRK05642 98 YE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKS 140 (234)
T ss_pred CC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCC
Confidence 22 6788999532 1234543 3332311 23466788888753
No 112
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=97.45 E-value=0.0031 Score=54.42 Aligned_cols=121 Identities=22% Similarity=0.280 Sum_probs=72.4
Q ss_pred cccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHH
Q 048163 186 KEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKT 265 (350)
Q Consensus 186 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 265 (350)
.-..++|.+...+.|++--..-- ......-|.+||..|.|||.|++.+.+. +...+-. -|.+..
T Consensus 58 ~L~~l~Gvd~qk~~L~~NT~~F~--~G~pANnVLLwGaRGtGKSSLVKA~~~e--~~~~glr--LVEV~k---------- 121 (287)
T COG2607 58 DLADLVGVDRQKEALVRNTEQFA--EGLPANNVLLWGARGTGKSSLVKALLNE--YADEGLR--LVEVDK---------- 121 (287)
T ss_pred CHHHHhCchHHHHHHHHHHHHHH--cCCcccceEEecCCCCChHHHHHHHHHH--HHhcCCe--EEEEcH----------
Confidence 34567999988888877433211 1123567889999999999999999886 2222221 222222
Q ss_pred HHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCCC---CCCceEEEecCC
Q 048163 266 ILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEAG---APGSKIIVTARN 334 (350)
Q Consensus 266 il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~---~~gs~iivTtr~ 334 (350)
.+-.++..+.+.|+. ...||+|.+||+.-+ ....+..+.+.|..+ .+...++..|.+
T Consensus 122 ----------~dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSN 182 (287)
T COG2607 122 ----------EDLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSN 182 (287)
T ss_pred ----------HHHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecC
Confidence 022333444444443 468999999999543 335677777777533 233345554444
No 113
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.45 E-value=0.00079 Score=59.34 Aligned_cols=103 Identities=15% Similarity=0.185 Sum_probs=56.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.++|.+|+|||+|+..+.+.... .-..+++++ +.+++..+-..... ....... +.+.+.
T Consensus 99 ~~~~~l~G~~GtGKThLa~aia~~l~~--~g~~v~~it------~~~l~~~l~~~~~~----~~~~~~~----~l~~l~- 161 (244)
T PRK07952 99 IASFIFSGKPGTGKNHLAAAICNELLL--RGKSVLIIT------VADIMSAMKDTFSN----SETSEEQ----LLNDLS- 161 (244)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEE------HHHHHHHHHHHHhh----ccccHHH----HHHHhc-
Confidence 357899999999999999999986322 223344443 44555444433311 1122222 223344
Q ss_pred ceEEEEEeCCCCCCcccHhh--hcCccCC-CCCCceEEEecCC
Q 048163 295 KIFLLVLDDVWNENYNDWDR--LRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~iivTtr~ 334 (350)
+.=||||||+......+|.. +...+.. ......+|+||.-
T Consensus 162 ~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl 204 (244)
T PRK07952 162 NVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS 204 (244)
T ss_pred cCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence 34488889997665556663 2222221 1223456666654
No 114
>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]
Probab=97.44 E-value=0.0012 Score=64.81 Aligned_cols=139 Identities=19% Similarity=0.146 Sum_probs=88.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccc------cccccCceeEEEeCCCCCHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQ------VQDHFDLKAWTCVSDDFDVFR 261 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~------~~~~F~~~~wv~~~~~~~~~~ 261 (350)
..+-+|+.+..+|...+...-.. ......+-|.|.+|+|||..+..|.+... ....|.+ +.|+.-.-....+
T Consensus 396 ~sLpcRe~E~~~I~~f~~~~i~~-~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~y-veINgm~l~~~~~ 473 (767)
T KOG1514|consen 396 ESLPCRENEFSEIEDFLRSFISD-QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDY-VEINGLRLASPRE 473 (767)
T ss_pred ccccchhHHHHHHHHHHHhhcCC-CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccE-EEEcceeecCHHH
Confidence 34568999999998887653221 12345889999999999999999987422 2234443 4555555567889
Q ss_pred HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC-----CceEEEEEeCCCCCCcccHhhhcCccC-CCCCCceEEEec
Q 048163 262 LTKTILISIVPDQNVDNHNLNKLQEELKKKLS-----GKIFLLVLDDVWNENYNDWDRLRPPFE-AGAPGSKIIVTA 332 (350)
Q Consensus 262 ~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~-----~kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~gs~iivTt 332 (350)
++..|...+....- ........|..++. .+.++|++|++...-....+-+...|. +..++|+++|.+
T Consensus 474 ~Y~~I~~~lsg~~~----~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~ 546 (767)
T KOG1514|consen 474 IYEKIWEALSGERV----TWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIA 546 (767)
T ss_pred HHHHHHHhcccCcc----cHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEE
Confidence 99999999887543 33333444444443 356889999883221112333444443 346788877654
No 115
>PRK09087 hypothetical protein; Validated
Probab=97.44 E-value=0.00032 Score=61.23 Aligned_cols=24 Identities=33% Similarity=0.391 Sum_probs=21.2
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-+.+.|||+.|+|||+|++.++..
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~~~ 67 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWREK 67 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHh
Confidence 366899999999999999988865
No 116
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=97.44 E-value=0.0011 Score=61.42 Aligned_cols=134 Identities=11% Similarity=0.074 Sum_probs=71.4
Q ss_pred ccc-chhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHH
Q 048163 190 VYG-RETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILI 268 (350)
Q Consensus 190 ~vG-r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~ 268 (350)
++| -+.-++.|...+.... -.+...++|+.|+|||++|+.+....--....... +++.-...+.+..
T Consensus 7 i~~~q~~~~~~L~~~~~~~~-----l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~-------~cg~C~~c~~~~~ 74 (329)
T PRK08058 7 LTALQPVVVKMLQNSIAKNR-----LSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE-------PCGTCTNCKRIDS 74 (329)
T ss_pred HHhhHHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC-------CCCcCHHHHHHhc
Confidence 455 5556677777775443 35777999999999999999986542111100000 0000001111100
Q ss_pred HhCCC----C-CCCCCCHHHHHHHHHHH----cCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 269 SIVPD----Q-NVDNHNLNKLQEELKKK----LSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 269 ~l~~~----~-~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
.-... . .......+++.+.+... ..+.+-++|+|++...+....+.+...+...+.++.+|++|.+.
T Consensus 75 ~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~ 150 (329)
T PRK08058 75 GNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENK 150 (329)
T ss_pred CCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCCh
Confidence 00000 0 00112223322222111 23456679999997777677888888887656677777777653
No 117
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.42 E-value=0.00046 Score=61.41 Aligned_cols=128 Identities=20% Similarity=0.208 Sum_probs=78.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeE-EEeCCCCCHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAW-TCVSDDFDVFRLTKTI 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~w-v~~~~~~~~~~~~~~i 266 (350)
.+++|.+..+.-|...+... ..+....+||+|.|||+-|..+.....-.+.|.+++- .++|...... +.+.
T Consensus 36 de~~gQe~vV~~L~~a~~~~------~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr~- 107 (346)
T KOG0989|consen 36 DELAGQEHVVQVLKNALLRR------ILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVRE- 107 (346)
T ss_pred HhhcchHHHHHHHHHHHhhc------CCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chhh-
Confidence 56788888888888888653 4688899999999999999988876444566766553 2333322111 1000
Q ss_pred HHHhCCCCCCCCCCHHHHHHHHHHHc--CCce-EEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecC
Q 048163 267 LISIVPDQNVDNHNLNKLQEELKKKL--SGKI-FLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTAR 333 (350)
Q Consensus 267 l~~l~~~~~~~~~~~~~~~~~l~~~l--~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr 333 (350)
...+...+........ .-+. -.+|||++...+.+.|..++..+.+....++.|+.+-
T Consensus 108 ----------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcn 167 (346)
T KOG0989|consen 108 ----------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICN 167 (346)
T ss_pred ----------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcC
Confidence 1111221111111111 1123 4788999988888899999988876555666554443
No 118
>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=97.42 E-value=0.0031 Score=65.13 Aligned_cols=51 Identities=24% Similarity=0.402 Sum_probs=38.1
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++|.++-++++.+++............++.++|++|+|||++|+.+.+.
T Consensus 320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~ 370 (775)
T TIGR00763 320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA 370 (775)
T ss_pred hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 457899988888888764321111223458999999999999999999886
No 119
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.39 E-value=0.0008 Score=70.02 Aligned_cols=137 Identities=19% Similarity=0.203 Sum_probs=75.6
Q ss_pred cccccchhhHHHHHHHHhcCC--CC-CCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDD--LS-NDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~--~~-~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
..++|.+..++.+...+.... .. .+....++.++|+.|+|||+||+.+.+... ..-...+.++++.... .
T Consensus 568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~--~~~~~~i~id~se~~~-~---- 640 (857)
T PRK10865 568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMF--DSDDAMVRIDMSEFME-K---- 640 (857)
T ss_pred CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhh--cCCCcEEEEEhHHhhh-h----
Confidence 457899988888888776431 00 122335788999999999999999986421 1112334455544211 1
Q ss_pred HHHHHhCCCCCC-CCCC-HHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCC-----------CCCceEEEe
Q 048163 265 TILISIVPDQNV-DNHN-LNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAG-----------APGSKIIVT 331 (350)
Q Consensus 265 ~il~~l~~~~~~-~~~~-~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivT 331 (350)
.....+.+..+. ...+ ...+...++ ....-+|+||++.......++.+...|..+ ...+.||+|
T Consensus 641 ~~~~~LiG~~pgy~g~~~~g~l~~~v~---~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~T 717 (857)
T PRK10865 641 HSVSRLVGAPPGYVGYEEGGYLTEAVR---RRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMT 717 (857)
T ss_pred hhHHHHhCCCCcccccchhHHHHHHHH---hCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEe
Confidence 112222222211 0111 112222222 123369999999776767777777665432 122337778
Q ss_pred cCC
Q 048163 332 ARN 334 (350)
Q Consensus 332 tr~ 334 (350)
|..
T Consensus 718 SN~ 720 (857)
T PRK10865 718 SNL 720 (857)
T ss_pred CCc
Confidence 775
No 120
>PRK06526 transposase; Provisional
Probab=97.38 E-value=0.0004 Score=61.71 Aligned_cols=100 Identities=22% Similarity=0.169 Sum_probs=52.4
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
..+.++|++|+|||+||..+..... ...+. +.| .+..+++..+..... .... ...+... .+
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~a~-~~g~~-v~f------~t~~~l~~~l~~~~~------~~~~---~~~l~~l--~~ 159 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIRAC-QAGHR-VLF------ATAAQWVARLAAAHH------AGRL---QAELVKL--GR 159 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHHHH-HCCCc-hhh------hhHHHHHHHHHHHHh------cCcH---HHHHHHh--cc
Confidence 5689999999999999999976532 11222 233 234455555443211 1112 2223332 23
Q ss_pred eEEEEEeCCCCCCcccHh--hhcCccCC-CCCCceEEEecCCh
Q 048163 296 IFLLVLDDVWNENYNDWD--RLRPPFEA-GAPGSKIIVTARNQ 335 (350)
Q Consensus 296 r~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~iivTtr~~ 335 (350)
.-||||||+.......+. .+...+.. ...++ +|+||...
T Consensus 160 ~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~s-~IitSn~~ 201 (254)
T PRK06526 160 YPLLIVDEVGYIPFEPEAANLFFQLVSSRYERAS-LIVTSNKP 201 (254)
T ss_pred CCEEEEcccccCCCCHHHHHHHHHHHHHHHhcCC-EEEEcCCC
Confidence 458999999654322222 23332221 12344 77777663
No 121
>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=97.37 E-value=0.00053 Score=59.09 Aligned_cols=90 Identities=13% Similarity=0.096 Sum_probs=55.1
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHh-C---CCC-CCCCCC---HHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISI-V---PDQ-NVDNHN---LNK 283 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l-~---~~~-~~~~~~---~~~ 283 (350)
-+.-.++.|+|++|+|||+++.++... .......++|++... ++...+.+ +.... . ..- -....+ ...
T Consensus 9 i~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~-~~~~~~~~~~~~i~~~~~~~~~~~~~ 84 (209)
T TIGR02237 9 VERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQ-IAEDRPERALSNFIVFEVFDFDEQGV 84 (209)
T ss_pred CCCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHH-HHHhChHHHhcCEEEEECCCHHHHHH
Confidence 345689999999999999999998765 223456789999976 66554443 32221 0 000 001122 223
Q ss_pred HHHHHHHHcCC-ceEEEEEeCCC
Q 048163 284 LQEELKKKLSG-KIFLLVLDDVW 305 (350)
Q Consensus 284 ~~~~l~~~l~~-kr~LlVlDdv~ 305 (350)
....+.+.+.. +.-+||+|.+.
T Consensus 85 ~~~~l~~~~~~~~~~lvVIDSis 107 (209)
T TIGR02237 85 AIQKTSKFIDRDSASLVVVDSFT 107 (209)
T ss_pred HHHHHHHHHhhcCccEEEEeCcH
Confidence 34555555543 56699999993
No 122
>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=97.37 E-value=0.0018 Score=58.63 Aligned_cols=23 Identities=30% Similarity=0.274 Sum_probs=19.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.-+.++|++|+|||++|+.+...
T Consensus 59 ~~vll~G~pGTGKT~lA~~ia~~ 81 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVALRMAQI 81 (284)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHH
Confidence 35889999999999999877654
No 123
>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=97.37 E-value=0.00014 Score=61.04 Aligned_cols=101 Identities=22% Similarity=0.280 Sum_probs=50.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.++|+.|+|||.||..+.+..- ... ..+.|++. .+++..+- ... ...........+.
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~~~-~~g-~~v~f~~~------~~L~~~l~----~~~--~~~~~~~~~~~l~----- 107 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANEAI-RKG-YSVLFITA------SDLLDELK----QSR--SDGSYEELLKRLK----- 107 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHHHH-HTT---EEEEEH------HHHHHHHH----CCH--CCTTHCHHHHHHH-----
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHHhc-cCC-cceeEeec------Cceecccc----ccc--cccchhhhcCccc-----
Confidence 45799999999999999999987532 222 23455443 34444442 211 1222223222222
Q ss_pred ceEEEEEeCCCCCCcccHhh--hcCccCC-CCCCceEEEecCCh
Q 048163 295 KIFLLVLDDVWNENYNDWDR--LRPPFEA-GAPGSKIIVTARNQ 335 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~iivTtr~~ 335 (350)
+-=||||||+.......|.. +...+.. ...+ .+|+||.-.
T Consensus 108 ~~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~-~tIiTSN~~ 150 (178)
T PF01695_consen 108 RVDLLILDDLGYEPLSEWEAELLFEIIDERYERK-PTIITSNLS 150 (178)
T ss_dssp TSSCEEEETCTSS---HHHHHCTHHHHHHHHHT--EEEEEESS-
T ss_pred cccEecccccceeeecccccccchhhhhHhhccc-CeEeeCCCc
Confidence 23578899997665445543 2221211 1234 567777653
No 124
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=97.36 E-value=0.0017 Score=64.09 Aligned_cols=106 Identities=20% Similarity=0.263 Sum_probs=64.1
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHH
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
+.+-+|.++-.++|++.|--..-...-.-+++++|||+|+|||.|++.++.- ....|-. ++++.-.+..++
T Consensus 322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~a--l~RkfvR---~sLGGvrDEAEI---- 392 (782)
T COG0466 322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKA--LGRKFVR---ISLGGVRDEAEI---- 392 (782)
T ss_pred cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHH--hCCCEEE---EecCccccHHHh----
Confidence 4456899999999999886433223345589999999999999999999985 4444422 233333332221
Q ss_pred HHHhCCCCCC-CCCCHHHHHHHHHHHcCCceEEEEEeCCCC
Q 048163 267 LISIVPDQNV-DNHNLNKLQEELKKKLSGKIFLLVLDDVWN 306 (350)
Q Consensus 267 l~~l~~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~ 306 (350)
.+.... -..-...+.+.+++. +.++=|++||.+..
T Consensus 393 ----RGHRRTYIGamPGrIiQ~mkka-~~~NPv~LLDEIDK 428 (782)
T COG0466 393 ----RGHRRTYIGAMPGKIIQGMKKA-GVKNPVFLLDEIDK 428 (782)
T ss_pred ----ccccccccccCChHHHHHHHHh-CCcCCeEEeechhh
Confidence 111110 011123334444442 45788999999943
No 125
>PRK12377 putative replication protein; Provisional
Probab=97.36 E-value=0.00064 Score=60.05 Aligned_cols=102 Identities=19% Similarity=0.118 Sum_probs=56.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.++|+.|+|||+||..+.+... .....++++++. +++..+-..... ...... +.+.+ .
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~l~--~~g~~v~~i~~~------~l~~~l~~~~~~-----~~~~~~----~l~~l-~ 162 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNRLL--AKGRSVIVVTVP------DVMSRLHESYDN-----GQSGEK----FLQEL-C 162 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH--HcCCCeEEEEHH------HHHHHHHHHHhc-----cchHHH----HHHHh-c
Confidence 36789999999999999999998632 333344555443 444444433211 111112 22222 3
Q ss_pred ceEEEEEeCCCCCCcccHhh--hcCccCC-CCCCceEEEecCC
Q 048163 295 KIFLLVLDDVWNENYNDWDR--LRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~iivTtr~ 334 (350)
+-=||||||+.......|.. +...+.. ..+...+|+||-.
T Consensus 163 ~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl 205 (248)
T PRK12377 163 KVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL 205 (248)
T ss_pred CCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 46699999996554344542 3333321 1223356666653
No 126
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=97.32 E-value=0.00016 Score=73.64 Aligned_cols=45 Identities=27% Similarity=0.385 Sum_probs=37.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++||+++++++++.|.... ...+.++|++|+|||++|+.++..
T Consensus 186 ~~liGR~~ei~~~i~iL~r~~------~~n~LLvGppGvGKT~lae~la~~ 230 (758)
T PRK11034 186 DPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWR 230 (758)
T ss_pred CcCcCCCHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHH
Confidence 358999999999999997643 234468999999999999999864
No 127
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.32 E-value=0.0012 Score=68.69 Aligned_cols=137 Identities=15% Similarity=0.180 Sum_probs=76.3
Q ss_pred cccccchhhHHHHHHHHhcCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
..++|.+..++.+...+..... ........+.++||.|+|||+||+.+..... +.-...+-+++++......+
T Consensus 509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~--~~~~~~~~~d~s~~~~~~~~-- 584 (821)
T CHL00095 509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFF--GSEDAMIRLDMSEYMEKHTV-- 584 (821)
T ss_pred CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhc--CCccceEEEEchhccccccH--
Confidence 4578998888888887763211 0122345677899999999999999876421 11123344455442221111
Q ss_pred HHHHHhCCCCC-CCCCCHHHHHHHHHHHcCCc-eEEEEEeCCCCCCcccHhhhcCccCCC-----------CCCceEEEe
Q 048163 265 TILISIVPDQN-VDNHNLNKLQEELKKKLSGK-IFLLVLDDVWNENYNDWDRLRPPFEAG-----------APGSKIIVT 331 (350)
Q Consensus 265 ~il~~l~~~~~-~~~~~~~~~~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivT 331 (350)
..-++.+.. ........+ .+.++.+ ..+++||++....+..++.+...|..+ ...+-||+|
T Consensus 585 --~~l~g~~~gyvg~~~~~~l----~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~T 658 (821)
T CHL00095 585 --SKLIGSPPGYVGYNEGGQL----TEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMT 658 (821)
T ss_pred --HHhcCCCCcccCcCccchH----HHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEe
Confidence 111111110 011112223 3333333 468999999877777788777766543 234567777
Q ss_pred cCC
Q 048163 332 ARN 334 (350)
Q Consensus 332 tr~ 334 (350)
|..
T Consensus 659 sn~ 661 (821)
T CHL00095 659 SNL 661 (821)
T ss_pred CCc
Confidence 765
No 128
>PRK09183 transposase/IS protein; Provisional
Probab=97.30 E-value=0.00068 Score=60.49 Aligned_cols=100 Identities=18% Similarity=0.181 Sum_probs=51.4
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
..+.|+|+.|+|||+||..+...... ..+ .+.+++ ..+++..+...... .. +...+++.+ .+
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~a~~-~G~-~v~~~~------~~~l~~~l~~a~~~------~~---~~~~~~~~~-~~ 164 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYEAVR-AGI-KVRFTT------AADLLLQLSTAQRQ------GR---YKTTLQRGV-MA 164 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHH-cCC-eEEEEe------HHHHHHHHHHHHHC------Cc---HHHHHHHHh-cC
Confidence 46779999999999999999764221 112 223332 33444443322111 11 112232322 34
Q ss_pred eEEEEEeCCCCCCcccHh--hhcCccCC-CCCCceEEEecCC
Q 048163 296 IFLLVLDDVWNENYNDWD--RLRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 296 r~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~iivTtr~ 334 (350)
.-++|+||+.......+. .+...+.. ...++ +|+||..
T Consensus 165 ~dlLiiDdlg~~~~~~~~~~~lf~li~~r~~~~s-~iiTsn~ 205 (259)
T PRK09183 165 PRLLIIDEIGYLPFSQEEANLFFQVIAKRYEKGS-MILTSNL 205 (259)
T ss_pred CCEEEEcccccCCCChHHHHHHHHHHHHHHhcCc-EEEecCC
Confidence 459999999754333332 23332321 12354 7777765
No 129
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=97.30 E-value=0.00083 Score=58.39 Aligned_cols=104 Identities=22% Similarity=0.279 Sum_probs=58.9
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLS 293 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~ 293 (350)
....+.|+|+.|+|||.|.+.+++.......-..++++ +..++...+...+.. .... .++..++
T Consensus 33 ~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~------~~~~f~~~~~~~~~~------~~~~----~~~~~~~ 96 (219)
T PF00308_consen 33 RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYL------SAEEFIREFADALRD------GEIE----EFKDRLR 96 (219)
T ss_dssp SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEE------EHHHHHHHHHHHHHT------TSHH----HHHHHHC
T ss_pred CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceee------cHHHHHHHHHHHHHc------ccch----hhhhhhh
Confidence 44568999999999999999999863221111124443 445666666666543 1122 2344444
Q ss_pred CceEEEEEeCCCCCCc-ccHhh-hcCccCC-CCCCceEEEecCC
Q 048163 294 GKIFLLVLDDVWNENY-NDWDR-LRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~-~~~~~-l~~~l~~-~~~gs~iivTtr~ 334 (350)
+ -=+|++||+..-.. ..|.. +...+-. ...|.+||+|+..
T Consensus 97 ~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~ 139 (219)
T PF00308_consen 97 S-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDR 139 (219)
T ss_dssp T-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS
T ss_pred c-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCC
Confidence 3 44788999954321 22332 2222211 1346689998854
No 130
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=97.29 E-value=0.0016 Score=61.82 Aligned_cols=96 Identities=20% Similarity=0.224 Sum_probs=59.2
Q ss_pred EEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCce
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKI 296 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr 296 (350)
++.|.|+.++||||+.+.+.... .+. .++++.-+...-..- ..+....+...-..++
T Consensus 39 i~~i~GpR~~GKTtll~~l~~~~--~~~---~iy~~~~d~~~~~~~------------------l~d~~~~~~~~~~~~~ 95 (398)
T COG1373 39 IILILGPRQVGKTTLLKLLIKGL--LEE---IIYINFDDLRLDRIE------------------LLDLLRAYIELKEREK 95 (398)
T ss_pred EEEEECCccccHHHHHHHHHhhC--Ccc---eEEEEecchhcchhh------------------HHHHHHHHHHhhccCC
Confidence 99999999999999997665541 111 455444332111111 1111111222112278
Q ss_pred EEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChhHH
Q 048163 297 FLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQEVA 338 (350)
Q Consensus 297 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va 338 (350)
.+|+||.| +...+|......|.+..+. +|++|+-+..+-
T Consensus 96 ~yifLDEI--q~v~~W~~~lk~l~d~~~~-~v~itgsss~ll 134 (398)
T COG1373 96 SYIFLDEI--QNVPDWERALKYLYDRGNL-DVLITGSSSSLL 134 (398)
T ss_pred ceEEEecc--cCchhHHHHHHHHHccccc-eEEEECCchhhh
Confidence 99999999 4447899988888776555 888888776543
No 131
>PRK07261 topology modulation protein; Provisional
Probab=97.28 E-value=0.00058 Score=56.96 Aligned_cols=53 Identities=26% Similarity=0.219 Sum_probs=32.8
Q ss_pred EEEEeecCCCchHHHHHHHHhcccc-ccccCceeEEEeCCCCCHHHHHHHHHHH
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQV-QDHFDLKAWTCVSDDFDVFRLTKTILIS 269 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~~-~~~F~~~~wv~~~~~~~~~~~~~~il~~ 269 (350)
.|.|+|++|+||||||+.+...... .-+.+...|-......+..++...+...
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~ 55 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNF 55 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHH
Confidence 4899999999999999998765322 1245556664333333444444444333
No 132
>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=97.28 E-value=0.0013 Score=56.19 Aligned_cols=126 Identities=21% Similarity=0.237 Sum_probs=63.2
Q ss_pred chhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC---------CHH---
Q 048163 193 RETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF---------DVF--- 260 (350)
Q Consensus 193 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~---------~~~--- 260 (350)
+..+-...++.|.. ..++.+.|++|.|||.||....-+.-..+.|+.++++...-+. +..
T Consensus 5 ~~~~Q~~~~~al~~--------~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~ 76 (205)
T PF02562_consen 5 KNEEQKFALDALLN--------NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKM 76 (205)
T ss_dssp -SHHHHHHHHHHHH---------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS--------
T ss_pred CCHHHHHHHHHHHh--------CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHH
Confidence 44555666777762 3699999999999999999887665455788888777532211 100
Q ss_pred ----HHHHHHHHHhCCCCCCCCCCHHHHHHH------HHHHcCCc---eEEEEEeCCCCCCcccHhhhcCccCCCCCCce
Q 048163 261 ----RLTKTILISIVPDQNVDNHNLNKLQEE------LKKKLSGK---IFLLVLDDVWNENYNDWDRLRPPFEAGAPGSK 327 (350)
Q Consensus 261 ----~~~~~il~~l~~~~~~~~~~~~~~~~~------l~~~l~~k---r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ 327 (350)
.-+.+.+..+. .....+.+... -..+++|+ +.+||+|++-+.+..++..+... .+.||+
T Consensus 77 ~p~~~p~~d~l~~~~-----~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~sk 148 (205)
T PF02562_consen 77 EPYLRPIYDALEELF-----GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSK 148 (205)
T ss_dssp -TTTHHHHHHHTTTS------TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-E
T ss_pred HHHHHHHHHHHHHHh-----ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcE
Confidence 11122222221 11122222210 01233443 57999999965555566665443 456999
Q ss_pred EEEecCC
Q 048163 328 IIVTARN 334 (350)
Q Consensus 328 iivTtr~ 334 (350)
||++=-.
T Consensus 149 ii~~GD~ 155 (205)
T PF02562_consen 149 IIITGDP 155 (205)
T ss_dssp EEEEE--
T ss_pred EEEecCc
Confidence 9997543
No 133
>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=97.27 E-value=0.0024 Score=57.10 Aligned_cols=56 Identities=20% Similarity=0.146 Sum_probs=35.5
Q ss_pred hhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHH
Q 048163 195 TEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLT 263 (350)
Q Consensus 195 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~ 263 (350)
+-++++..++... .-+.+.|++|+|||+||+.+... .. ...+.+++....+..+++
T Consensus 9 ~l~~~~l~~l~~g--------~~vLL~G~~GtGKT~lA~~la~~--lg---~~~~~i~~~~~~~~~dll 64 (262)
T TIGR02640 9 RVTSRALRYLKSG--------YPVHLRGPAGTGKTTLAMHVARK--RD---RPVMLINGDAELTTSDLV 64 (262)
T ss_pred HHHHHHHHHHhcC--------CeEEEEcCCCCCHHHHHHHHHHH--hC---CCEEEEeCCccCCHHHHh
Confidence 3445555555432 34568999999999999999863 21 123556666655555544
No 134
>PRK06921 hypothetical protein; Provisional
Probab=97.24 E-value=0.0014 Score=58.78 Aligned_cols=100 Identities=16% Similarity=0.232 Sum_probs=54.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.++|+.|+|||+|+..+.+... ..+...+++++. .+++..+...+ ......+.. +.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~-~~~g~~v~y~~~------~~l~~~l~~~~-----------~~~~~~~~~-~~- 176 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELM-RKKGVPVLYFPF------VEGFGDLKDDF-----------DLLEAKLNR-MK- 176 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHh-hhcCceEEEEEH------HHHHHHHHHHH-----------HHHHHHHHH-hc-
Confidence 46789999999999999999998632 121334566554 23333332221 111122222 22
Q ss_pred ceEEEEEeCCC-----CCCcccHhh--hcCccCC-CCCCceEEEecCC
Q 048163 295 KIFLLVLDDVW-----NENYNDWDR--LRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 295 kr~LlVlDdv~-----~~~~~~~~~--l~~~l~~-~~~gs~iivTtr~ 334 (350)
+-=||||||+. .....+|.. +...+-. ...+..+|+||..
T Consensus 177 ~~dlLiIDDl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~ 224 (266)
T PRK06921 177 KVEVLFIDDLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSEL 224 (266)
T ss_pred CCCEEEEeccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 34599999992 222234542 3332221 1234567777764
No 135
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=97.24 E-value=0.00064 Score=59.42 Aligned_cols=24 Identities=25% Similarity=0.332 Sum_probs=21.7
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+.|+|+.|+|||+||+.+++.
T Consensus 42 ~~~~~l~G~~G~GKT~La~ai~~~ 65 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHLLQALVAD 65 (227)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 467889999999999999999886
No 136
>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=97.23 E-value=0.00017 Score=57.89 Aligned_cols=84 Identities=23% Similarity=0.101 Sum_probs=45.4
Q ss_pred EEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceE
Q 048163 218 IPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIF 297 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~ 297 (350)
|.|+|+.|+|||+||+.++... . ....-+.++...+..+++...--. ... .......+...+ .+..
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~--~---~~~~~i~~~~~~~~~dl~g~~~~~-~~~---~~~~~~~l~~a~-----~~~~ 67 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL--G---RPVIRINCSSDTTEEDLIGSYDPS-NGQ---FEFKDGPLVRAM-----RKGG 67 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH--T---CEEEEEE-TTTSTHHHHHCEEET--TTT---TCEEE-CCCTTH-----HEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHh--h---cceEEEEeccccccccceeeeeec-ccc---cccccccccccc-----ccee
Confidence 6799999999999999998752 1 123345777777777665432211 000 000000000001 1789
Q ss_pred EEEEeCCCCCCcccHhhh
Q 048163 298 LLVLDDVWNENYNDWDRL 315 (350)
Q Consensus 298 LlVlDdv~~~~~~~~~~l 315 (350)
++|||++.......+..+
T Consensus 68 il~lDEin~a~~~v~~~L 85 (139)
T PF07728_consen 68 ILVLDEINRAPPEVLESL 85 (139)
T ss_dssp EEEESSCGG--HHHHHTT
T ss_pred EEEECCcccCCHHHHHHH
Confidence 999999965443333333
No 137
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=97.21 E-value=0.00089 Score=64.45 Aligned_cols=102 Identities=25% Similarity=0.293 Sum_probs=56.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccC-ceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFD-LKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLS 293 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~ 293 (350)
...+.|+|+.|+|||+|++.+.+... ..++. .++|+++ .+++.++...+... .... +.+.++
T Consensus 130 ~n~l~lyG~~G~GKTHLl~ai~~~l~-~~~~~~~v~yi~~------~~f~~~~~~~~~~~------~~~~----f~~~~~ 192 (440)
T PRK14088 130 YNPLFIYGGVGLGKTHLLQSIGNYVV-QNEPDLRVMYITS------EKFLNDLVDSMKEG------KLNE----FREKYR 192 (440)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHHHH-HhCCCCeEEEEEH------HHHHHHHHHHHhcc------cHHH----HHHHHH
Confidence 44599999999999999999998632 22222 3455543 45666666655321 2222 233333
Q ss_pred CceEEEEEeCCCCCC-cccH-hhhcCccCC-CCCCceEEEecC
Q 048163 294 GKIFLLVLDDVWNEN-YNDW-DRLRPPFEA-GAPGSKIIVTAR 333 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~-~~~~-~~l~~~l~~-~~~gs~iivTtr 333 (350)
.+.-+|+|||+.... ...+ ..+...+.. ...|..||+||.
T Consensus 193 ~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd 235 (440)
T PRK14088 193 KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSD 235 (440)
T ss_pred hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECC
Confidence 345589999995321 1111 223222211 123557888774
No 138
>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=97.21 E-value=0.0003 Score=54.86 Aligned_cols=22 Identities=45% Similarity=0.504 Sum_probs=20.3
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|.|.|++|+||||+|+.+.+.
T Consensus 1 vI~I~G~~gsGKST~a~~La~~ 22 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAER 22 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999875
No 139
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=97.21 E-value=0.0018 Score=61.72 Aligned_cols=111 Identities=18% Similarity=0.242 Sum_probs=68.1
Q ss_pred CCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH
Q 048163 211 NDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKK 290 (350)
Q Consensus 211 ~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~ 290 (350)
+...+..+.+.|++|+|||+||.++... ..|+.+--++...... . . +......+......
T Consensus 534 ~~s~lvSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKiiSpe~miG-------------~--s-EsaKc~~i~k~F~D 593 (744)
T KOG0741|consen 534 ERSPLVSVLLEGPPGSGKTALAAKIALS----SDFPFVKIISPEDMIG-------------L--S-ESAKCAHIKKIFED 593 (744)
T ss_pred ccCcceEEEEecCCCCChHHHHHHHHhh----cCCCeEEEeChHHccC-------------c--c-HHHHHHHHHHHHHH
Confidence 3567888899999999999999999764 5677644433222111 0 0 22333444455555
Q ss_pred HcCCceEEEEEeCCCCCCcccHhhhcC------------cc---CCCCCCceEEEecCChhHHHhcCC
Q 048163 291 KLSGKIFLLVLDDVWNENYNDWDRLRP------------PF---EAGAPGSKIIVTARNQEVAAIMGT 343 (350)
Q Consensus 291 ~l~~kr~LlVlDdv~~~~~~~~~~l~~------------~l---~~~~~gs~iivTtr~~~va~~~~~ 343 (350)
..+..--.||+||+.. -.+|-.+.+ .| |+....--|+-||...+|...|+-
T Consensus 594 AYkS~lsiivvDdiEr--LiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i 659 (744)
T KOG0741|consen 594 AYKSPLSIIVVDDIER--LLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGI 659 (744)
T ss_pred hhcCcceEEEEcchhh--hhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCH
Confidence 6667778999999933 234444333 22 232223345568888889888873
No 140
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=97.20 E-value=0.0039 Score=57.25 Aligned_cols=140 Identities=14% Similarity=0.109 Sum_probs=77.1
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccc-------------ccccCceeEEEeC
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQV-------------QDHFDLKAWTCVS 254 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~-------------~~~F~~~~wv~~~ 254 (350)
.+++|.+...+.|...+.... -.+...++|+.|+||+++|..+....-- ...++...|+.-.
T Consensus 4 ~~iiGq~~~~~~L~~~i~~~r-----l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~ 78 (314)
T PRK07399 4 ANLIGQPLAIELLTAAIKQNR-----IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPT 78 (314)
T ss_pred HHhCCHHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecc
Confidence 357899999999999886553 3578999999999999999887654211 1122233444321
Q ss_pred CCCCHHHHHHHHHHHhCCCCC-CCCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceE
Q 048163 255 DDFDVFRLTKTILISIVPDQN-VDNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKI 328 (350)
Q Consensus 255 ~~~~~~~~~~~il~~l~~~~~-~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i 328 (350)
.......+-.+.+...+.... ...-..++ .+.+.+.+ .+++-++|+|++...+....+.+...|-..+ .+.+
T Consensus 79 ~~~~g~~~~~~~~~~~~~~~~~~~~I~id~-ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~f 156 (314)
T PRK07399 79 YQHQGKLITASEAEEAGLKRKAPPQIRLEQ-IREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTL 156 (314)
T ss_pred ccccccccchhhhhhccccccccccCcHHH-HHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeE
Confidence 100000000001111110000 01112222 22344443 3567799999997777778888888885333 3455
Q ss_pred EEecCC
Q 048163 329 IVTARN 334 (350)
Q Consensus 329 ivTtr~ 334 (350)
|++|.+
T Consensus 157 ILi~~~ 162 (314)
T PRK07399 157 ILIAPS 162 (314)
T ss_pred EEEECC
Confidence 555544
No 141
>PRK05541 adenylylsulfate kinase; Provisional
Probab=97.19 E-value=0.0011 Score=55.51 Aligned_cols=36 Identities=31% Similarity=0.439 Sum_probs=27.6
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEE
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWT 251 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv 251 (350)
...+|.+.|+.|+||||+|+.++.. ....+...+++
T Consensus 6 ~~~~I~i~G~~GsGKst~a~~l~~~--l~~~~~~~~~~ 41 (176)
T PRK05541 6 NGYVIWITGLAGSGKTTIAKALYER--LKLKYSNVIYL 41 (176)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEE
Confidence 4569999999999999999999875 33344444554
No 142
>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=97.19 E-value=0.0031 Score=54.97 Aligned_cols=121 Identities=17% Similarity=0.083 Sum_probs=70.3
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhcccccccc------CceeEEEeCCCCCHHHHHHHHHHHhCCCCC--------CCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF------DLKAWTCVSDDFDVFRLTKTILISIVPDQN--------VDN 278 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F------~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--------~~~ 278 (350)
+.-.++.|+|++|+|||+|+.++.... .... ..++|++....++...+ ..+......... ...
T Consensus 17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~ 93 (226)
T cd01393 17 PTGRITEIFGEFGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERL-VQLAVRFGLDPEEVLDNIYVARP 93 (226)
T ss_pred cCCcEEEEeCCCCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHH-HHHHHHhccchhhhhccEEEEeC
Confidence 456899999999999999999987542 1122 55789998887775444 333333222110 022
Q ss_pred CCHHHHHHHHHHHcC----CceEEEEEeCCCCCC------c-------ccHhhhcCccC--CCCCCceEEEecCChh
Q 048163 279 HNLNKLQEELKKKLS----GKIFLLVLDDVWNEN------Y-------NDWDRLRPPFE--AGAPGSKIIVTARNQE 336 (350)
Q Consensus 279 ~~~~~~~~~l~~~l~----~kr~LlVlDdv~~~~------~-------~~~~~l~~~l~--~~~~gs~iivTtr~~~ 336 (350)
.+.+++...+.+... .+--|||+|.+...- . .....+...|. ....++.||+|++...
T Consensus 94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a~~~~~~vi~tnq~~~ 170 (226)
T cd01393 94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVAALFRKEFIGRGMLAERARLLSQALRKLLRLADKFNVAVVFTNQVRA 170 (226)
T ss_pred CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcchhhhhhhcCCchHHHHHHHHHHHHHHHHHHHHHhCcEEEEEEEEee
Confidence 445555555555442 355699999994310 0 00111212222 1256889999986543
No 143
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=0.00095 Score=67.26 Aligned_cols=138 Identities=16% Similarity=0.249 Sum_probs=82.8
Q ss_pred cccccchhhHHHHHHHHhcCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
..++|.+..+..+.+.+..... ..+....+....||.|||||-||+.+.... -+.=+..+-+++|+.-. +
T Consensus 491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~L--fg~e~aliR~DMSEy~E-----k 563 (786)
T COG0542 491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEAL--FGDEQALIRIDMSEYME-----K 563 (786)
T ss_pred cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHh--cCCCccceeechHHHHH-----H
Confidence 4678999999988888765321 123445677789999999999999987641 11114445555555211 1
Q ss_pred HHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceE-EEEEeCCCCCCcccHhhhcCccCCCC-----------CCceEEEec
Q 048163 265 TILISIVPDQNVDNHNLNKLQEELKKKLSGKIF-LLVLDDVWNENYNDWDRLRPPFEAGA-----------PGSKIIVTA 332 (350)
Q Consensus 265 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTt 332 (350)
.-+..|.+..+ .--..++ -..|-+..+.+.| +|.||+|....++.++.+...|.++. ..+-||+||
T Consensus 564 HsVSrLIGaPP-GYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTS 641 (786)
T COG0542 564 HSVSRLIGAPP-GYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTS 641 (786)
T ss_pred HHHHHHhCCCC-CCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEec
Confidence 22334444333 1111111 1234455566766 88899997777777887777776541 234566776
Q ss_pred CC
Q 048163 333 RN 334 (350)
Q Consensus 333 r~ 334 (350)
--
T Consensus 642 N~ 643 (786)
T COG0542 642 NA 643 (786)
T ss_pred cc
Confidence 53
No 144
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.16 E-value=0.00095 Score=66.57 Aligned_cols=51 Identities=18% Similarity=0.283 Sum_probs=40.0
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.+++|.++.++.+..++..... ......++.|+|+.|+||||+++.+...
T Consensus 83 ldel~~~~~ki~~l~~~l~~~~~-~~~~~~illL~GP~GsGKTTl~~~la~~ 133 (637)
T TIGR00602 83 QHELAVHKKKIEEVETWLKAQVL-ENAPKRILLITGPSGCGKSTTIKILSKE 133 (637)
T ss_pred HHHhcCcHHHHHHHHHHHHhccc-ccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 45688999999999998865431 1223457999999999999999999875
No 145
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=97.16 E-value=0.0025 Score=58.88 Aligned_cols=43 Identities=12% Similarity=0.166 Sum_probs=31.8
Q ss_pred CceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChh
Q 048163 294 GKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQE 336 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~ 336 (350)
+++-++|+|++...+....+.+...|..-..++.+|++|.+.+
T Consensus 105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~ 147 (328)
T PRK05707 105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPS 147 (328)
T ss_pred CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChh
Confidence 4455567899988887888999888865456777777777653
No 146
>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=97.15 E-value=0.0011 Score=63.39 Aligned_cols=103 Identities=19% Similarity=0.287 Sum_probs=55.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.|+|+.|+|||+|++.+++.......-..+++++ ..++...+...+... ...... +.+++
T Consensus 136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~------~~~~~~~~~~~~~~~------~~~~~~----~~~~~ 199 (405)
T TIGR00362 136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS------SEKFTNDFVNALRNN------KMEEFK----EKYRS 199 (405)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE------HHHHHHHHHHHHHcC------CHHHHH----HHHHh
Confidence 45689999999999999999998632211112345554 334555555554321 223332 23322
Q ss_pred ceEEEEEeCCCCCCcc-cH-hhhcCccCC-CCCCceEEEecCC
Q 048163 295 KIFLLVLDDVWNENYN-DW-DRLRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~-~~-~~l~~~l~~-~~~gs~iivTtr~ 334 (350)
.-+|+|||+...... .+ ..+...|.. ...|..+|+||..
T Consensus 200 -~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~ 241 (405)
T TIGR00362 200 -VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDR 241 (405)
T ss_pred -CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCC
Confidence 338899999543211 11 223222211 1235567777754
No 147
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=97.11 E-value=0.0019 Score=65.94 Aligned_cols=119 Identities=12% Similarity=0.115 Sum_probs=68.0
Q ss_pred ccccchhhHHHHHHHHhcCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHH
Q 048163 189 KVYGRETEKKDVVELLLRDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKT 265 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 265 (350)
.++|.++.++.|.+.+..... ........+.++||.|+|||.||+.+.... . ...+.++++.......
T Consensus 459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l--~---~~~i~id~se~~~~~~---- 529 (758)
T PRK11034 459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--G---IELLRFDMSEYMERHT---- 529 (758)
T ss_pred eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh--C---CCcEEeechhhccccc----
Confidence 468888888888887763210 012335678999999999999999998753 2 2234455554322111
Q ss_pred HHHHhCCCCCC--CCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccC
Q 048163 266 ILISIVPDQNV--DNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFE 320 (350)
Q Consensus 266 il~~l~~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~ 320 (350)
...+.+..+. .......+...++ +....+|+||++.......++.+...|.
T Consensus 530 -~~~LiG~~~gyvg~~~~g~L~~~v~---~~p~sVlllDEieka~~~v~~~LLq~ld 582 (758)
T PRK11034 530 -VSRLIGAPPGYVGFDQGGLLTDAVI---KHPHAVLLLDEIEKAHPDVFNLLLQVMD 582 (758)
T ss_pred -HHHHcCCCCCcccccccchHHHHHH---hCCCcEEEeccHhhhhHHHHHHHHHHHh
Confidence 1222221110 1111112222222 2345799999997776667777766554
No 148
>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=97.09 E-value=0.0016 Score=56.45 Aligned_cols=89 Identities=17% Similarity=0.100 Sum_probs=52.7
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHh----CCCCC-CCCCCHHH---H
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISI----VPDQN-VDNHNLNK---L 284 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l----~~~~~-~~~~~~~~---~ 284 (350)
+.-.++.|.|++|+||||++.+++... ...-..++|++....+. +-+++++... ..... ....+..+ .
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~--~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (218)
T cd01394 17 ERGTVTQVYGPPGTGKTNIAIQLAVET--AGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRA 92 (218)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHH
Confidence 456899999999999999999998652 22334577887765554 3334443321 00000 01222222 2
Q ss_pred HHHHHHHcCCceEEEEEeCCC
Q 048163 285 QEELKKKLSGKIFLLVLDDVW 305 (350)
Q Consensus 285 ~~~l~~~l~~kr~LlVlDdv~ 305 (350)
...+...+..+.-++|+|.+-
T Consensus 93 ~~~~~~~~~~~~~lvvIDsi~ 113 (218)
T cd01394 93 IQETETFADEKVDLVVVDSAT 113 (218)
T ss_pred HHHHHHHHhcCCcEEEEechH
Confidence 334455555456799999983
No 149
>PRK06620 hypothetical protein; Validated
Probab=97.08 E-value=0.00072 Score=58.54 Aligned_cols=23 Identities=30% Similarity=0.252 Sum_probs=20.8
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+.|||+.|+|||+|++.+.+.
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~~~~ 67 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIWQNL 67 (214)
T ss_pred ceEEEECCCCCCHHHHHHHHHhc
Confidence 67899999999999999988775
No 150
>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=97.07 E-value=0.0012 Score=54.78 Aligned_cols=130 Identities=18% Similarity=0.120 Sum_probs=66.5
Q ss_pred cccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcc-ccccccCceeEEEeCCCCCHHHHHHHHHH
Q 048163 190 VYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDK-QVQDHFDLKAWTCVSDDFDVFRLTKTILI 268 (350)
Q Consensus 190 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~-~~~~~F~~~~wv~~~~~~~~~~~~~~il~ 268 (350)
++|....+.++++.+..-.. ...-|.|+|..|+||+.+|+.+++.. +....| +-|+++. .+...+-.++.-
T Consensus 1 liG~s~~m~~~~~~~~~~a~----~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pf---i~vnc~~-~~~~~~e~~LFG 72 (168)
T PF00158_consen 1 LIGESPAMKRLREQAKRAAS----SDLPVLITGETGTGKELLARAIHNNSPRKNGPF---ISVNCAA-LPEELLESELFG 72 (168)
T ss_dssp SS--SHHHHHHHHHHHHHTT----STS-EEEECSTTSSHHHHHHHHHHCSTTTTS-E---EEEETTT-S-HHHHHHHHHE
T ss_pred CEeCCHHHHHHHHHHHHHhC----CCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCe---EEEehhh-hhcchhhhhhhc
Confidence 36777777777777665431 12556699999999999999999852 122223 4456654 333333333433
Q ss_pred HhCCCCCCCCC-CHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCC-----------CCCceEEEecCC
Q 048163 269 SIVPDQNVDNH-NLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAG-----------APGSKIIVTARN 334 (350)
Q Consensus 269 ~l~~~~~~~~~-~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTtr~ 334 (350)
........... ... .+.. -..=-|+||++..........|...+..+ ....|||.||..
T Consensus 73 ~~~~~~~~~~~~~~G----~l~~---A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~ 143 (168)
T PF00158_consen 73 HEKGAFTGARSDKKG----LLEQ---ANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSK 143 (168)
T ss_dssp BCSSSSTTTSSEBEH----HHHH---TTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS
T ss_pred cccccccccccccCC----ceee---ccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCc
Confidence 22211110111 111 1112 23446788999766554555555444311 124688887775
No 151
>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=97.07 E-value=0.0016 Score=63.27 Aligned_cols=52 Identities=21% Similarity=0.186 Sum_probs=38.0
Q ss_pred cccccchhhHHHHHHHHhcCCC-------CCCCCeEEEEEeecCCCchHHHHHHHHhcc
Q 048163 188 AKVYGRETEKKDVVELLLRDDL-------SNDGEFSVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
.++.|.+..++++.+.+..+-. .+-...+-+.++|++|+|||++|+.+++..
T Consensus 182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh
Confidence 4567899888888887642110 012345679999999999999999999863
No 152
>PRK06696 uridine kinase; Validated
Probab=97.06 E-value=0.00088 Score=58.42 Aligned_cols=44 Identities=25% Similarity=0.256 Sum_probs=35.1
Q ss_pred cchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 192 GRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 192 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.|.+-+++|.+.+.... .....+|+|.|.+|+||||||+.+...
T Consensus 2 ~~~~~~~~la~~~~~~~---~~~~~iI~I~G~sgsGKSTlA~~L~~~ 45 (223)
T PRK06696 2 SRKQLIKELAEHILTLN---LTRPLRVAIDGITASGKTTFADELAEE 45 (223)
T ss_pred cHHHHHHHHHHHHHHhC---CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence 35666777888776532 346789999999999999999999875
No 153
>PRK04296 thymidine kinase; Provisional
Probab=97.06 E-value=0.0011 Score=56.39 Aligned_cols=114 Identities=12% Similarity=-0.010 Sum_probs=61.4
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHcCC
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV-DNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~-~~~~~~~~~~~l~~~l~~ 294 (350)
.++.|+|+.|.||||++..+..... .+...++.+. ..++.......++.+++..... ......++...+.+ ..+
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~--~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~ 77 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYE--ERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGE 77 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHH--HcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCC
Confidence 5778999999999999998887532 2222333332 1112122233445555432211 12334455555555 333
Q ss_pred ceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChh
Q 048163 295 KIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQE 336 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~ 336 (350)
+.=+||+|.+.....++...+...+ ...|..||+|.++.+
T Consensus 78 ~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~ 117 (190)
T PRK04296 78 KIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD 117 (190)
T ss_pred CCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence 4458999999332222222333332 246889999999843
No 154
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=97.05 E-value=0.0017 Score=55.55 Aligned_cols=26 Identities=35% Similarity=0.447 Sum_probs=23.6
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+..+|+|.|.+|+||||+|+.++..
T Consensus 6 ~~~iiIgIaG~SgSGKTTva~~l~~~ 31 (218)
T COG0572 6 EKVIIIGIAGGSGSGKTTVAKELSEQ 31 (218)
T ss_pred CceEEEEEeCCCCCCHHHHHHHHHHH
Confidence 35689999999999999999999886
No 155
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=97.04 E-value=0.0012 Score=63.58 Aligned_cols=105 Identities=16% Similarity=0.171 Sum_probs=57.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.|+|..|+|||+|++.+.+.......-..++++ +..+++..+...+.... .....+.+.++.
T Consensus 141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv------~~~~f~~~~~~~l~~~~--------~~~~~~~~~~~~ 206 (450)
T PRK14087 141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYM------SGDEFARKAVDILQKTH--------KEIEQFKNEICQ 206 (450)
T ss_pred cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEE------EHHHHHHHHHHHHHHhh--------hHHHHHHHHhcc
Confidence 4568999999999999999998852211111122333 34567777776654311 112234444443
Q ss_pred ceEEEEEeCCCCCCc-ccH-hhhcCccCC-CCCCceEEEecCC
Q 048163 295 KIFLLVLDDVWNENY-NDW-DRLRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 295 kr~LlVlDdv~~~~~-~~~-~~l~~~l~~-~~~gs~iivTtr~ 334 (350)
.-+||+||+..... ..+ +.+...+-. ...|..||+|+..
T Consensus 207 -~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~ 248 (450)
T PRK14087 207 -NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDK 248 (450)
T ss_pred -CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCC
Confidence 34888999954321 122 233333321 2345578888654
No 156
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=97.03 E-value=0.0033 Score=56.88 Aligned_cols=87 Identities=18% Similarity=0.154 Sum_probs=47.9
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccc-cccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQ-DHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQNVDNHNLNKLQEELKKK 291 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~-~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~ 291 (350)
...++.++|+.|+||||++..+....... +.+ .+..|+..... ...+.+....+.++.... ...+...+...+..
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~-~V~li~~D~~r~~a~eql~~~~~~~~~p~~-~~~~~~~l~~~l~~- 269 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNK-KVALITTDTYRIGAVEQLKTYAKILGVPVK-VARDPKELRKALDR- 269 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCC-eEEEEECCccchhHHHHHHHHHHHhCCcee-ccCCHHHHHHHHHH-
Confidence 46799999999999999999987653322 122 34445543321 223333333444443332 23444555555544
Q ss_pred cCCceEEEEEeCC
Q 048163 292 LSGKIFLLVLDDV 304 (350)
Q Consensus 292 l~~kr~LlVlDdv 304 (350)
+.+ .=+|++|..
T Consensus 270 ~~~-~d~vliDt~ 281 (282)
T TIGR03499 270 LRD-KDLILIDTA 281 (282)
T ss_pred ccC-CCEEEEeCC
Confidence 333 346777753
No 157
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=97.03 E-value=0.002 Score=59.41 Aligned_cols=91 Identities=18% Similarity=0.205 Sum_probs=57.5
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccc----cCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--------CCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDH----FDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--------DNHN 280 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~----F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--------~~~~ 280 (350)
+.-.++-|+|++|+|||+++.+++-....... =..++|++..+.|+...+.+ +++.++..... ...+
T Consensus 100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~~~~~l~~i~~~~~~~ 178 (317)
T PRK04301 100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLDPDEVLDNIHVARAYN 178 (317)
T ss_pred cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCChHhhhccEEEEeCCC
Confidence 35688999999999999999999765322111 14789999999888766543 34444332110 1111
Q ss_pred ---HHHHHHHHHHHcCC--ceEEEEEeCC
Q 048163 281 ---LNKLQEELKKKLSG--KIFLLVLDDV 304 (350)
Q Consensus 281 ---~~~~~~~l~~~l~~--kr~LlVlDdv 304 (350)
...+...+...+.. +--|||+|.+
T Consensus 179 ~~~~~~~~~~l~~~i~~~~~~~lvVIDSi 207 (317)
T PRK04301 179 SDHQMLLAEKAEELIKEGENIKLVIVDSL 207 (317)
T ss_pred HHHHHHHHHHHHHHHhccCceeEEEEECc
Confidence 12334555555543 4459999998
No 158
>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=97.02 E-value=0.00097 Score=57.03 Aligned_cols=111 Identities=13% Similarity=0.189 Sum_probs=59.1
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHH-HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVF-RLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~-~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
.++.|+|+.|+||||+++.+... ........++. +..+.... .-...++.+- . -..+.....+.++..|+.
T Consensus 2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t-~e~~~E~~~~~~~~~i~q~----~-vg~~~~~~~~~i~~aLr~ 73 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILT-IEDPIEFVHESKRSLINQR----E-VGLDTLSFENALKAALRQ 73 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEE-EcCCccccccCccceeeec----c-cCCCccCHHHHHHHHhcC
Confidence 47899999999999999987764 22233333332 22211100 0000111110 0 011223345567777776
Q ss_pred ceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChhHHH
Q 048163 295 KIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~ 339 (350)
..=++++|++-+. .....+.. ....|-.++.|+...+++.
T Consensus 74 ~pd~ii~gEird~--e~~~~~l~---~a~~G~~v~~t~Ha~~~~~ 113 (198)
T cd01131 74 DPDVILVGEMRDL--ETIRLALT---AAETGHLVMSTLHTNSAAK 113 (198)
T ss_pred CcCEEEEcCCCCH--HHHHHHHH---HHHcCCEEEEEecCCcHHH
Confidence 6779999999432 33333222 1234667888888776554
No 159
>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=96.99 E-value=0.0023 Score=58.59 Aligned_cols=87 Identities=21% Similarity=0.150 Sum_probs=57.1
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC----CCCCCHHHHHHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN----VDNHNLNKLQEE 287 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~----~~~~~~~~~~~~ 287 (350)
-+.-+++-|+|++|+||||||.++... ....-..++|++..+.++.. .+++++.... ......++....
T Consensus 52 lp~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~ 124 (321)
T TIGR02012 52 LPRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEI 124 (321)
T ss_pred CcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHH
Confidence 446789999999999999999998765 22334567898887766543 2333433211 123445556666
Q ss_pred HHHHcC-CceEEEEEeCCC
Q 048163 288 LKKKLS-GKIFLLVLDDVW 305 (350)
Q Consensus 288 l~~~l~-~kr~LlVlDdv~ 305 (350)
+...++ +.--+||+|.|-
T Consensus 125 ~~~li~~~~~~lIVIDSv~ 143 (321)
T TIGR02012 125 AETLVRSGAVDIIVVDSVA 143 (321)
T ss_pred HHHHhhccCCcEEEEcchh
Confidence 655553 456799999984
No 160
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=96.98 E-value=0.0023 Score=63.28 Aligned_cols=75 Identities=21% Similarity=0.252 Sum_probs=54.5
Q ss_pred CCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH
Q 048163 211 NDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKK 290 (350)
Q Consensus 211 ~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~ 290 (350)
..+..+++.++|++|+||||||.-++.+.- | .++=+++|...++..+-..|...+.....
T Consensus 322 ~RP~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~s~--------------- 381 (877)
T KOG1969|consen 322 KRPPKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNHSV--------------- 381 (877)
T ss_pred CCCccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhccc---------------
Confidence 346779999999999999999999987532 2 25667888888877777777665544332
Q ss_pred Hc--CCceEEEEEeCCCC
Q 048163 291 KL--SGKIFLLVLDDVWN 306 (350)
Q Consensus 291 ~l--~~kr~LlVlDdv~~ 306 (350)
| .++...||+|++.-
T Consensus 382 -l~adsrP~CLViDEIDG 398 (877)
T KOG1969|consen 382 -LDADSRPVCLVIDEIDG 398 (877)
T ss_pred -cccCCCcceEEEecccC
Confidence 2 15677889999943
No 161
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=96.98 E-value=0.00073 Score=59.61 Aligned_cols=51 Identities=25% Similarity=0.400 Sum_probs=41.7
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.+|+|.++-+++|.-++..... ....+--+.++||+|.||||||.-+.+.
T Consensus 25 l~efiGQ~~vk~~L~ifI~AAk~-r~e~lDHvLl~GPPGlGKTTLA~IIA~E 75 (332)
T COG2255 25 LDEFIGQEKVKEQLQIFIKAAKK-RGEALDHVLLFGPPGLGKTTLAHIIANE 75 (332)
T ss_pred HHHhcChHHHHHHHHHHHHHHHh-cCCCcCeEEeeCCCCCcHHHHHHHHHHH
Confidence 36789999888888777765432 3456888999999999999999999886
No 162
>CHL00176 ftsH cell division protein; Validated
Probab=96.97 E-value=0.0034 Score=62.96 Aligned_cols=51 Identities=22% Similarity=0.296 Sum_probs=33.8
Q ss_pred cccccchhhHHHHH---HHHhcCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVV---ELLLRDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~---~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++.|.++..+++. +++..+.. .+....+-+.++|++|+|||+||+.++..
T Consensus 183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 45678765555444 44433221 01233567999999999999999999875
No 163
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.96 E-value=0.0025 Score=56.65 Aligned_cols=82 Identities=23% Similarity=0.330 Sum_probs=51.1
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLS 293 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~ 293 (350)
+..-+.++|++|+|||.||..+.+..- +..+. +.++ +..+++.++....... .....|.+.+.
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~s-v~f~------~~~el~~~Lk~~~~~~---------~~~~~l~~~l~ 166 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAGIS-VLFI------TAPDLLSKLKAAFDEG---------RLEEKLLRELK 166 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCe-EEEE------EHHHHHHHHHHHHhcC---------chHHHHHHHhh
Confidence 457899999999999999999998743 32233 3443 4556666666554331 11222333222
Q ss_pred CceEEEEEeCCCCCCcccHh
Q 048163 294 GKIFLLVLDDVWNENYNDWD 313 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~~~~~ 313 (350)
+-=||||||+.......|.
T Consensus 167 -~~dlLIiDDlG~~~~~~~~ 185 (254)
T COG1484 167 -KVDLLIIDDIGYEPFSQEE 185 (254)
T ss_pred -cCCEEEEecccCccCCHHH
Confidence 2348999999776555555
No 164
>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=96.96 E-value=0.0024 Score=58.54 Aligned_cols=87 Identities=22% Similarity=0.152 Sum_probs=57.1
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC----CCCCCHHHHHHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN----VDNHNLNKLQEE 287 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~----~~~~~~~~~~~~ 287 (350)
-+.-+++-|+|++|+||||||.+++-. ....-..++|++..+.++.. .++.++.... ....+.++....
T Consensus 52 lp~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i 124 (325)
T cd00983 52 YPKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEI 124 (325)
T ss_pred ccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHH
Confidence 345688899999999999999998764 23344678899887766643 2333333211 023345556666
Q ss_pred HHHHcC-CceEEEEEeCCC
Q 048163 288 LKKKLS-GKIFLLVLDDVW 305 (350)
Q Consensus 288 l~~~l~-~kr~LlVlDdv~ 305 (350)
+...++ +.--|||+|.|-
T Consensus 125 ~~~li~s~~~~lIVIDSva 143 (325)
T cd00983 125 ADSLVRSGAVDLIVVDSVA 143 (325)
T ss_pred HHHHHhccCCCEEEEcchH
Confidence 655553 456799999983
No 165
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=96.95 E-value=0.0053 Score=59.12 Aligned_cols=102 Identities=16% Similarity=0.215 Sum_probs=55.2
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLS 293 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~ 293 (350)
....+.|+|+.|+|||+|++.+.+... .....+++++ ..++...+...+... .. ..+++.++
T Consensus 140 ~~npl~L~G~~G~GKTHLl~Ai~~~l~--~~~~~v~yi~------~~~f~~~~~~~l~~~------~~----~~f~~~~~ 201 (445)
T PRK12422 140 PFNPIYLFGPEGSGKTHLMQAAVHALR--ESGGKILYVR------SELFTEHLVSAIRSG------EM----QRFRQFYR 201 (445)
T ss_pred CCceEEEEcCCCCCHHHHHHHHHHHHH--HcCCCEEEee------HHHHHHHHHHHHhcc------hH----HHHHHHcc
Confidence 346788999999999999999998632 2223344444 334445555544321 11 22444443
Q ss_pred CceEEEEEeCCCCCCccc--HhhhcCccCC-CCCCceEEEecCC
Q 048163 294 GKIFLLVLDDVWNENYND--WDRLRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~gs~iivTtr~ 334 (350)
. .-+|++||+....... .+.+...+-. ...|..||+||..
T Consensus 202 ~-~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~ 244 (445)
T PRK12422 202 N-VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTC 244 (445)
T ss_pred c-CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCC
Confidence 3 4488889994432111 1222222210 1235578887754
No 166
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.94 E-value=0.0022 Score=59.15 Aligned_cols=102 Identities=18% Similarity=0.202 Sum_probs=54.3
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
..+.++|+.|+|||.||..+.+... ..-..++++++ .+++..+...-.. ...+.... +. .+. .
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~--~~g~~V~y~t~------~~l~~~l~~~~~~----~~~~~~~~---~~-~l~-~ 246 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELL--DRGKSVIYRTA------DELIEILREIRFN----NDKELEEV---YD-LLI-N 246 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHH--HCCCeEEEEEH------HHHHHHHHHHHhc----cchhHHHH---HH-Hhc-c
Confidence 6799999999999999999988632 22224455444 3344444321110 11111111 22 222 1
Q ss_pred eEEEEEeCCCCCCcccHh--hhcCccCC-CCCCceEEEecCC
Q 048163 296 IFLLVLDDVWNENYNDWD--RLRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 296 r~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~iivTtr~ 334 (350)
-=||||||+.......|. .+...+-. ...+..+|+||..
T Consensus 247 ~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl 288 (329)
T PRK06835 247 CDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL 288 (329)
T ss_pred CCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 248999999665434443 23332221 1235567777774
No 167
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=96.92 E-value=0.0035 Score=53.44 Aligned_cols=55 Identities=20% Similarity=0.133 Sum_probs=32.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIV 271 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~ 271 (350)
++++.++|+.|+||||.+-+++.....+ -..+..++.... ....+-++...+.++
T Consensus 1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~ 56 (196)
T PF00448_consen 1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILG 56 (196)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHT
T ss_pred CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhc
Confidence 3789999999999998888877653322 334555554332 233344444444444
No 168
>PRK08233 hypothetical protein; Provisional
Probab=96.92 E-value=0.0035 Score=52.48 Aligned_cols=24 Identities=33% Similarity=0.466 Sum_probs=21.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+|+|.|++|+||||||+.+...
T Consensus 3 ~~iI~I~G~~GsGKtTla~~L~~~ 26 (182)
T PRK08233 3 TKIITIAAVSGGGKTTLTERLTHK 26 (182)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhh
Confidence 478999999999999999999875
No 169
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=96.92 E-value=0.0026 Score=54.63 Aligned_cols=45 Identities=22% Similarity=0.296 Sum_probs=36.3
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++||-++.+++|.-...+ ++.+-+.|.||+|+||||-+..+.+.
T Consensus 27 ~dIVGNe~tv~rl~via~~------gnmP~liisGpPG~GKTTsi~~LAr~ 71 (333)
T KOG0991|consen 27 QDIVGNEDTVERLSVIAKE------GNMPNLIISGPPGTGKTTSILCLARE 71 (333)
T ss_pred HHhhCCHHHHHHHHHHHHc------CCCCceEeeCCCCCchhhHHHHHHHH
Confidence 5689999999988776643 35788999999999999988777654
No 170
>PRK09354 recA recombinase A; Provisional
Probab=96.92 E-value=0.0031 Score=58.23 Aligned_cols=87 Identities=21% Similarity=0.149 Sum_probs=58.4
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC----CCCCCHHHHHHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN----VDNHNLNKLQEE 287 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~----~~~~~~~~~~~~ 287 (350)
-+.-+++-|+|+.|+|||||+.+++.. ....-..++|+.....++.. .++.++.... ......++....
T Consensus 57 ip~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i 129 (349)
T PRK09354 57 LPRGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEI 129 (349)
T ss_pred CcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHH
Confidence 346789999999999999999998765 23345678999988877752 2333333211 023345555666
Q ss_pred HHHHcC-CceEEEEEeCCC
Q 048163 288 LKKKLS-GKIFLLVLDDVW 305 (350)
Q Consensus 288 l~~~l~-~kr~LlVlDdv~ 305 (350)
+...++ +.--|||+|.|-
T Consensus 130 ~~~li~s~~~~lIVIDSva 148 (349)
T PRK09354 130 ADTLVRSGAVDLIVVDSVA 148 (349)
T ss_pred HHHHhhcCCCCEEEEeChh
Confidence 665553 456799999994
No 171
>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=96.91 E-value=0.0011 Score=57.41 Aligned_cols=122 Identities=14% Similarity=0.121 Sum_probs=61.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--DNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~~~l 292 (350)
.+.+.|+|+.|.||||+.+.+...... . ....|+.+.. .. ...+.++...+...... .......-...+...+
T Consensus 29 ~~~~~itGpNg~GKStlLk~i~~~~~l-a--~~G~~v~a~~-~~-~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l 103 (213)
T cd03281 29 PSIMVITGPNSSGKSVYLKQVALIVFL-A--HIGSFVPADS-AT-IGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKAL 103 (213)
T ss_pred ceEEEEECCCCCChHHHHHHHHHHHHH-H--hCCCeeEcCC-cE-EeeeeeeeeeeCCccChhhccchHHHHHHHHHHHH
Confidence 488899999999999999998742111 1 1112222211 10 11222222233222110 1122222223333322
Q ss_pred --CCceEEEEEeCCCCCCc-ccHh----hhcCccCCC-CCCceEEEecCChhHHHhc
Q 048163 293 --SGKIFLLVLDDVWNENY-NDWD----RLRPPFEAG-APGSKIIVTARNQEVAAIM 341 (350)
Q Consensus 293 --~~kr~LlVlDdv~~~~~-~~~~----~l~~~l~~~-~~gs~iivTtr~~~va~~~ 341 (350)
..++-|++||+.-.... .+.. .+...+... ..+..+|++|...+++...
T Consensus 104 ~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~~~ 160 (213)
T cd03281 104 RLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFNRS 160 (213)
T ss_pred HhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHHhh
Confidence 46789999999955321 1111 122223221 2345899999999988764
No 172
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=96.90 E-value=0.0016 Score=63.07 Aligned_cols=138 Identities=18% Similarity=0.225 Sum_probs=80.4
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
++++|.+--...|.+.+.... -..--...|+.|+||||+|+-+..-..... | ....+++.-...+.|-
T Consensus 16 ~evvGQe~v~~~L~nal~~~r-----i~hAYlfsG~RGvGKTt~Ari~AkalNC~~------~-~~~ePC~~C~~Ck~I~ 83 (515)
T COG2812 16 DDVVGQEHVVKTLSNALENGR-----IAHAYLFSGPRGVGKTTIARILAKALNCEN------G-PTAEPCGKCISCKEIN 83 (515)
T ss_pred HHhcccHHHHHHHHHHHHhCc-----chhhhhhcCCCCcCchhHHHHHHHHhcCCC------C-CCCCcchhhhhhHhhh
Confidence 456999999999999887654 345566789999999999999876422111 1 1122233333333333
Q ss_pred HHhC-------CCCCCCCCCHHHHHHHHHHHc-CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEE-ecCChhH
Q 048163 268 ISIV-------PDQNVDNHNLNKLQEELKKKL-SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIV-TARNQEV 337 (350)
Q Consensus 268 ~~l~-------~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv-Ttr~~~v 337 (350)
..-. .......++..++.+.+...- .+|-=+.|+|+|...+...|+.+...|-.-...-..|+ ||-...|
T Consensus 84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Ki 162 (515)
T COG2812 84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKI 162 (515)
T ss_pred cCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcC
Confidence 2200 000001222233332222222 35666899999988888899999999865445555444 4444443
No 173
>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.
Probab=96.89 E-value=0.0032 Score=56.13 Aligned_cols=88 Identities=18% Similarity=0.206 Sum_probs=54.7
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcccccccc-CceeEEEeCCCCC-HHHHHHHHHHHhCCCCC------CCCCCHH----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF-DLKAWTCVSDDFD-VFRLTKTILISIVPDQN------VDNHNLN---- 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~------~~~~~~~---- 282 (350)
-.-++|.|..|+|||+|++.+++. ...+| +.++++-+.+... +.+++.++...-..... .+.....
T Consensus 69 GQr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~ 146 (274)
T cd01133 69 GGKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV 146 (274)
T ss_pred CCEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence 467899999999999999999986 33344 3466677777654 44566666543211110 0111111
Q ss_pred -HHHHHHHHHc--C-CceEEEEEeCC
Q 048163 283 -KLQEELKKKL--S-GKIFLLVLDDV 304 (350)
Q Consensus 283 -~~~~~l~~~l--~-~kr~LlVlDdv 304 (350)
...-.+.+++ + +++.||++||+
T Consensus 147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsl 172 (274)
T cd01133 147 ALTGLTMAEYFRDEEGQDVLLFIDNI 172 (274)
T ss_pred HHHHHHHHHHHHHhcCCeEEEEEeCh
Confidence 1222344555 3 89999999999
No 174
>PRK13695 putative NTPase; Provisional
Probab=96.88 E-value=0.00061 Score=56.94 Aligned_cols=23 Identities=39% Similarity=0.378 Sum_probs=20.2
Q ss_pred EEEEeecCCCchHHHHHHHHhcc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
.+.|.|++|+|||||++.++...
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~~l 24 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAELL 24 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 47899999999999999988753
No 175
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=96.88 E-value=0.0027 Score=53.22 Aligned_cols=119 Identities=17% Similarity=0.054 Sum_probs=58.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCC--CCC-----------CCCCCH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVP--DQN-----------VDNHNL 281 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~--~~~-----------~~~~~~ 281 (350)
-.+++|.|+.|+|||||++.+..... .....+++.-. .+......+-..+.. ... ...-+-
T Consensus 28 Ge~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~ 101 (178)
T cd03247 28 GEKIALLGRSGSGKSTLLQLLTGDLK---PQQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSG 101 (178)
T ss_pred CCEEEEECCCCCCHHHHHHHHhccCC---CCCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCH
Confidence 35899999999999999999976421 11222222111 111110011111100 000 011111
Q ss_pred -HHHHHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCCCCCCceEEEecCChhHHH
Q 048163 282 -NKLQEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEAGAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 282 -~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~ 339 (350)
+...-.+...+-.+.=+++||+.... +....+.+...+.....+..||++|++.+...
T Consensus 102 G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~ 161 (178)
T cd03247 102 GERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIE 161 (178)
T ss_pred HHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHH
Confidence 12223345555567788899998433 22222333333322224678899999887765
No 176
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=96.88 E-value=0.0039 Score=56.40 Aligned_cols=144 Identities=27% Similarity=0.291 Sum_probs=77.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcc-ccccccCceeEEEeCCCCCHH-HHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDK-QVQDHFDLKAWTCVSDDFDVF-RLTKT 265 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~-~~~~~F~~~~wv~~~~~~~~~-~~~~~ 265 (350)
..++|-.++...+-+++.+.-. -+....+.|+||.|+|||+|......+. .+.++| +-|........+ -.++.
T Consensus 24 ~~l~g~~~~~~~l~~~lkqt~~--~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al~~ 98 (408)
T KOG2228|consen 24 INLFGVQDEQKHLSELLKQTIL--HGESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIALKG 98 (408)
T ss_pred cceeehHHHHHHHHHHHHHHHH--hcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHHHH
Confidence 4567888888888887764321 1234678899999999999999888761 223333 445555544332 24455
Q ss_pred HHHHhCCCCCC---C----CCCHHHHHHHHHHHc--CCceEEEEEeCCCCCCccc-----HhhhcCccCCCCCCceEEEe
Q 048163 266 ILISIVPDQNV---D----NHNLNKLQEELKKKL--SGKIFLLVLDDVWNENYND-----WDRLRPPFEAGAPGSKIIVT 331 (350)
Q Consensus 266 il~~l~~~~~~---~----~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~~-----~~~l~~~l~~~~~gs~iivT 331 (350)
|.+++..+-.. . ..++..+...|+..- .+-+.++|+|+++-..... ++-+...=....|=|-|-+|
T Consensus 99 I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~T 178 (408)
T KOG2228|consen 99 ITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVT 178 (408)
T ss_pred HHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEee
Confidence 55554332211 2 233344444443322 1236889998884332111 21111111123455667788
Q ss_pred cCChh
Q 048163 332 ARNQE 336 (350)
Q Consensus 332 tr~~~ 336 (350)
||-..
T Consensus 179 trld~ 183 (408)
T KOG2228|consen 179 TRLDI 183 (408)
T ss_pred ccccH
Confidence 88644
No 177
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=96.86 E-value=0.00089 Score=65.21 Aligned_cols=50 Identities=20% Similarity=0.312 Sum_probs=39.7
Q ss_pred ccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 189 KVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+++|.++.+++|++.|...-..-...-+++.++||.|+|||+||+.+..-
T Consensus 77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~ 126 (644)
T PRK15455 77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSL 126 (644)
T ss_pred cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHH
Confidence 57999999999999984321111234579999999999999999999874
No 178
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=96.85 E-value=0.0098 Score=49.93 Aligned_cols=124 Identities=15% Similarity=0.096 Sum_probs=66.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeC--CCCCHHHHH------HHHHHHhCCCCC----CCCCCH-
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVS--DDFDVFRLT------KTILISIVPDQN----VDNHNL- 281 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~--~~~~~~~~~------~~il~~l~~~~~----~~~~~~- 281 (350)
-.+++|.|+.|+|||||.+.++... ......+++.-. ...+..... -++++.++.... ...-+-
T Consensus 25 G~~~~l~G~nGsGKStLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G 101 (180)
T cd03214 25 GEIVGILGPNGAGKSTLLKTLAGLL---KPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGG 101 (180)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCCC---CCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHH
Confidence 4689999999999999999998742 223333443211 111222211 123444443211 011111
Q ss_pred HHHHHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCCC-CC-CceEEEecCChhHHHhc
Q 048163 282 NKLQEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEAG-AP-GSKIIVTARNQEVAAIM 341 (350)
Q Consensus 282 ~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~-gs~iivTtr~~~va~~~ 341 (350)
+...-.+.+.+-...-+++||+--.. +......+...+... .. |..||++|++.+....+
T Consensus 102 ~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~~~~ 164 (180)
T cd03214 102 ERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLAARY 164 (180)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHh
Confidence 22233455556667888999998332 222333444444322 22 67889999987765443
No 179
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=96.84 E-value=0.0037 Score=55.66 Aligned_cols=90 Identities=28% Similarity=0.292 Sum_probs=56.1
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccc----cccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--------CCCCH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQ----DHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--------DNHNL 281 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--------~~~~~ 281 (350)
.-.+.=|+|++|+|||.|+.+++-..... +.=..++|++....|+...+. +|++........ ...+.
T Consensus 37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~ 115 (256)
T PF08423_consen 37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDL 115 (256)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCH
Confidence 45688899999999999998886443222 223469999999999876654 466554332110 12333
Q ss_pred HHHH---HHHHHHc-CCceEEEEEeCC
Q 048163 282 NKLQ---EELKKKL-SGKIFLLVLDDV 304 (350)
Q Consensus 282 ~~~~---~~l~~~l-~~kr~LlVlDdv 304 (350)
+++. ..+...+ ..+--|||+|.+
T Consensus 116 ~~l~~~L~~l~~~l~~~~ikLIVIDSI 142 (256)
T PF08423_consen 116 EELLELLEQLPKLLSESKIKLIVIDSI 142 (256)
T ss_dssp HHHHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred HHHHHHHHHHHhhccccceEEEEecch
Confidence 4433 3333334 345669999999
No 180
>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=96.84 E-value=0.0064 Score=49.52 Aligned_cols=40 Identities=23% Similarity=0.292 Sum_probs=29.8
Q ss_pred EEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD 258 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~ 258 (350)
++.|+|++|+|||+++..+.... ...-..++|++......
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~--~~~~~~v~~~~~e~~~~ 40 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNI--ATKGGKVVYVDIEEEIE 40 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHH--HhcCCEEEEEECCcchH
Confidence 36799999999999999998753 22345677877766543
No 181
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=96.83 E-value=0.004 Score=57.21 Aligned_cols=92 Identities=16% Similarity=0.161 Sum_probs=56.3
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhcccccc----ccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--------CCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD----HFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--------DNHN 280 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--------~~~~ 280 (350)
+.-.++-|+|++|+|||+++.+++....... .=..++||+....|+...+. ++++.++..... ...+
T Consensus 93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i~i~~~~~ 171 (310)
T TIGR02236 93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNIYVARAYN 171 (310)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhceEEEecCC
Confidence 3568899999999999999999976532211 11378999999988877654 444444332100 1111
Q ss_pred ---HHHHHHHHHHHcCC---ceEEEEEeCCC
Q 048163 281 ---LNKLQEELKKKLSG---KIFLLVLDDVW 305 (350)
Q Consensus 281 ---~~~~~~~l~~~l~~---kr~LlVlDdv~ 305 (350)
...+.+.+.+.+.. +--|||+|.+-
T Consensus 172 ~~~~~~lld~l~~~i~~~~~~~~lVVIDSis 202 (310)
T TIGR02236 172 SNHQMLLVEKAEDLIKELNNPVKLLIVDSLT 202 (310)
T ss_pred HHHHHHHHHHHHHHHHhcCCCceEEEEecch
Confidence 11233444455432 24599999984
No 182
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.83 E-value=0.0012 Score=56.26 Aligned_cols=104 Identities=16% Similarity=0.160 Sum_probs=49.3
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc---
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL--- 292 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l--- 292 (350)
++..|.|++|+||||+.+.+...... . ...+.+..........+... .+. ....+..+.......-
T Consensus 19 ~~~~l~G~aGtGKT~~l~~~~~~~~~--~-g~~v~~~apT~~Aa~~L~~~----~~~----~a~Ti~~~l~~~~~~~~~~ 87 (196)
T PF13604_consen 19 RVSVLQGPAGTGKTTLLKALAEALEA--A-GKRVIGLAPTNKAAKELREK----TGI----EAQTIHSFLYRIPNGDDEG 87 (196)
T ss_dssp SEEEEEESTTSTHHHHHHHHHHHHHH--T-T--EEEEESSHHHHHHHHHH----HTS-----EEEHHHHTTEECCEECCS
T ss_pred eEEEEEECCCCCHHHHHHHHHHHHHh--C-CCeEEEECCcHHHHHHHHHh----hCc----chhhHHHHHhcCCcccccc
Confidence 67888999999999999998765322 2 23333333332222222222 221 1111111100000000
Q ss_pred ---CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec
Q 048163 293 ---SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA 332 (350)
Q Consensus 293 ---~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt 332 (350)
-.++-+||+|+++..+...+..+...... .|+++|+.=
T Consensus 88 ~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvG 128 (196)
T PF13604_consen 88 RPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVG 128 (196)
T ss_dssp SCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE
T ss_pred cccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEEC
Confidence 12335889999866554555555554433 466777643
No 183
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=96.81 E-value=0.0063 Score=54.50 Aligned_cols=92 Identities=24% Similarity=0.176 Sum_probs=60.5
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHH-hC---CCCCCCCCCHHHHHHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILIS-IV---PDQNVDNHNLNKLQEE 287 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~-l~---~~~~~~~~~~~~~~~~ 287 (350)
-+.-+++=|+|+.|+||||||.+++-. .+..-...+|++..+.+++..+.. +... +. ...+.....-.++...
T Consensus 57 l~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~~ 133 (279)
T COG0468 57 LPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAEK 133 (279)
T ss_pred cccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHHH
Confidence 456788889999999999999998764 444455889999999998765433 3333 22 2122122233344455
Q ss_pred HHHHcCCceEEEEEeCCCC
Q 048163 288 LKKKLSGKIFLLVLDDVWN 306 (350)
Q Consensus 288 l~~~l~~kr~LlVlDdv~~ 306 (350)
+......+--|+|+|.+-.
T Consensus 134 ~~~~~~~~i~LvVVDSvaa 152 (279)
T COG0468 134 LARSGAEKIDLLVVDSVAA 152 (279)
T ss_pred HHHhccCCCCEEEEecCcc
Confidence 5555444567999999943
No 184
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=96.81 E-value=0.0061 Score=53.02 Aligned_cols=22 Identities=32% Similarity=0.409 Sum_probs=20.0
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|+|.|+.|+||||||+.+...
T Consensus 1 IigI~G~sGSGKTTla~~L~~~ 22 (220)
T cd02025 1 IIGIAGSVAVGKSTTARVLQAL 22 (220)
T ss_pred CEEeeCCCCCCHHHHHHHHHHH
Confidence 5899999999999999999875
No 185
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=96.80 E-value=0.014 Score=53.70 Aligned_cols=126 Identities=11% Similarity=0.119 Sum_probs=68.3
Q ss_pred HHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCC---
Q 048163 197 KKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPD--- 273 (350)
Q Consensus 197 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~--- 273 (350)
...|...+.... -...+.+.|+.|+||+++|+.+....--..... ..+++.-...+.+...-..+
T Consensus 11 ~~~l~~~~~~~r-----l~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~-------~~~Cg~C~sC~~~~~g~HPD~~~ 78 (325)
T PRK06871 11 YQQITQAFQQGL-----GHHALLFKADSGLGTEQLIRALAQWLMCQTPQG-------DQPCGQCHSCHLFQAGNHPDFHI 78 (325)
T ss_pred HHHHHHHHHcCC-----cceeEEeECCCCCCHHHHHHHHHHHHcCCCCCC-------CCCCCCCHHHHHHhcCCCCCEEE
Confidence 445666665433 357888999999999999999875421111000 00011111111111100000
Q ss_pred ---CCCCCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 274 ---QNVDNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 274 ---~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
.....-..++..+ +.+.+ .+++-++|+|++...+....+.+...|-.-..++.+|++|.+.
T Consensus 79 i~p~~~~~I~id~iR~-l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~ 147 (325)
T PRK06871 79 LEPIDNKDIGVDQVRE-INEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLS 147 (325)
T ss_pred EccccCCCCCHHHHHH-HHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence 0001122333222 22222 3567788999998887788999999886556677777777654
No 186
>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=96.80 E-value=0.0021 Score=55.16 Aligned_cols=122 Identities=14% Similarity=0.120 Sum_probs=64.4
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--DNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~~~l 292 (350)
..++.|.|+.|.||||+.+.+.-..- -. .+..+|.+.. ....++..|+..+...... .......-...+...+
T Consensus 29 ~~~~~l~G~n~~GKstll~~i~~~~~-la--~~G~~vpa~~--~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il 103 (204)
T cd03282 29 SRFHIITGPNMSGKSTYLKQIALLAI-MA--QIGCFVPAEY--ATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAYIL 103 (204)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHH-HH--HcCCCcchhh--cCccChhheeEecCCccccchhhhHHHHHHHHHHHHH
Confidence 47899999999999999998864321 11 1112222211 1112333444343332210 1112222222233333
Q ss_pred --CCceEEEEEeCCCCCC-ccc----HhhhcCccCCCCCCceEEEecCChhHHHhcCC
Q 048163 293 --SGKIFLLVLDDVWNEN-YND----WDRLRPPFEAGAPGSKIIVTARNQEVAAIMGT 343 (350)
Q Consensus 293 --~~kr~LlVlDdv~~~~-~~~----~~~l~~~l~~~~~gs~iivTtr~~~va~~~~~ 343 (350)
..++-|+++|+.-... ..+ ...+...+. ..|+.+|++|...+++..+..
T Consensus 104 ~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~--~~~~~~i~~TH~~~l~~~~~~ 159 (204)
T cd03282 104 DYADGDSLVLIDELGRGTSSADGFAISLAILECLI--KKESTVFFATHFRDIAAILGN 159 (204)
T ss_pred HhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhhc
Confidence 3568899999984432 112 112222332 238899999999999887653
No 187
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=96.79 E-value=0.003 Score=61.16 Aligned_cols=101 Identities=20% Similarity=0.293 Sum_probs=54.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcccccccc--CceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF--DLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l 292 (350)
...+.|+|+.|+|||+|++.+.+.. ...+ ..++++++ .++...+...+.. ..... +.+.+
T Consensus 148 ~~~l~l~G~~G~GKThL~~ai~~~~--~~~~~~~~v~yi~~------~~~~~~~~~~~~~------~~~~~----~~~~~ 209 (450)
T PRK00149 148 YNPLFIYGGVGLGKTHLLHAIGNYI--LEKNPNAKVVYVTS------EKFTNDFVNALRN------NTMEE----FKEKY 209 (450)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHH--HHhCCCCeEEEEEH------HHHHHHHHHHHHc------CcHHH----HHHHH
Confidence 4568999999999999999999863 2332 22445443 3344444444422 12222 23333
Q ss_pred CCceEEEEEeCCCCCCccc--HhhhcCccCC-CCCCceEEEecCC
Q 048163 293 SGKIFLLVLDDVWNENYND--WDRLRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 293 ~~kr~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~gs~iivTtr~ 334 (350)
+ +.-+|||||+....... ...+...|.. ...|..||+||..
T Consensus 210 ~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~ 253 (450)
T PRK00149 210 R-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDR 253 (450)
T ss_pred h-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCC
Confidence 3 24489999995431111 1223222211 1235567777754
No 188
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=96.79 E-value=0.0077 Score=50.41 Aligned_cols=115 Identities=17% Similarity=0.201 Sum_probs=61.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcc---ccccc---cC--ceeEEEeCCCCCHHHHHHHHHHHhCCCCC---CC--CCCH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDK---QVQDH---FD--LKAWTCVSDDFDVFRLTKTILISIVPDQN---VD--NHNL 281 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~---~~~~~---F~--~~~wv~~~~~~~~~~~~~~il~~l~~~~~---~~--~~~~ 281 (350)
-.+++|+|+.|+|||||.+.+..+. .+... |. .+.|+ .+ .+.+..+..... .. .-+-
T Consensus 21 G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LSg 90 (176)
T cd03238 21 NVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLSG 90 (176)
T ss_pred CCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCCH
Confidence 4689999999999999999986321 11111 10 12222 11 345565554321 01 1111
Q ss_pred H-HHHHHHHHHcCCc--eEEEEEeCCCCC-CcccHhhhcCccCC-CCCCceEEEecCChhHHH
Q 048163 282 N-KLQEELKKKLSGK--IFLLVLDDVWNE-NYNDWDRLRPPFEA-GAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 282 ~-~~~~~l~~~l~~k--r~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTtr~~~va~ 339 (350)
. ...-.+...+-.+ .=+++||+--.. +......+...+.. ...|..||++|++.+...
T Consensus 91 Gq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~ 153 (176)
T cd03238 91 GELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS 153 (176)
T ss_pred HHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence 2 2223344455455 678888988332 22233334443432 124778999999987764
No 189
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=96.79 E-value=0.0094 Score=53.90 Aligned_cols=26 Identities=27% Similarity=0.310 Sum_probs=22.2
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHh
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYN 237 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~ 237 (350)
.....+|+|.|+.|+||||+|+.+..
T Consensus 59 ~~~p~IIGIaG~~GSGKSTlar~L~~ 84 (290)
T TIGR00554 59 AKIPYIISIAGSVAVGKSTTARILQA 84 (290)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence 34578999999999999999987754
No 190
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=96.78 E-value=0.0043 Score=58.80 Aligned_cols=52 Identities=21% Similarity=0.216 Sum_probs=37.8
Q ss_pred ccccccchhhHHHHHHHHhcC----C---CCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRD----D---LSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~----~---~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.++.|.+..+++|.+.+.-+ + ..+-...+.+.++|++|+|||+||+.+.+.
T Consensus 144 ~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 144 YSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred HHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 356788888888877765321 1 012234678999999999999999999885
No 191
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=96.77 E-value=0.0058 Score=53.65 Aligned_cols=89 Identities=19% Similarity=0.091 Sum_probs=55.3
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC----------------
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN---------------- 275 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~---------------- 275 (350)
-+.-.++.|+|++|+|||+|+.++.... ..+=..++|++..++ ..++.+.+ .+++....
T Consensus 22 ~~~g~~~~i~G~~GsGKt~l~~~~~~~~--~~~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~ 96 (234)
T PRK06067 22 IPFPSLILIEGDHGTGKSVLSQQFVYGA--LKQGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTE 96 (234)
T ss_pred CcCCcEEEEECCCCCChHHHHHHHHHHH--HhCCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEecccc
Confidence 3467899999999999999999985431 123356788888764 34444443 22221110
Q ss_pred ---CCCCCHHHHHHHHHHHcCC-ceEEEEEeCCC
Q 048163 276 ---VDNHNLNKLQEELKKKLSG-KIFLLVLDDVW 305 (350)
Q Consensus 276 ---~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~ 305 (350)
....+.+.+...+.+.+.. +.-++|+|.+-
T Consensus 97 ~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t 130 (234)
T PRK06067 97 GFEWNSTLANKLLELIIEFIKSKREDVIIIDSLT 130 (234)
T ss_pred ccccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence 0112335566666666643 55689999984
No 192
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=96.76 E-value=0.0032 Score=62.23 Aligned_cols=102 Identities=16% Similarity=0.188 Sum_probs=55.2
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
..+.|+|..|+|||.|++.+.+.......-..+++++ ..+++.++...+.. ...+ .+++.+..
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit------aeef~~el~~al~~------~~~~----~f~~~y~~- 377 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS------SEEFTNEFINSIRD------GKGD----SFRRRYRE- 377 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee------HHHHHHHHHHHHHh------ccHH----HHHHHhhc-
Confidence 4589999999999999999998632111112234433 34555555544422 1122 23333332
Q ss_pred eEEEEEeCCCCCCc-ccHh-hhcCccCC-CCCCceEEEecCC
Q 048163 296 IFLLVLDDVWNENY-NDWD-RLRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 296 r~LlVlDdv~~~~~-~~~~-~l~~~l~~-~~~gs~iivTtr~ 334 (350)
-=||||||+..... ..|. .+...|-. ...|..||+||..
T Consensus 378 ~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~ 419 (617)
T PRK14086 378 MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDR 419 (617)
T ss_pred CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCC
Confidence 34788999954321 2222 23222211 1345678888875
No 193
>PTZ00301 uridine kinase; Provisional
Probab=96.76 E-value=0.0029 Score=54.50 Aligned_cols=24 Identities=33% Similarity=0.556 Sum_probs=21.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+|+|.|++|+||||||+.+.+.
T Consensus 3 ~~iIgIaG~SgSGKTTla~~l~~~ 26 (210)
T PTZ00301 3 CTVIGISGASGSGKSSLSTNIVSE 26 (210)
T ss_pred CEEEEEECCCcCCHHHHHHHHHHH
Confidence 479999999999999999988654
No 194
>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=96.75 E-value=0.0043 Score=60.81 Aligned_cols=51 Identities=24% Similarity=0.293 Sum_probs=34.2
Q ss_pred cccccchhhHHHHHHHHh---cCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLL---RDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~---~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++|.+..++++.+++. .++. .+....+-+.++|++|+|||+||+.+...
T Consensus 55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 467788766655554332 2110 01233456899999999999999999875
No 195
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.0033 Score=54.96 Aligned_cols=57 Identities=21% Similarity=0.159 Sum_probs=38.5
Q ss_pred cccccchhhHHHHHHHHhcC----CC---CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccC
Q 048163 188 AKVYGRETEKKDVVELLLRD----DL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFD 246 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~----~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~ 246 (350)
+++-|=.++.++|.+...-+ +. .+-...+-|.++|++|.|||-+|+.|.|. ....|-
T Consensus 177 ~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanr--tdacfi 240 (435)
T KOG0729|consen 177 SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANR--TDACFI 240 (435)
T ss_pred ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcc--cCceEE
Confidence 34445567777777654321 10 12345678899999999999999999985 555553
No 196
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=96.74 E-value=0.0058 Score=53.90 Aligned_cols=127 Identities=13% Similarity=0.102 Sum_probs=74.2
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC-----CCCHHHHHHHHHHHhCCCCCC------CCCCHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD-----DFDVFRLTKTILISIVPDQNV------DNHNLN 282 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~-----~~~~~~~~~~il~~l~~~~~~------~~~~~~ 282 (350)
.-.+++|+|..|+|||||++.+..- ...-...++..-.. .....+-..+++..++..... +...-.
T Consensus 38 ~ge~~glVGESG~GKSTlgr~i~~L---~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ 114 (268)
T COG4608 38 EGETLGLVGESGCGKSTLGRLILGL---EEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ 114 (268)
T ss_pred CCCEEEEEecCCCCHHHHHHHHHcC---cCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence 3468999999999999999999874 22222223322111 112334566667766643311 111112
Q ss_pred HHHHHHHHHcCCceEEEEEeCCCCCC-cccHhhhcCccCC--CCCCceEEEecCChhHHHhcCC
Q 048163 283 KLQEELKKKLSGKIFLLVLDDVWNEN-YNDWDRLRPPFEA--GAPGSKIIVTARNQEVAAIMGT 343 (350)
Q Consensus 283 ~~~~~l~~~l~~kr~LlVlDdv~~~~-~~~~~~l~~~l~~--~~~gs~iivTtr~~~va~~~~~ 343 (350)
.-.-.+.+.|.-+.-|+|+|+.-+.- .....++...|.+ ...|-..+..|.+-+|+..++.
T Consensus 115 rQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~isd 178 (268)
T COG4608 115 RQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYISD 178 (268)
T ss_pred hhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhcc
Confidence 22234667778889999999984431 1112233333321 2457788888999999888764
No 197
>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide. The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.
Probab=96.71 E-value=0.0035 Score=55.82 Aligned_cols=78 Identities=18% Similarity=0.218 Sum_probs=63.1
Q ss_pred HHHHHHHHHHhhHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHH-HhcccCChHHHHHHHHHHHHhhchhhhhhhHHH
Q 048163 11 ASVDLLVNKLASEGIRLFARQEQIQADLKKWKNMLVMIKAVLADA-EEKKTTDQSVKLWLGELQNLAYDVEDLLDEFQT 88 (350)
Q Consensus 11 ~~~~~l~~~l~~~~~~~~~~~~~v~~~~~~L~~~l~~i~~~l~~a-~~~~~~~~~~~~Wl~~lr~~ay~~eD~lD~~~~ 88 (350)
+.+..++++|..+...+..+..-++.+++-++.+++.+|.||+.. ++....-...+.++.++-..||++|+++|-|..
T Consensus 296 GyVdFlL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDaCi~ 374 (402)
T PF12061_consen 296 GYVDFLLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDACIS 374 (402)
T ss_pred cHHHHHHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeehhhc
Confidence 456677778877766666667778999999999999999999976 443433333899999999999999999999854
No 198
>PRK05439 pantothenate kinase; Provisional
Probab=96.71 E-value=0.014 Score=53.17 Aligned_cols=84 Identities=15% Similarity=0.003 Sum_probs=44.0
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKK 291 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~ 291 (350)
.+..-+|+|.|.+|+||||+|+.+..-.........+.-++...-+...+.+..- ..+.....++.-+.+.+...|...
T Consensus 83 ~~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy~~~~~l~~~-~l~~~kg~Pes~D~~~l~~~L~~L 161 (311)
T PRK05439 83 QKVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFLYPNAVLEER-GLMKRKGFPESYDMRALLRFLSDV 161 (311)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccccCHHHHhhh-hccccCCCcccccHHHHHHHHHHH
Confidence 4567899999999999999999887632111011223334443332222221110 001111112455666666666666
Q ss_pred cCCce
Q 048163 292 LSGKI 296 (350)
Q Consensus 292 l~~kr 296 (350)
..++.
T Consensus 162 k~G~~ 166 (311)
T PRK05439 162 KSGKP 166 (311)
T ss_pred HcCCC
Confidence 65554
No 199
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.70 E-value=0.0073 Score=56.47 Aligned_cols=90 Identities=16% Similarity=0.089 Sum_probs=49.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLS 293 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~ 293 (350)
-.++.++|+.|+||||++.++............+..++.... ....+-++...+.++.... ...+..++...+.+ +.
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~-~~~~~~~l~~~l~~-l~ 214 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH-AVKDGGDLQLALAE-LR 214 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE-ecCCcccHHHHHHH-hc
Confidence 478999999999999999999875321111123444543321 2345555555555554332 22222333333333 34
Q ss_pred CceEEEEEeCCCCC
Q 048163 294 GKIFLLVLDDVWNE 307 (350)
Q Consensus 294 ~kr~LlVlDdv~~~ 307 (350)
++ -+|++|.....
T Consensus 215 ~~-DlVLIDTaG~~ 227 (374)
T PRK14722 215 NK-HMVLIDTIGMS 227 (374)
T ss_pred CC-CEEEEcCCCCC
Confidence 44 45558887543
No 200
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.0075 Score=58.64 Aligned_cols=97 Identities=18% Similarity=0.267 Sum_probs=59.8
Q ss_pred cccccchhhHHHHHHHHhc---CCC---CCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHH
Q 048163 188 AKVYGRETEKKDVVELLLR---DDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFR 261 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~---~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~ 261 (350)
.++=|.++.+.+|.+++.. ++. .+-...+-|.++||+|.|||.||+.+..... -.| +.++.+
T Consensus 190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~--vPf-----~~isAp----- 257 (802)
T KOG0733|consen 190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELG--VPF-----LSISAP----- 257 (802)
T ss_pred hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcC--Cce-----Eeecch-----
Confidence 4466788877777776653 221 1224567899999999999999999998632 222 222221
Q ss_pred HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCC
Q 048163 262 LTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVW 305 (350)
Q Consensus 262 ~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~ 305 (350)
+|+..+. ..+...+.+-+.+..+.-.|++++|++.
T Consensus 258 ---eivSGvS------GESEkkiRelF~~A~~~aPcivFiDeID 292 (802)
T KOG0733|consen 258 ---EIVSGVS------GESEKKIRELFDQAKSNAPCIVFIDEID 292 (802)
T ss_pred ---hhhcccC------cccHHHHHHHHHHHhccCCeEEEeeccc
Confidence 2232222 2233334444455556678999999994
No 201
>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=96.70 E-value=0.016 Score=51.93 Aligned_cols=130 Identities=19% Similarity=0.128 Sum_probs=67.7
Q ss_pred hHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCC-C
Q 048163 196 EKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPD-Q 274 (350)
Q Consensus 196 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~-~ 274 (350)
..+.++..|.... ....+.|+|+.|+|||||.+.+.... ......+++.-.. ....+-..++......- +
T Consensus 97 ~~~~~l~~l~~~~-----~~~~~~i~g~~g~GKttl~~~l~~~~---~~~~G~i~~~g~~-v~~~d~~~ei~~~~~~~~q 167 (270)
T TIGR02858 97 AADKLLPYLVRNN-----RVLNTLIISPPQCGKTTLLRDLARIL---STGISQLGLRGKK-VGIVDERSEIAGCVNGVPQ 167 (270)
T ss_pred cHHHHHHHHHhCC-----CeeEEEEEcCCCCCHHHHHHHHhCcc---CCCCceEEECCEE-eecchhHHHHHHHhccccc
Confidence 3455555555332 35789999999999999999998742 2222333332111 11111112222221111 1
Q ss_pred CC-----CC-CCHHHHHHHHHHHc-CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChhHHHh
Q 048163 275 NV-----DN-HNLNKLQEELKKKL-SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQEVAAI 340 (350)
Q Consensus 275 ~~-----~~-~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~~ 340 (350)
.. +. .+... ...+...+ ....=++++|++-. ...+..+...+ ..|..+|+||.+.++...
T Consensus 168 ~~~~~r~~v~~~~~k-~~~~~~~i~~~~P~villDE~~~--~e~~~~l~~~~---~~G~~vI~ttH~~~~~~~ 234 (270)
T TIGR02858 168 HDVGIRTDVLDGCPK-AEGMMMLIRSMSPDVIVVDEIGR--EEDVEALLEAL---HAGVSIIATAHGRDVEDL 234 (270)
T ss_pred ccccccccccccchH-HHHHHHHHHhCCCCEEEEeCCCc--HHHHHHHHHHH---hCCCEEEEEechhHHHHH
Confidence 10 00 11111 11222222 25788999999843 34455554444 247899999998877543
No 202
>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=96.69 E-value=0.012 Score=56.21 Aligned_cols=25 Identities=32% Similarity=0.363 Sum_probs=21.6
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+.++.++|++|+||||++..++..
T Consensus 98 ~p~vi~~vG~~GsGKTTtaakLA~~ 122 (428)
T TIGR00959 98 PPTVILMVGLQGSGKTTTCGKLAYY 122 (428)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHH
Confidence 4689999999999999998877654
No 203
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=96.68 E-value=0.02 Score=52.56 Aligned_cols=128 Identities=16% Similarity=0.190 Sum_probs=66.1
Q ss_pred hHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccC-----ceeEEEeCCCCCHHHHHHHHHHHh
Q 048163 196 EKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFD-----LKAWTCVSDDFDVFRLTKTILISI 270 (350)
Q Consensus 196 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~-----~~~wv~~~~~~~~~~~~~~il~~l 270 (350)
..++|...+.... -...+.++|+.|+||+++|..+....--.+... ++-|+..+..+|...+. .
T Consensus 12 ~~~~l~~~~~~~r-----l~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~------~ 80 (319)
T PRK08769 12 AYDQTVAALDAGR-----LGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVS------F 80 (319)
T ss_pred HHHHHHHHHHcCC-----cceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEe------c
Confidence 3556666665433 356789999999999999998875421111010 00011111111100000 0
Q ss_pred CCCCCC----CCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 271 VPDQNV----DNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 271 ~~~~~~----~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
..+... .....+++. .+.+.+ .+++-++|+|++...+...-+.+...|-.-..++.+|++|.+.
T Consensus 81 ~p~~~~~k~~~~I~idqIR-~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~ 153 (319)
T PRK08769 81 IPNRTGDKLRTEIVIEQVR-EISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQP 153 (319)
T ss_pred CCCcccccccccccHHHHH-HHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECCh
Confidence 000000 001122222 222222 2567799999997777677888888886545677777777653
No 204
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). 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=96.68 E-value=0.0073 Score=50.25 Aligned_cols=122 Identities=18% Similarity=0.132 Sum_probs=60.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC--CCHHHHHHHHHHHhCCCCCCCC-------CCHHH-H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD--FDVFRLTKTILISIVPDQNVDN-------HNLNK-L 284 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~il~~l~~~~~~~~-------~~~~~-~ 284 (350)
-.+++|.|+.|.|||||.+.++.-.. .....+++.-... ...... +..+..+......-. -+-.+ .
T Consensus 28 G~~~~l~G~nGsGKstLl~~i~G~~~---~~~G~i~~~g~~~~~~~~~~~-~~~i~~~~~~~~~~~~t~~e~lLS~G~~~ 103 (171)
T cd03228 28 GEKVAIVGPSGSGKSTLLKLLLRLYD---PTSGEILIDGVDLRDLDLESL-RKNIAYVPQDPFLFSGTIRENILSGGQRQ 103 (171)
T ss_pred CCEEEEECCCCCCHHHHHHHHHcCCC---CCCCEEEECCEEhhhcCHHHH-HhhEEEEcCCchhccchHHHHhhCHHHHH
Confidence 46899999999999999999986421 2233333321110 011111 111100000000000 01111 1
Q ss_pred HHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCCCCCCceEEEecCChhHHHh
Q 048163 285 QEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEAGAPGSKIIVTARNQEVAAI 340 (350)
Q Consensus 285 ~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~~ 340 (350)
.-.+...+-.+.-+++||+-... +......+...+.....+..||++|.+.+....
T Consensus 104 rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~ 160 (171)
T cd03228 104 RIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD 160 (171)
T ss_pred HHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh
Confidence 12345555567789999998432 222233343433322235788999998877654
No 205
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=96.68 E-value=0.0033 Score=52.67 Aligned_cols=22 Identities=41% Similarity=0.531 Sum_probs=20.1
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.|.|.|++|+||||+|+.+.+.
T Consensus 2 riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999999876
No 206
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.66 E-value=0.02 Score=53.66 Aligned_cols=25 Identities=36% Similarity=0.444 Sum_probs=22.1
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++|+++|++|+||||++..+...
T Consensus 240 ~~~vI~LVGptGvGKTTTiaKLA~~ 264 (436)
T PRK11889 240 EVQTIALIGPTGVGKTTTLAKMAWQ 264 (436)
T ss_pred CCcEEEEECCCCCcHHHHHHHHHHH
Confidence 4579999999999999999998764
No 207
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=96.65 E-value=0.013 Score=54.24 Aligned_cols=92 Identities=20% Similarity=0.139 Sum_probs=58.3
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhcccc----ccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--------CCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQV----QDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--------DNHN 280 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--------~~~~ 280 (350)
+.-.+.-|+|++|+|||+|+.+++-.... .+.-..++|++....|+...+.+ +++.++..... ...+
T Consensus 124 ~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~ 202 (344)
T PLN03187 124 ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYT 202 (344)
T ss_pred CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCC
Confidence 45688889999999999999998643221 12224689999999999777644 55555543210 2233
Q ss_pred HHHHH---HHHHHHc-CCceEEEEEeCCC
Q 048163 281 LNKLQ---EELKKKL-SGKIFLLVLDDVW 305 (350)
Q Consensus 281 ~~~~~---~~l~~~l-~~kr~LlVlDdv~ 305 (350)
.+.+. ..+...+ ..+--|||+|.+-
T Consensus 203 ~e~~~~~l~~l~~~i~~~~~~LvVIDSit 231 (344)
T PLN03187 203 YEHQYNLLLGLAAKMAEEPFRLLIVDSVI 231 (344)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence 44333 3333333 2345689999993
No 208
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=96.65 E-value=0.011 Score=54.68 Aligned_cols=91 Identities=19% Similarity=0.130 Sum_probs=57.9
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccc----cccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--------CCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ----DHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--------DNHN 280 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--------~~~~ 280 (350)
+.-.++-|.|++|+|||+|+..++-..... ..-..++|++....|+...+ .+|++.++..... ...+
T Consensus 121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~ 199 (342)
T PLN03186 121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYN 199 (342)
T ss_pred cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCC
Confidence 456888899999999999999887432211 11236899999999987765 4556655543210 1233
Q ss_pred HHHHHHHH---HHHc-CCceEEEEEeCC
Q 048163 281 LNKLQEEL---KKKL-SGKIFLLVLDDV 304 (350)
Q Consensus 281 ~~~~~~~l---~~~l-~~kr~LlVlDdv 304 (350)
.+.+...+ ...+ ..+--|||+|.+
T Consensus 200 ~e~~~~ll~~~~~~~~~~~~~LIVIDSI 227 (342)
T PLN03186 200 TDHQSELLLEAASMMAETRFALMIVDSA 227 (342)
T ss_pred HHHHHHHHHHHHHHhhccCCCEEEEeCc
Confidence 44333333 2223 345679999999
No 209
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.63 E-value=0.016 Score=55.50 Aligned_cols=90 Identities=17% Similarity=0.110 Sum_probs=47.7
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHH
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIVPDQNV--DNHNLNKLQEELK 289 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~ 289 (350)
..+.+|.++|+.|+||||++..++...... .+ .+.-|++... ....+-+..+..+++.+... ...+.........
T Consensus 93 ~~p~vI~lvG~~GsGKTTtaakLA~~L~~~-g~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al 170 (437)
T PRK00771 93 LKPQTIMLVGLQGSGKTTTAAKLARYFKKK-GL-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGL 170 (437)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHHHHHHc-CC-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence 357899999999999999999998753322 22 2333433221 12344555556655443221 1123233222222
Q ss_pred HHcCCceEEEEEeCCC
Q 048163 290 KKLSGKIFLLVLDDVW 305 (350)
Q Consensus 290 ~~l~~kr~LlVlDdv~ 305 (350)
+.+.+. =+||+|...
T Consensus 171 ~~~~~~-DvVIIDTAG 185 (437)
T PRK00771 171 EKFKKA-DVIIVDTAG 185 (437)
T ss_pred HHhhcC-CEEEEECCC
Confidence 223333 457777763
No 210
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=96.62 E-value=0.025 Score=53.29 Aligned_cols=103 Identities=22% Similarity=0.248 Sum_probs=58.4
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLS 293 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~ 293 (350)
....+.|||+.|.|||.|++.+.+. ...+......+.+ +..+++.+++..+... -.+.+++..
T Consensus 112 ~~nplfi~G~~GlGKTHLl~Aign~--~~~~~~~a~v~y~----~se~f~~~~v~a~~~~----------~~~~Fk~~y- 174 (408)
T COG0593 112 AYNPLFIYGGVGLGKTHLLQAIGNE--ALANGPNARVVYL----TSEDFTNDFVKALRDN----------EMEKFKEKY- 174 (408)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHHH--HHhhCCCceEEec----cHHHHHHHHHHHHHhh----------hHHHHHHhh-
Confidence 5788999999999999999999986 3344442222222 3345555555554331 233455555
Q ss_pred CceEEEEEeCCCCCC-cccHhh-hcCccCC-CCCCceEEEecCC
Q 048163 294 GKIFLLVLDDVWNEN-YNDWDR-LRPPFEA-GAPGSKIIVTARN 334 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~iivTtr~ 334 (350)
.-=++++||++-.. .+.|.. +...|-. ...|..||+|++.
T Consensus 175 -~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr 217 (408)
T COG0593 175 -SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDR 217 (408)
T ss_pred -ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCC
Confidence 33488899995421 112222 2222210 1234488888854
No 211
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=96.62 E-value=0.0045 Score=57.22 Aligned_cols=27 Identities=26% Similarity=0.302 Sum_probs=24.5
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-+.+..++|||++|.|||.+|+.+++.
T Consensus 145 ik~PlgllL~GPPGcGKTllAraiA~e 171 (413)
T PLN00020 145 IKVPLILGIWGGKGQGKSFQCELVFKK 171 (413)
T ss_pred CCCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 456789999999999999999999986
No 212
>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.61 E-value=0.017 Score=49.66 Aligned_cols=131 Identities=15% Similarity=0.134 Sum_probs=74.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccc-------------------cccCceeEEEeCCCC-----CHHHHHHHHHHHh
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQ-------------------DHFDLKAWTCVSDDF-----DVFRLTKTILISI 270 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~-------------------~~F~~~~wv~~~~~~-----~~~~~~~~il~~l 270 (350)
--+-+|.||.|+|||||+..+.-++.++ ......+++..-.|. +..++++...+..
T Consensus 30 GEvhaiMGPNGsGKSTLa~~i~G~p~Y~Vt~G~I~~~GedI~~l~~~ERAr~GifLafQ~P~ei~GV~~~~fLr~a~n~~ 109 (251)
T COG0396 30 GEVHAIMGPNGSGKSTLAYTIMGHPKYEVTEGEILFDGEDILELSPDERARAGIFLAFQYPVEIPGVTNSDFLRAAMNAR 109 (251)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCCCceEecceEEECCcccccCCHhHHHhcCCEEeecCCccCCCeeHHHHHHHHHHhh
Confidence 3577899999999999999997655321 111223344333332 3344444333332
Q ss_pred CCCCC----------------------------CCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhc---Ccc
Q 048163 271 VPDQN----------------------------VDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLR---PPF 319 (350)
Q Consensus 271 ~~~~~----------------------------~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~---~~l 319 (350)
..... ...+.=+.-...+.+.+--+.-|.|||...+- .+.+.+. ..+
T Consensus 110 ~~~~~~~~~~~~~~~e~~~~l~~~~~~l~R~vN~GFSGGEkKR~EilQ~~~lePkl~ILDE~DSG--LDIdalk~V~~~i 187 (251)
T COG0396 110 RGARGILPEFIKELKEKAELLGLDEEFLERYVNEGFSGGEKKRNEILQLLLLEPKLAILDEPDSG--LDIDALKIVAEGI 187 (251)
T ss_pred hccccccHHHHHHHHHHHHHcCCCHHHhhcccCCCcCcchHHHHHHHHHHhcCCCEEEecCCCcC--ccHHHHHHHHHHH
Confidence 22110 01111122334455555566789999999553 3444332 222
Q ss_pred C-CCCCCceEEEecCChhHHHhcCCCCce
Q 048163 320 E-AGAPGSKIIVTARNQEVAAIMGTVRAY 347 (350)
Q Consensus 320 ~-~~~~gs~iivTtr~~~va~~~~~~~~~ 347 (350)
. -..+|+-+|+.|+...++..+.+...|
T Consensus 188 ~~lr~~~~~~liITHy~rll~~i~pD~vh 216 (251)
T COG0396 188 NALREEGRGVLIITHYQRLLDYIKPDKVH 216 (251)
T ss_pred HHHhcCCCeEEEEecHHHHHhhcCCCEEE
Confidence 1 123578889999999999988766554
No 213
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=96.61 E-value=0.0021 Score=61.51 Aligned_cols=51 Identities=25% Similarity=0.201 Sum_probs=36.9
Q ss_pred cccccchhhHHHHHHHHhcCCC-------CCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDL-------SNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++.|.+..+++|.+.+.-+-. .+-.....+.++|++|+|||++|+.+++.
T Consensus 183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~e 240 (438)
T PTZ00361 183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANE 240 (438)
T ss_pred HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence 4567888888888776642110 01234567889999999999999999985
No 214
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=96.59 E-value=0.0055 Score=56.19 Aligned_cols=92 Identities=18% Similarity=0.190 Sum_probs=58.1
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccc----cccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--------CCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ----DHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--------DNHN 280 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--------~~~~ 280 (350)
+.-.++-|+|++|+|||+|+.+++-..... ..=..++|++....|+...+. ++++.++..... ...+
T Consensus 94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~~ 172 (313)
T TIGR02238 94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAYT 172 (313)
T ss_pred cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCCC
Confidence 456888999999999999999876432211 122468999999988887764 355555443210 1223
Q ss_pred HHHHH---HHHHHHc-CCceEEEEEeCCC
Q 048163 281 LNKLQ---EELKKKL-SGKIFLLVLDDVW 305 (350)
Q Consensus 281 ~~~~~---~~l~~~l-~~kr~LlVlDdv~ 305 (350)
.+... ..+...+ .++--|||+|.+-
T Consensus 173 ~e~~~~~l~~l~~~i~~~~~~LvVIDSis 201 (313)
T TIGR02238 173 SEHQMELLDYLAAKFSEEPFRLLIVDSIM 201 (313)
T ss_pred HHHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence 33333 3344344 3455689999993
No 215
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=96.59 E-value=0.0028 Score=50.78 Aligned_cols=108 Identities=19% Similarity=0.145 Sum_probs=59.3
Q ss_pred ccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccc-ccccCceeEEEeCCCCCHHHHHHHHHHH
Q 048163 191 YGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQV-QDHFDLKAWTCVSDDFDVFRLTKTILIS 269 (350)
Q Consensus 191 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~-~~~F~~~~wv~~~~~~~~~~~~~~il~~ 269 (350)
||....+.++.+.+..-. ....-|.|.|..|+||+++|+.++..... ...|... .+..
T Consensus 1 vG~S~~~~~l~~~l~~~a----~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~-------------- 59 (138)
T PF14532_consen 1 VGKSPAMRRLRRQLERLA----KSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCAS-------------- 59 (138)
T ss_dssp --SCHHHHHHHHHHHHHH----CSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHC--------------
T ss_pred CCCCHHHHHHHHHHHHHh----CCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhh--------------
Confidence 355555566665554321 12356789999999999999998875321 1222210 0000
Q ss_pred hCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCC-CCCceEEEecCCh
Q 048163 270 IVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAG-APGSKIIVTARNQ 335 (350)
Q Consensus 270 l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~iivTtr~~ 335 (350)
.+ .+.+.. .+.--|+|+|+..-+......+...+... ....|+|.||...
T Consensus 60 ---------~~----~~~l~~---a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~ 110 (138)
T PF14532_consen 60 ---------LP----AELLEQ---AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD 110 (138)
T ss_dssp ---------TC----HHHHHH---CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred ---------Cc----HHHHHH---cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence 01 111111 14455778999766656666666666432 4577999988753
No 216
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=96.58 E-value=0.095 Score=42.32 Aligned_cols=82 Identities=15% Similarity=0.194 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhcc-cCChHHHHHHHHHHHHhhchhhhh
Q 048163 5 GEAILTASVDLLVNKLASEGIRLFARQEQIQADLKKWKNMLVMIKAVLADAEEKK-TTDQSVKLWLGELQNLAYDVEDLL 83 (350)
Q Consensus 5 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~v~~~~~~L~~~l~~i~~~l~~a~~~~-~~~~~~~~Wl~~lr~~ay~~eD~l 83 (350)
|+.+..+++|.+++.|...+..........+.-+++|...++.|..++.+.+.-+ ..+..-+.=+++|.+...++++++
T Consensus 3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV 82 (147)
T PF05659_consen 3 AELVGGAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELV 82 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHH
Confidence 4555566666666666666666666677778889999999999999999887754 333333677888899999999999
Q ss_pred hhH
Q 048163 84 DEF 86 (350)
Q Consensus 84 D~~ 86 (350)
..|
T Consensus 83 ~k~ 85 (147)
T PF05659_consen 83 EKC 85 (147)
T ss_pred HHh
Confidence 988
No 217
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.01 Score=53.40 Aligned_cols=79 Identities=15% Similarity=0.264 Sum_probs=48.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcc--ccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDK--QVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~--~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l 292 (350)
-++|.++||+|.|||+|++.++... +..+.|....-+.+.. ..++.+=... ...-...+-+.+.+.+
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins----hsLFSKWFsE-------SgKlV~kmF~kI~ELv 245 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS----HSLFSKWFSE-------SGKLVAKMFQKIQELV 245 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh----hHHHHHHHhh-------hhhHHHHHHHHHHHHH
Confidence 4789999999999999999999874 3445555544444432 1122211111 2334455556666666
Q ss_pred CCce--EEEEEeCC
Q 048163 293 SGKI--FLLVLDDV 304 (350)
Q Consensus 293 ~~kr--~LlVlDdv 304 (350)
.++. .++.+|+|
T Consensus 246 ~d~~~lVfvLIDEV 259 (423)
T KOG0744|consen 246 EDRGNLVFVLIDEV 259 (423)
T ss_pred hCCCcEEEEEeHHH
Confidence 5544 45668998
No 218
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.57 E-value=0.012 Score=56.33 Aligned_cols=24 Identities=29% Similarity=0.396 Sum_probs=20.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++.++|++|+||||++..+...
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~ 244 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAAR 244 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999988887654
No 219
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.55 E-value=0.01 Score=55.41 Aligned_cols=75 Identities=21% Similarity=0.155 Sum_probs=38.1
Q ss_pred CeEEEEEeecCCCchH-HHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKT-TLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIVPDQNVDNHNLNKLQEELKK 290 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKT-tLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~ 290 (350)
+-++|.++||-||||| |||+.-.......++. .+..++.... ..+.+=++...+-++.+-. -..+..++...+..
T Consensus 202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~-kVaiITtDtYRIGA~EQLk~Ya~im~vp~~-vv~~~~el~~ai~~ 278 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKK-KVAIITTDTYRIGAVEQLKTYADIMGVPLE-VVYSPKELAEAIEA 278 (407)
T ss_pred cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCc-ceEEEEeccchhhHHHHHHHHHHHhCCceE-EecCHHHHHHHHHH
Confidence 4799999999999999 5666554432122222 2344444332 1333333334444444332 23344444444333
No 220
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=96.55 E-value=0.023 Score=49.15 Aligned_cols=57 Identities=12% Similarity=0.193 Sum_probs=35.4
Q ss_pred HHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCC--CCCCceEEEecCChhHHHhc
Q 048163 285 QEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEA--GAPGSKIIVTARNQEVAAIM 341 (350)
Q Consensus 285 ~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~iivTtr~~~va~~~ 341 (350)
.-.+.+.|-...-+|+.|+=--. +...=+.+...|.. ...|..||+.|++..+|..+
T Consensus 150 RVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~ 209 (226)
T COG1136 150 RVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYA 209 (226)
T ss_pred HHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhC
Confidence 34566777777888888876111 11112223333332 24588999999999999864
No 221
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=96.54 E-value=0.016 Score=50.75 Aligned_cols=27 Identities=30% Similarity=0.390 Sum_probs=23.8
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.....+++|.|+.|+|||||++.+...
T Consensus 30 ~~~~~iigi~G~~GsGKTTl~~~L~~~ 56 (229)
T PRK09270 30 PQRRTIVGIAGPPGAGKSTLAEFLEAL 56 (229)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 346799999999999999999998865
No 222
>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=96.54 E-value=0.0083 Score=49.52 Aligned_cols=118 Identities=16% Similarity=0.098 Sum_probs=61.2
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC--CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD--DFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~--~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l 292 (350)
-.+++|.|+.|+|||||.+.+.... ......+++.-.. ..+..+..+. .+.. .. +-+.-+...-.+.+.+
T Consensus 26 Ge~~~l~G~nGsGKSTLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~~~---~i~~-~~-qLS~G~~qrl~laral 97 (163)
T cd03216 26 GEVHALLGENGAGKSTLMKILSGLY---KPDSGEILVDGKEVSFASPRDARRA---GIAM-VY-QLSVGERQMVEIARAL 97 (163)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEECCcCCHHHHHhc---CeEE-EE-ecCHHHHHHHHHHHHH
Confidence 3689999999999999999998642 2233344432211 1111111110 1110 00 1111122233455555
Q ss_pred CCceEEEEEeCCCCC-CcccHhhhcCccCC-CCCCceEEEecCChhHHHh
Q 048163 293 SGKIFLLVLDDVWNE-NYNDWDRLRPPFEA-GAPGSKIIVTARNQEVAAI 340 (350)
Q Consensus 293 ~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTtr~~~va~~ 340 (350)
-.+.-++++|+--.. +......+...+.. ...|..||++|++.+.+..
T Consensus 98 ~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~~ 147 (163)
T cd03216 98 ARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVFE 147 (163)
T ss_pred hcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence 566788889998432 22233334444432 1346788889998765443
No 223
>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=96.53 E-value=0.0021 Score=54.75 Aligned_cols=79 Identities=23% Similarity=0.202 Sum_probs=42.4
Q ss_pred EEEEeecCCCchHHHHHHHHhccccccccC---ceeEEEeCCCCCHHHHHHHHHHHhCCC---CCCCCCCHHHHHHHHHH
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQVQDHFD---LKAWTCVSDDFDVFRLTKTILISIVPD---QNVDNHNLNKLQEELKK 290 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~---~~~wv~~~~~~~~~~~~~~il~~l~~~---~~~~~~~~~~~~~~l~~ 290 (350)
+|+|.|++|+||||+|+.+...... ..+. ....++...... ..-....-...... ..+...+.+.+.+.|..
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~L~~-~~~~~~~~~~~~~~d~~~~-~~~~~~~~~~~~~~~~~~~p~a~d~~~l~~~l~~ 78 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQILNK-RGIPAMEMDIILSLDDFYD-DYHLRDRKGRGENRYNFDHPDAFDFDLLKEDLKA 78 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTT-CTTTCCCSEEEEEGGGGBH-HHHHHHHHHHCTTTSSTTSGGGBSHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCc-cCcCccceeEEEeeccccc-ccchhhHhhccccccCCCCccccCHHHHHHHHHH
Confidence 6899999999999999999875321 1122 122222222221 11111111111111 12256777888888877
Q ss_pred HcCCceE
Q 048163 291 KLSGKIF 297 (350)
Q Consensus 291 ~l~~kr~ 297 (350)
..+++..
T Consensus 79 L~~g~~i 85 (194)
T PF00485_consen 79 LKNGGSI 85 (194)
T ss_dssp HHTTSCE
T ss_pred HhCCCcc
Confidence 6666543
No 224
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=96.53 E-value=0.023 Score=47.46 Aligned_cols=59 Identities=14% Similarity=0.247 Sum_probs=39.1
Q ss_pred HHHHHHHHcCCceEEEEEeCCCC--CCcccHhhhcCccCCCCCCceEEEecCChhHHHhcC
Q 048163 284 LQEELKKKLSGKIFLLVLDDVWN--ENYNDWDRLRPPFEAGAPGSKIIVTARNQEVAAIMG 342 (350)
Q Consensus 284 ~~~~l~~~l~~kr~LlVlDdv~~--~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~~~~ 342 (350)
-.-.+.+.+-++.-||+-|+=-- +....|+.+.-.-.-+..|..||+.|.+.++-..+.
T Consensus 144 QRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~ 204 (223)
T COG2884 144 QRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMR 204 (223)
T ss_pred HHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhcc
Confidence 33456666667888888886511 112456655443334567999999999999887764
No 225
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=96.53 E-value=0.033 Score=51.14 Aligned_cols=126 Identities=13% Similarity=0.111 Sum_probs=67.4
Q ss_pred hHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCC---
Q 048163 196 EKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVP--- 272 (350)
Q Consensus 196 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~--- 272 (350)
..+++...+.... -...+.+.|+.|+||+++|..+....--.+.-. .+.+.-...+.+...-..
T Consensus 11 ~~~~l~~~~~~~r-----l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~--------~~Cg~C~sC~~~~~g~HPD~~ 77 (319)
T PRK06090 11 VWQNWKAGLDAGR-----IPGALLLQSDEGLGVESLVELFSRALLCQNYQS--------EACGFCHSCELMQSGNHPDLH 77 (319)
T ss_pred HHHHHHHHHHcCC-----cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCC--------CCCCCCHHHHHHHcCCCCCEE
Confidence 3455666664433 457889999999999999999865321111000 000000001111110000
Q ss_pred ----CCCCCCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 273 ----DQNVDNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 273 ----~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
......-..++.. .+.+.+ .+++-++|+|++...+....+.+...|-.-..++.+|++|.+.
T Consensus 78 ~i~p~~~~~~I~vdqiR-~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~ 148 (319)
T PRK06090 78 VIKPEKEGKSITVEQIR-QCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQ 148 (319)
T ss_pred EEecCcCCCcCCHHHHH-HHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence 0000112233332 222332 2456689999998777788999999886555677777766654
No 226
>PRK05480 uridine/cytidine kinase; Provisional
Probab=96.52 E-value=0.0024 Score=55.08 Aligned_cols=26 Identities=38% Similarity=0.560 Sum_probs=23.3
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+..+|+|.|++|+|||||++.++..
T Consensus 4 ~~~~iI~I~G~sGsGKTTl~~~l~~~ 29 (209)
T PRK05480 4 KKPIIIGIAGGSGSGKTTVASTIYEE 29 (209)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 35689999999999999999999875
No 227
>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=96.51 E-value=0.0023 Score=57.44 Aligned_cols=34 Identities=29% Similarity=0.496 Sum_probs=26.2
Q ss_pred HHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 198 KDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 198 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+++.+.... +-+.++|+.|+|||++++.....
T Consensus 23 ~~ll~~l~~~~-------~pvLl~G~~GtGKT~li~~~l~~ 56 (272)
T PF12775_consen 23 SYLLDLLLSNG-------RPVLLVGPSGTGKTSLIQNFLSS 56 (272)
T ss_dssp HHHHHHHHHCT-------EEEEEESSTTSSHHHHHHHHHHC
T ss_pred HHHHHHHHHcC-------CcEEEECCCCCchhHHHHhhhcc
Confidence 45666665543 56799999999999999998764
No 228
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=96.51 E-value=0.034 Score=50.12 Aligned_cols=112 Identities=12% Similarity=0.045 Sum_probs=65.5
Q ss_pred HHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccc------------cccCceeEEEeCCCCCHHHHHH
Q 048163 197 KKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ------------DHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 197 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~------------~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
-++|...+.... -.....++|+.|+||+++|..+....--. .|.|. .|+......
T Consensus 6 ~~~L~~~i~~~r-----l~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~-~~i~p~~~~------- 72 (290)
T PRK05917 6 WEALIQRVRDQK-----VPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDI-HEFSPQGKG------- 72 (290)
T ss_pred HHHHHHHHHcCC-----cCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCE-EEEecCCCC-------
Confidence 455666665443 35778899999999999998876542110 11121 111110000
Q ss_pred HHHHHhCCCCCCCCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 265 TILISIVPDQNVDNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 265 ~il~~l~~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
..-..++. +.+.+.+ .+++-++|+|++...+...++.+...|-....++.+|++|.+
T Consensus 73 ------------~~I~idqi-R~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~ 134 (290)
T PRK05917 73 ------------RLHSIETP-RAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAK 134 (290)
T ss_pred ------------CcCcHHHH-HHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCC
Confidence 00122222 2222222 356678899999887878999999988655566676666665
No 229
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.51 E-value=0.021 Score=53.90 Aligned_cols=90 Identities=14% Similarity=0.141 Sum_probs=51.1
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhcccccc--ccCceeEEEeCCCCCH--HHHHHHHHHHhCCCCCCCCCCHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQD--HFDLKAWTCVSDDFDV--FRLTKTILISIVPDQNVDNHNLNKLQEELK 289 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~--~F~~~~wv~~~~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~~~l~ 289 (350)
...++.++|+.|+||||.+.++........ +-..+..+++. ++.. .+-++...+.++.+.. ...+...+...+.
T Consensus 173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~-~~~~~~~l~~~L~ 250 (388)
T PRK12723 173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVK-AIESFKDLKEEIT 250 (388)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceE-eeCcHHHHHHHHH
Confidence 457999999999999999998876532211 11233444443 3332 2334455554544322 2334455555554
Q ss_pred HHcCCceEEEEEeCCCCC
Q 048163 290 KKLSGKIFLLVLDDVWNE 307 (350)
Q Consensus 290 ~~l~~kr~LlVlDdv~~~ 307 (350)
+. .+.-+|++|.....
T Consensus 251 ~~--~~~DlVLIDTaGr~ 266 (388)
T PRK12723 251 QS--KDFDLVLVDTIGKS 266 (388)
T ss_pred Hh--CCCCEEEEcCCCCC
Confidence 43 34567888888543
No 230
>TIGR02239 recomb_RAD51 DNA repair protein RAD51. This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Probab=96.50 E-value=0.0087 Score=54.99 Aligned_cols=91 Identities=19% Similarity=0.111 Sum_probs=55.9
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhcccccc----ccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--------CCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD----HFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--------DNHN 280 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--------~~~~ 280 (350)
+...++.|+|++|+|||+|+.+++....... .-..++|++....++...+ .++.+.++..... ...+
T Consensus 94 ~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l~~i~~~~~~~ 172 (316)
T TIGR02239 94 ETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVLDNVAYARAYN 172 (316)
T ss_pred CCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhhccEEEEecCC
Confidence 4578999999999999999998875322111 1235799999888887653 3444444332210 1223
Q ss_pred HHHH---HHHHHHHcC-CceEEEEEeCC
Q 048163 281 LNKL---QEELKKKLS-GKIFLLVLDDV 304 (350)
Q Consensus 281 ~~~~---~~~l~~~l~-~kr~LlVlDdv 304 (350)
.+++ ...+...+. .+--|||+|.+
T Consensus 173 ~~~~~~~l~~~~~~~~~~~~~LvVIDSI 200 (316)
T TIGR02239 173 TDHQLQLLQQAAAMMSESRFALLIVDSA 200 (316)
T ss_pred hHHHHHHHHHHHHhhccCCccEEEEECc
Confidence 3333 333333343 45669999999
No 231
>PRK07667 uridine kinase; Provisional
Probab=96.50 E-value=0.0041 Score=52.92 Aligned_cols=38 Identities=16% Similarity=0.337 Sum_probs=29.5
Q ss_pred HHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 197 KKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 197 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+.|.+.+..-. +...+|+|.|++|+||||+|+.+...
T Consensus 3 ~~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~~ 40 (193)
T PRK07667 3 TNELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKEN 40 (193)
T ss_pred HHHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 455666665433 34589999999999999999999874
No 232
>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=96.49 E-value=0.018 Score=46.39 Aligned_cols=106 Identities=19% Similarity=0.147 Sum_probs=56.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
-.+++|+|+.|.|||||++.+..... .....+|+.-.. .+..- . +-+.-+...-.+...+-.
T Consensus 26 Ge~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~~~~-------------~i~~~-~-~lS~G~~~rv~laral~~ 87 (144)
T cd03221 26 GDRIGLVGRNGAGKSTLLKLIAGELE---PDEGIVTWGSTV-------------KIGYF-E-QLSGGEKMRLALAKLLLE 87 (144)
T ss_pred CCEEEEECCCCCCHHHHHHHHcCCCC---CCceEEEECCeE-------------EEEEE-c-cCCHHHHHHHHHHHHHhc
Confidence 36899999999999999999876421 222333332100 00000 0 011111122234455555
Q ss_pred ceEEEEEeCCCCC-CcccHhhhcCccCCCCCCceEEEecCChhHHHh
Q 048163 295 KIFLLVLDDVWNE-NYNDWDRLRPPFEAGAPGSKIIVTARNQEVAAI 340 (350)
Q Consensus 295 kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~~ 340 (350)
+.-++++|+--.. +......+...+... +..||++|.+.+.+..
T Consensus 88 ~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~~ 132 (144)
T cd03221 88 NPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLDQ 132 (144)
T ss_pred CCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHHH
Confidence 6778899988332 222333444444322 3478888888776644
No 233
>PTZ00035 Rad51 protein; Provisional
Probab=96.48 E-value=0.022 Score=52.80 Aligned_cols=93 Identities=17% Similarity=0.096 Sum_probs=56.4
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhcccc----ccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC--------CCCC
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQV----QDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN--------VDNH 279 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--------~~~~ 279 (350)
-+.-.++.|+|+.|+|||+|+.+++-.... ...-..++|++....|+...+ .++.+.++.... ....
T Consensus 115 i~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~ 193 (337)
T PTZ00035 115 IETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAY 193 (337)
T ss_pred CCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccC
Confidence 345789999999999999999988754221 112235679998887776663 344444433211 0123
Q ss_pred CHHHHHHH---HHHHc-CCceEEEEEeCCC
Q 048163 280 NLNKLQEE---LKKKL-SGKIFLLVLDDVW 305 (350)
Q Consensus 280 ~~~~~~~~---l~~~l-~~kr~LlVlDdv~ 305 (350)
+.+++... +...+ ..+--|||+|.+.
T Consensus 194 ~~e~~~~~l~~~~~~l~~~~~~lvVIDSit 223 (337)
T PTZ00035 194 NHEHQMQLLSQAAAKMAEERFALLIVDSAT 223 (337)
T ss_pred CHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence 33333333 33333 3455699999994
No 234
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.47 E-value=0.019 Score=55.80 Aligned_cols=25 Identities=32% Similarity=0.376 Sum_probs=21.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+++|+|+.|+||||++.++...
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~ 373 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQR 373 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHH
Confidence 4589999999999999999888754
No 235
>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=96.47 E-value=0.0024 Score=50.02 Aligned_cols=21 Identities=43% Similarity=0.564 Sum_probs=19.3
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|.|.|+.|+||||+|+.+...
T Consensus 1 I~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 689999999999999999875
No 236
>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=96.47 E-value=0.0028 Score=54.60 Aligned_cols=26 Identities=38% Similarity=0.471 Sum_probs=23.1
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+...+|+|+|++|+|||||++.+...
T Consensus 4 ~~g~vi~I~G~sGsGKSTl~~~l~~~ 29 (207)
T TIGR00235 4 PKGIIIGIGGGSGSGKTTVARKIYEQ 29 (207)
T ss_pred CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence 45689999999999999999999864
No 237
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=96.47 E-value=0.0038 Score=50.52 Aligned_cols=44 Identities=23% Similarity=0.250 Sum_probs=33.3
Q ss_pred EEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCC
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPD 273 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~ 273 (350)
+|.|.|++|+||||+|+.+.+..... | .+.-.+|+++++..+..
T Consensus 2 ~ItIsG~pGsG~TTva~~lAe~~gl~--~-----------vsaG~iFR~~A~e~gms 45 (179)
T COG1102 2 VITISGLPGSGKTTVARELAEHLGLK--L-----------VSAGTIFREMARERGMS 45 (179)
T ss_pred EEEeccCCCCChhHHHHHHHHHhCCc--e-----------eeccHHHHHHHHHcCCC
Confidence 68999999999999999998863211 1 24457888888877664
No 238
>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=96.45 E-value=0.015 Score=48.67 Aligned_cols=109 Identities=13% Similarity=-0.020 Sum_probs=55.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCH-HHHHHHHHHHcC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNL-NKLQEELKKKLS 293 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~-~~~~~~l~~~l~ 293 (350)
-.+++|+|+.|+|||||.+.+..-.. .....+++.-.. .. .+ .+. ..-+- +...-.+...+-
T Consensus 25 Ge~~~l~G~nGsGKSTLl~~l~Gl~~---p~~G~i~~~g~~-i~----------~~--~q~-~~LSgGq~qrv~laral~ 87 (177)
T cd03222 25 GEVIGIVGPNGTGKTTAVKILAGQLI---PNGDNDEWDGIT-PV----------YK--PQY-IDLSGGELQRVAIAAALL 87 (177)
T ss_pred CCEEEEECCCCChHHHHHHHHHcCCC---CCCcEEEECCEE-EE----------EE--ccc-CCCCHHHHHHHHHHHHHh
Confidence 46899999999999999999876421 122222221100 00 00 000 00111 112233455555
Q ss_pred CceEEEEEeCCCCC-CcccHhhhcCccCCC-CC-CceEEEecCChhHHHh
Q 048163 294 GKIFLLVLDDVWNE-NYNDWDRLRPPFEAG-AP-GSKIIVTARNQEVAAI 340 (350)
Q Consensus 294 ~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~-gs~iivTtr~~~va~~ 340 (350)
.+.=+++||+--.. +......+...+... .. +..||++|++.+....
T Consensus 88 ~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~~ 137 (177)
T cd03222 88 RNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLDY 137 (177)
T ss_pred cCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHHH
Confidence 66788899988332 112222333333221 22 3678888888765553
No 239
>PHA02244 ATPase-like protein
Probab=96.43 E-value=0.012 Score=54.64 Aligned_cols=22 Identities=23% Similarity=0.351 Sum_probs=19.7
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-|.|+|+.|+|||+||+.+...
T Consensus 121 PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 121 PVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4678999999999999999875
No 240
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.42 E-value=0.0042 Score=50.32 Aligned_cols=33 Identities=27% Similarity=0.324 Sum_probs=25.6
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDL 247 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~ 247 (350)
...-|+|.|++|+||||+++.+.+..+..+ |..
T Consensus 4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g-~kv 36 (179)
T COG1618 4 MAMKIFITGRPGVGKTTLVLKIAEKLREKG-YKV 36 (179)
T ss_pred cceEEEEeCCCCccHHHHHHHHHHHHHhcC-cee
Confidence 356789999999999999999997644333 543
No 241
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=96.41 E-value=0.027 Score=46.63 Aligned_cols=117 Identities=14% Similarity=0.072 Sum_probs=59.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcccc-ccc--cC---ceeEEEeCCCCCH--HHHHHHHHHHhCCCCCCCCCCHHHHHH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQV-QDH--FD---LKAWTCVSDDFDV--FRLTKTILISIVPDQNVDNHNLNKLQE 286 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~-~~~--F~---~~~wv~~~~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~~ 286 (350)
-.+++|+|+.|.|||||++.+.-.... .+. |+ .+.++ .+.... ..+...+... ... .-+.-+...-
T Consensus 27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~--~q~~~~~~~tv~~nl~~~---~~~-~LS~G~~~rv 100 (166)
T cd03223 27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFL--PQRPYLPLGTLREQLIYP---WDD-VLSGGEQQRL 100 (166)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEE--CCCCccccccHHHHhhcc---CCC-CCCHHHHHHH
Confidence 468999999999999999999864221 111 11 11222 222111 1222222110 111 1122222333
Q ss_pred HHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCCCCCCceEEEecCChhHHH
Q 048163 287 ELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEAGAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 287 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~ 339 (350)
.+.+.+-.+.=+++||+--.. +......+...+... +..||++|++.+...
T Consensus 101 ~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~ 152 (166)
T cd03223 101 AFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK 152 (166)
T ss_pred HHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh
Confidence 455555566778889987332 222233333333322 467888888877654
No 242
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=96.41 E-value=0.016 Score=59.26 Aligned_cols=133 Identities=14% Similarity=0.068 Sum_probs=72.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHH-H
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKT-I 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~-i 266 (350)
..++|....+..+.+.+..-. ....-|.|.|..|+|||++|+.++..... .-...+.+++.... ...+.. +
T Consensus 376 ~~liG~S~~~~~~~~~~~~~a----~~~~pVLI~GE~GTGK~~lA~~ih~~s~r--~~~~~v~i~c~~~~--~~~~~~~l 447 (686)
T PRK15429 376 GEIIGRSEAMYSVLKQVEMVA----QSDSTVLILGETGTGKELIARAIHNLSGR--NNRRMVKMNCAAMP--AGLLESDL 447 (686)
T ss_pred cceeecCHHHHHHHHHHHHHh----CCCCCEEEECCCCcCHHHHHHHHHHhcCC--CCCCeEEEecccCC--hhHhhhhh
Confidence 368899888888877665432 12357899999999999999999875221 11233445555432 122222 1
Q ss_pred HHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCC-----------CCCceEEEecCC
Q 048163 267 LISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAG-----------APGSKIIVTARN 334 (350)
Q Consensus 267 l~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTtr~ 334 (350)
......... ... ......+. ....=.|+||||..........+...+..+ ....+||.||..
T Consensus 448 fg~~~~~~~-g~~--~~~~g~le---~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~ 520 (686)
T PRK15429 448 FGHERGAFT-GAS--AQRIGRFE---LADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNR 520 (686)
T ss_pred cCccccccc-ccc--cchhhHHH---hcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCC
Confidence 111111110 000 00111111 123456999999776655666666655322 134588888754
No 243
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.38 E-value=0.011 Score=55.80 Aligned_cols=25 Identities=28% Similarity=0.300 Sum_probs=21.9
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...++.++|++|+||||++.++...
T Consensus 222 ~~~vi~lvGptGvGKTTtaaKLA~~ 246 (432)
T PRK12724 222 QRKVVFFVGPTGSGKTTSIAKLAAK 246 (432)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3578999999999999999999764
No 244
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=96.37 E-value=0.0032 Score=50.49 Aligned_cols=22 Identities=36% Similarity=0.480 Sum_probs=19.7
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|.+.|++|+||||+|+.+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~ 22 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKR 22 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5789999999999999999754
No 245
>PRK10867 signal recognition particle protein; Provisional
Probab=96.36 E-value=0.015 Score=55.66 Aligned_cols=25 Identities=36% Similarity=0.428 Sum_probs=21.0
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+.+|.++|++|+||||++..+...
T Consensus 99 ~p~vI~~vG~~GsGKTTtaakLA~~ 123 (433)
T PRK10867 99 PPTVIMMVGLQGAGKTTTAGKLAKY 123 (433)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHH
Confidence 4689999999999999977777653
No 246
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=96.36 E-value=0.023 Score=52.46 Aligned_cols=43 Identities=12% Similarity=0.222 Sum_probs=28.3
Q ss_pred CceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChh
Q 048163 294 GKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQE 336 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~ 336 (350)
+++-++|+|++...+....+.+...+.....++.+|++|.+.+
T Consensus 112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~ 154 (325)
T PRK08699 112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAAD 154 (325)
T ss_pred CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChH
Confidence 4455566798876666667777776654345666777777754
No 247
>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=96.34 E-value=0.015 Score=53.89 Aligned_cols=44 Identities=25% Similarity=0.177 Sum_probs=32.1
Q ss_pred ccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 191 YGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 191 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|....+.++.+.+..-.. .-.-|.|+|..|+||+++|+.++..
T Consensus 2 iG~S~~m~~~~~~~~~~a~----~~~pVLI~GE~GtGK~~lAr~iH~~ 45 (329)
T TIGR02974 2 IGESNAFLEVLEQVSRLAP----LDRPVLIIGERGTGKELIAARLHYL 45 (329)
T ss_pred CcCCHHHHHHHHHHHHHhC----CCCCEEEECCCCChHHHHHHHHHHh
Confidence 5666666666666654321 2356799999999999999999864
No 248
>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=96.33 E-value=0.0073 Score=62.17 Aligned_cols=51 Identities=24% Similarity=0.205 Sum_probs=37.2
Q ss_pred cccccchhhHHHHHHHHhcCC-------CCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDD-------LSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~-------~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++.|.+..++++.+++..+- ..+-...+.+.++|++|+|||+||+.+++.
T Consensus 178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~ 235 (733)
T TIGR01243 178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE 235 (733)
T ss_pred HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH
Confidence 347899988888877764210 001133467889999999999999999885
No 249
>PRK06002 fliI flagellum-specific ATP synthase; Validated
Probab=96.32 E-value=0.019 Score=54.83 Aligned_cols=87 Identities=17% Similarity=0.185 Sum_probs=49.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCC-----CCCCCCCH-----HHH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPD-----QNVDNHNL-----NKL 284 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~-----~~~~~~~~-----~~~ 284 (350)
-..++|+|+.|+|||||++.+..... ....+++..-.....+.++....+...... ...+.... ...
T Consensus 165 Gqri~I~G~SGsGKTTLL~~Ia~l~~---pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~ 241 (450)
T PRK06002 165 GQRIGIFAGSGVGKSTLLAMLARADA---FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLT 241 (450)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCCC---CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHH
Confidence 45799999999999999998876422 223344444333345555555444433111 00011111 112
Q ss_pred HHHHHHHc--CCceEEEEEeCC
Q 048163 285 QEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 285 ~~~l~~~l--~~kr~LlVlDdv 304 (350)
.-.+.+++ ++++.|+++||+
T Consensus 242 a~~iAEyfrd~G~~Vll~~Dsl 263 (450)
T PRK06002 242 ATAIAEYFRDRGENVLLIVDSV 263 (450)
T ss_pred HHHHHHHHHHcCCCEEEeccch
Confidence 22344444 589999999999
No 250
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.0084 Score=59.29 Aligned_cols=70 Identities=26% Similarity=0.264 Sum_probs=47.6
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH---
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKK--- 290 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~--- 290 (350)
...-|.|.|+.|+|||+||+.+++... +++.-....|+++.-- ....+..+..|..
T Consensus 430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~--------------------~~~~e~iQk~l~~vfs 488 (952)
T KOG0735|consen 430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLD--------------------GSSLEKIQKFLNNVFS 488 (952)
T ss_pred ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhcc--------------------chhHHHHHHHHHHHHH
Confidence 346788999999999999999998754 4555556666666521 1223333333333
Q ss_pred -HcCCceEEEEEeCC
Q 048163 291 -KLSGKIFLLVLDDV 304 (350)
Q Consensus 291 -~l~~kr~LlVlDdv 304 (350)
.+....-+|||||+
T Consensus 489 e~~~~~PSiIvLDdl 503 (952)
T KOG0735|consen 489 EALWYAPSIIVLDDL 503 (952)
T ss_pred HHHhhCCcEEEEcch
Confidence 34567889999999
No 251
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=96.30 E-value=0.044 Score=50.77 Aligned_cols=126 Identities=13% Similarity=0.147 Sum_probs=69.1
Q ss_pred hHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhcccccccc---Cc-----eeEEEeCCCCCHHHHHHHHH
Q 048163 196 EKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF---DL-----KAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 196 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F---~~-----~~wv~~~~~~~~~~~~~~il 267 (350)
.-++|...+..+. -...+.+.|+.|+||+++|..+....--.... .| +-++.....+|+..
T Consensus 10 ~~~~l~~~~~~~r-----l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~------ 78 (334)
T PRK07993 10 DYEQLVGSYQAGR-----GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYT------ 78 (334)
T ss_pred HHHHHHHHHHcCC-----cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEE------
Confidence 3456666665443 46788899999999999999876542110000 00 01111111111100
Q ss_pred HHhCCCCCCCCCCHHHHHHHHHHHc-----CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 268 ISIVPDQNVDNHNLNKLQEELKKKL-----SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 268 ~~l~~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
+..+.....-..++..+ +.+.+ .+++-++|+|++...+...-+.+.+.|-.-..++.+|++|.+.
T Consensus 79 --i~p~~~~~~I~idqiR~-l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~ 148 (334)
T PRK07993 79 --LTPEKGKSSLGVDAVRE-VTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREP 148 (334)
T ss_pred --EecccccccCCHHHHHH-HHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence 00000001122333322 22222 3677799999998777788889999886555677777777654
No 252
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=96.30 E-value=0.013 Score=54.08 Aligned_cols=47 Identities=23% Similarity=0.192 Sum_probs=36.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++|....+.++++.+..-.. .-.-|.|.|..|+||+++|+.++..
T Consensus 6 ~~liG~S~~~~~~~~~i~~~a~----~~~pVlI~GE~GtGK~~lA~~iH~~ 52 (326)
T PRK11608 6 DNLLGEANSFLEVLEQVSRLAP----LDKPVLIIGERGTGKELIASRLHYL 52 (326)
T ss_pred CccEECCHHHHHHHHHHHHHhC----CCCCEEEECCCCCcHHHHHHHHHHh
Confidence 3478888888888887765431 2356889999999999999999864
No 253
>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=96.30 E-value=0.021 Score=50.24 Aligned_cols=115 Identities=15% Similarity=0.190 Sum_probs=66.7
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCC---------------C--
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQ---------------N-- 275 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~---------------~-- 275 (350)
+.-.++.|.|++|+|||+++.++.... . ..-..++|++... +..++.+.+. +++... .
T Consensus 19 ~~gs~~lI~G~pGsGKT~la~~~l~~~-~-~~ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~d~~~~~ 93 (237)
T TIGR03877 19 PERNVVLLSGGPGTGKSIFSQQFLWNG-L-QMGEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIVDAFTGG 93 (237)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHH-H-HcCCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEEeccccc
Confidence 457899999999999999999876531 1 2345788888766 4445544432 222110 0
Q ss_pred ------------CCCCCHHHHHHHHHHHcCC-ceEEEEEeCCCCCCccc---H----hhhcCccCCCCCCceEEEecCC
Q 048163 276 ------------VDNHNLNKLQEELKKKLSG-KIFLLVLDDVWNENYND---W----DRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 276 ------------~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~~~~---~----~~l~~~l~~~~~gs~iivTtr~ 334 (350)
....+.+++...+.+.+.. +.-++|+|.+....... . ..+...+ ...|+.+++|+..
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~l~~~~~~~~r~~l~~l~~~l--k~~~~t~llt~~~ 170 (237)
T TIGR03877 94 IGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTTLYITKPAMARSIVMQLKRVL--SGLGCTSIFVSQV 170 (237)
T ss_pred cccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhHhhcCChHHHHHHHHHHHHHH--HhCCCEEEEEECc
Confidence 0124566666777666532 34479999984311111 1 1121122 2468888888754
No 254
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter 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=96.29 E-value=0.012 Score=49.04 Aligned_cols=123 Identities=16% Similarity=0.084 Sum_probs=61.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC-CC--------CCHHH-H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV-DN--------HNLNK-L 284 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~-~~--------~~~~~-~ 284 (350)
-.+++|+|+.|.|||||.+.+.... ......+++.-....+...-++.-+..+...... .. -+-.+ .
T Consensus 26 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G~~q 102 (173)
T cd03230 26 GEIYGLLGPNGAGKTTLIKIILGLL---KPDSGEIKVLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLKLSGGMKQ 102 (173)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEEcccchHhhhccEEEEecCCccccCCcHHHHhhcCHHHHH
Confidence 4689999999999999999997642 1223333332111000000000000000000000 00 11111 1
Q ss_pred HHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCCC-CCCceEEEecCChhHHHh
Q 048163 285 QEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEAG-APGSKIIVTARNQEVAAI 340 (350)
Q Consensus 285 ~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~gs~iivTtr~~~va~~ 340 (350)
.-.+...+-.+.=++++|+--.. +......+...+... ..|..||++|++.+....
T Consensus 103 rv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~~ 160 (173)
T cd03230 103 RLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAER 160 (173)
T ss_pred HHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHH
Confidence 22455556677889999998432 222233344434321 236789999999876654
No 255
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.26 E-value=0.026 Score=52.66 Aligned_cols=91 Identities=14% Similarity=0.060 Sum_probs=52.6
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQNVDNHNLNKLQEELKKK 291 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~ 291 (350)
....++.++|+.|+||||++..+....... -..+.+|++.... ...+-++...+.++.... ...+..++...+...
T Consensus 204 ~~~~ii~lvGptGvGKTTt~akLA~~l~~~--g~~V~lItaDtyR~gAveQLk~yae~lgvpv~-~~~dp~dL~~al~~l 280 (407)
T PRK12726 204 SNHRIISLIGQTGVGKTTTLVKLGWQLLKQ--NRTVGFITTDTFRSGAVEQFQGYADKLDVELI-VATSPAELEEAVQYM 280 (407)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCCccCccHHHHHHHHhhcCCCCEE-ecCCHHHHHHHHHHH
Confidence 457899999999999999999987653212 1235555554322 234445555555544332 234555555555443
Q ss_pred c-CCceEEEEEeCCCC
Q 048163 292 L-SGKIFLLVLDDVWN 306 (350)
Q Consensus 292 l-~~kr~LlVlDdv~~ 306 (350)
- .+..=+|++|-...
T Consensus 281 ~~~~~~D~VLIDTAGr 296 (407)
T PRK12726 281 TYVNCVDHILIDTVGR 296 (407)
T ss_pred HhcCCCCEEEEECCCC
Confidence 2 13345677777744
No 256
>cd03215 ABC_Carb_Monos_II This family represents domain II 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. In members of 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=96.26 E-value=0.015 Score=48.89 Aligned_cols=24 Identities=29% Similarity=0.462 Sum_probs=21.4
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.+++|.|+.|+|||||.+.+...
T Consensus 26 G~~~~i~G~nGsGKSTLl~~l~G~ 49 (182)
T cd03215 26 GEIVGIAGLVGNGQTELAEALFGL 49 (182)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 368999999999999999999864
No 257
>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=96.26 E-value=0.0087 Score=55.93 Aligned_cols=80 Identities=16% Similarity=0.211 Sum_probs=49.1
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL 292 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l 292 (350)
...+-+-|||.-|.|||.|+-.+|+...++.. ....-..++.++-+.+..... ....+.. +.+.+
T Consensus 60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k----------~R~HFh~Fm~~vh~~l~~~~~-~~~~l~~----va~~l 124 (362)
T PF03969_consen 60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRK----------RRVHFHEFMLDVHSRLHQLRG-QDDPLPQ----VADEL 124 (362)
T ss_pred CCCceEEEECCCCCchhHHHHHHHHhCCcccc----------ccccccHHHHHHHHHHHHHhC-CCccHHH----HHHHH
Confidence 45789999999999999999999987433110 011223455555444443222 2333333 33445
Q ss_pred CCceEEEEEeCCCCC
Q 048163 293 SGKIFLLVLDDVWNE 307 (350)
Q Consensus 293 ~~kr~LlVlDdv~~~ 307 (350)
.++..||.||++.-.
T Consensus 125 ~~~~~lLcfDEF~V~ 139 (362)
T PF03969_consen 125 AKESRLLCFDEFQVT 139 (362)
T ss_pred HhcCCEEEEeeeecc
Confidence 567779999999443
No 258
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=96.26 E-value=0.015 Score=53.12 Aligned_cols=87 Identities=22% Similarity=0.138 Sum_probs=54.5
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC----CCCCHHHHHHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV----DNHNLNKLQEE 287 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~~ 287 (350)
-+.-+++-|+|+.|+||||||..+... ....-..++|+.....++.. .+..++.+... .+...++..+.
T Consensus 50 ~p~G~ivEi~G~~ssGKttLaL~~ia~--~q~~g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al~~ 122 (322)
T PF00154_consen 50 LPRGRIVEIYGPESSGKTTLALHAIAE--AQKQGGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQALWI 122 (322)
T ss_dssp EETTSEEEEEESTTSSHHHHHHHHHHH--HHHTT-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHHHH
T ss_pred cccCceEEEeCCCCCchhhhHHHHHHh--hhcccceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHHHH
Confidence 345679999999999999999998875 33445678999998877653 23444443221 23444555566
Q ss_pred HHHHc-CCceEEEEEeCCC
Q 048163 288 LKKKL-SGKIFLLVLDDVW 305 (350)
Q Consensus 288 l~~~l-~~kr~LlVlDdv~ 305 (350)
..+.+ ++.--++|+|.|-
T Consensus 123 ~e~lirsg~~~lVVvDSv~ 141 (322)
T PF00154_consen 123 AEQLIRSGAVDLVVVDSVA 141 (322)
T ss_dssp HHHHHHTTSESEEEEE-CT
T ss_pred HHHHhhcccccEEEEecCc
Confidence 66666 3455699999993
No 259
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=96.25 E-value=0.02 Score=56.43 Aligned_cols=134 Identities=12% Similarity=0.079 Sum_probs=74.2
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH-H
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK-T 265 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~-~ 265 (350)
...++|....+.++.+.+..-.. .-.-|.|+|..|+||+++|+.++..... .-..-+.|++..... ..+. .
T Consensus 186 ~~~iig~s~~~~~~~~~i~~~a~----~~~pVlI~Ge~GtGK~~~A~~ih~~s~r--~~~p~v~v~c~~~~~--~~~e~~ 257 (509)
T PRK05022 186 EGEMIGQSPAMQQLKKEIEVVAA----SDLNVLILGETGVGKELVARAIHAASPR--ADKPLVYLNCAALPE--SLAESE 257 (509)
T ss_pred CCceeecCHHHHHHHHHHHHHhC----CCCcEEEECCCCccHHHHHHHHHHhCCc--CCCCeEEEEcccCCh--HHHHHH
Confidence 45688999888888887766432 3457889999999999999999875221 112335566665432 2222 2
Q ss_pred HHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCC-----------CCceEEEecCC
Q 048163 266 ILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGA-----------PGSKIIVTARN 334 (350)
Q Consensus 266 il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTtr~ 334 (350)
+.............+... .+. ....=-|+||+|.......+..+...+..+. ...+||.||..
T Consensus 258 lfG~~~g~~~ga~~~~~g---~~~---~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~ 331 (509)
T PRK05022 258 LFGHVKGAFTGAISNRSG---KFE---LADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNR 331 (509)
T ss_pred hcCccccccCCCcccCCc---chh---hcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCC
Confidence 211111111000000000 011 1123346899997766566666666554321 24588887754
No 260
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=96.25 E-value=0.016 Score=48.14 Aligned_cols=22 Identities=41% Similarity=0.534 Sum_probs=19.6
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
++.++|++|+||||++..+...
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~ 23 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALY 23 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6789999999999999998764
No 261
>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=96.25 E-value=0.0057 Score=53.69 Aligned_cols=69 Identities=22% Similarity=0.184 Sum_probs=41.2
Q ss_pred hHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHH
Q 048163 196 EKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILI 268 (350)
Q Consensus 196 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~ 268 (350)
+...+++.+.+.. .+..+|+|.|++|+|||||...+....+..++=-.++=|.-|++++--.++-+-.+
T Consensus 14 ~~~~ll~~l~~~~----g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiR 82 (266)
T PF03308_consen 14 EARELLKRLYPHT----GRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIR 82 (266)
T ss_dssp HHHHHHHHHGGGT----T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGG
T ss_pred HHHHHHHHHHhhc----CCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHH
Confidence 4455666665542 35789999999999999999998776444443345666677777776555554433
No 262
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=96.24 E-value=0.034 Score=51.55 Aligned_cols=42 Identities=19% Similarity=0.207 Sum_probs=32.2
Q ss_pred CceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 294 GKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
+++-++|+|++...+....+.+...|-.-.+++.+|++|.+.
T Consensus 131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~ 172 (342)
T PRK06964 131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARI 172 (342)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECCh
Confidence 456688999998888889999999887555677666666553
No 263
>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=96.24 E-value=0.014 Score=47.70 Aligned_cols=119 Identities=15% Similarity=0.082 Sum_probs=61.6
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC---CCCHHHHHHHHH--HH--hCCCCCCCCCCH-------
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD---DFDVFRLTKTIL--IS--IVPDQNVDNHNL------- 281 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~---~~~~~~~~~~il--~~--l~~~~~~~~~~~------- 281 (350)
..|-|++..|.||||+|-...-. .-.+=..+.++..-. ......++..+- .- .+....-...+.
T Consensus 3 G~i~vy~g~G~Gkt~~a~g~~~r--a~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a 80 (159)
T cd00561 3 GLIQVYTGNGKGKTTAALGLALR--ALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAA 80 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHH
Confidence 46778888899999999887653 222222333433221 233333333330 00 000000000111
Q ss_pred HHHHHHHHHHcCC-ceEEEEEeCCCCC---CcccHhhhcCccCCCCCCceEEEecCChh
Q 048163 282 NKLQEELKKKLSG-KIFLLVLDDVWNE---NYNDWDRLRPPFEAGAPGSKIIVTARNQE 336 (350)
Q Consensus 282 ~~~~~~l~~~l~~-kr~LlVlDdv~~~---~~~~~~~l~~~l~~~~~gs~iivTtr~~~ 336 (350)
....+..++.+.. +-=|||||++-.. .....+.+...+.....+..+|+|.|+..
T Consensus 81 ~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p 139 (159)
T cd00561 81 AEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP 139 (159)
T ss_pred HHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence 1122333444433 4459999999432 22345566666655566789999999854
No 264
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=96.24 E-value=0.0028 Score=53.57 Aligned_cols=119 Identities=14% Similarity=0.097 Sum_probs=60.0
Q ss_pred EEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC--CCCCCHHHHHHHHHHHcCC
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN--VDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~~l~~~l~~ 294 (350)
++.|.|+.|.||||+.+.+.-.. .-.+-.+ +|.+.. .. ...+..++..+..... ........-..++...+..
T Consensus 1 ~~~ltG~N~~GKst~l~~i~~~~-~la~~G~--~v~a~~-~~-~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~ 75 (185)
T smart00534 1 VVIITGPNMGGKSTYLRQVGLIV-IMAQIGS--FVPAES-AE-LPVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKN 75 (185)
T ss_pred CEEEECCCCCcHHHHHHHHHHHH-HHHHhCC--Ceeehh-eE-ecccceEEEEeCCCCchhccccHHHHHHHHHHHHHHh
Confidence 46799999999999999987331 1111111 221111 00 0011111212221111 0122333334445555544
Q ss_pred --ceEEEEEeCCCCCC-cccHhhh----cCccCCCCCCceEEEecCChhHHHhc
Q 048163 295 --KIFLLVLDDVWNEN-YNDWDRL----RPPFEAGAPGSKIIVTARNQEVAAIM 341 (350)
Q Consensus 295 --kr~LlVlDdv~~~~-~~~~~~l----~~~l~~~~~gs~iivTtr~~~va~~~ 341 (350)
++-|+++|+.-... ..+-..+ ...+.. ..++.+|++|+..+++..+
T Consensus 76 ~~~~~llllDEp~~g~d~~~~~~~~~~~l~~l~~-~~~~~iii~TH~~~l~~~~ 128 (185)
T smart00534 76 ATENSLVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIGALTLFATHYHELTKLA 128 (185)
T ss_pred CCCCeEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCeEEEEecHHHHHHHh
Confidence 78999999995432 1111122 222221 2377899999999887754
No 265
>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=96.23 E-value=0.033 Score=52.37 Aligned_cols=83 Identities=20% Similarity=0.148 Sum_probs=51.1
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC----CCCCHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV----DNHNLNKLQEELK 289 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~~l~ 289 (350)
.-.++.|.|++|+|||||+.++.... ...-..++|++..+. ..++ ......++..... ...+.+.+.+.+.
T Consensus 81 ~GslvLI~G~pG~GKStLllq~a~~~--a~~g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~ 155 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLLQVAARL--AKRGGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASIE 155 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHHH
Confidence 45799999999999999999998652 222346778776543 3332 2223444432211 2234555555443
Q ss_pred HHcCCceEEEEEeCC
Q 048163 290 KKLSGKIFLLVLDDV 304 (350)
Q Consensus 290 ~~l~~kr~LlVlDdv 304 (350)
+ .+.-+||+|.+
T Consensus 156 ~---~~~~lVVIDSI 167 (372)
T cd01121 156 E---LKPDLVIIDSI 167 (372)
T ss_pred h---cCCcEEEEcch
Confidence 3 35678999998
No 266
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=96.22 E-value=0.012 Score=49.00 Aligned_cols=121 Identities=25% Similarity=0.237 Sum_probs=59.4
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC--CCCHHHHHHHHHHHhCCCCCCCC-------CCHHH-H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD--DFDVFRLTKTILISIVPDQNVDN-------HNLNK-L 284 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~--~~~~~~~~~~il~~l~~~~~~~~-------~~~~~-~ 284 (350)
-.+++|+|+.|+|||||.+.+.... ......+++.-.. ..+.......+ ..+......-. -+-.+ .
T Consensus 28 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~~~~~~~~~~~~~~i-~~~~q~~~~~~~tv~~~lLS~G~~q 103 (173)
T cd03246 28 GESLAIIGPSGSGKSTLARLILGLL---RPTSGRVRLDGADISQWDPNELGDHV-GYLPQDDELFSGSIAENILSGGQRQ 103 (173)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhcc---CCCCCeEEECCEEcccCCHHHHHhhe-EEECCCCccccCcHHHHCcCHHHHH
Confidence 3689999999999999999998642 1222333322111 01111111111 01111000000 11111 2
Q ss_pred HHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccCC-CCCCceEEEecCChhHHH
Q 048163 285 QEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFEA-GAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 285 ~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTtr~~~va~ 339 (350)
.-.+...+-.+.=+++||+--.. +......+...+.. ...|..||++|.+.+...
T Consensus 104 rv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~ 160 (173)
T cd03246 104 RLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA 160 (173)
T ss_pred HHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence 22344445556678899998432 22223333333322 124778999999887664
No 267
>PTZ00088 adenylate kinase 1; Provisional
Probab=96.22 E-value=0.0061 Score=53.28 Aligned_cols=22 Identities=32% Similarity=0.581 Sum_probs=19.9
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.|.|.|++|+||||+|+.+...
T Consensus 8 rIvl~G~PGsGK~T~a~~La~~ 29 (229)
T PTZ00088 8 KIVLFGAPGVGKGTFAEILSKK 29 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4899999999999999999765
No 268
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=96.21 E-value=0.006 Score=54.41 Aligned_cols=70 Identities=20% Similarity=0.170 Sum_probs=52.1
Q ss_pred HHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhC
Q 048163 198 KDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIV 271 (350)
Q Consensus 198 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~ 271 (350)
.+|+..+... .++..+|+|.|.+|+|||||.-.+.......++=-.++=|..|++++--.++-+-++.-.
T Consensus 38 ~~ll~~l~p~----tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~ 107 (323)
T COG1703 38 RELLRALYPR----TGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQR 107 (323)
T ss_pred HHHHHHHhhc----CCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHh
Confidence 3455555443 357889999999999999999998876555566566777888999987777776665443
No 269
>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.
Probab=96.20 E-value=0.021 Score=50.99 Aligned_cols=90 Identities=17% Similarity=0.210 Sum_probs=56.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcccc--ccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCCCC------CCCCH----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQV--QDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQNV------DNHNL---- 281 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~--~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~~------~~~~~---- 281 (350)
-.-++|.|..|+|||+|+..+.++... +++-+.++++-+.+... +.+++.++...-...... +....
T Consensus 69 GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~ 148 (276)
T cd01135 69 GQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERII 148 (276)
T ss_pred CCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHH
Confidence 356799999999999999998876331 22356788898888764 456666665542221110 11111
Q ss_pred -HHHHHHHHHHc--C-CceEEEEEeCC
Q 048163 282 -NKLQEELKKKL--S-GKIFLLVLDDV 304 (350)
Q Consensus 282 -~~~~~~l~~~l--~-~kr~LlVlDdv 304 (350)
....-.+.+++ + +++.|+++||+
T Consensus 149 a~~~a~aiAEyfrd~~g~~VLl~~D~l 175 (276)
T cd01135 149 TPRMALTTAEYLAYEKGKHVLVILTDM 175 (276)
T ss_pred HHHHHHHHHHHHHhccCCeEEEEEcCh
Confidence 11223345555 3 78999999999
No 270
>PTZ00185 ATPase alpha subunit; Provisional
Probab=96.20 E-value=0.032 Score=53.92 Aligned_cols=90 Identities=16% Similarity=0.146 Sum_probs=55.6
Q ss_pred eEEEEEeecCCCchHHHH-HHHHhcccc-----ccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC-----CCCC--H
Q 048163 215 FSVIPIIGMGGLGKTTLA-QLVYNDKQV-----QDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV-----DNHN--L 281 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa-~~v~~~~~~-----~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~-----~~~~--~ 281 (350)
-.-++|.|..|+|||+|| ..+.+...+ .++-..++++-+++..+...-+.+.++.-+.-... .+.+ .
T Consensus 189 GQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~ 268 (574)
T PTZ00185 189 GQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAG 268 (574)
T ss_pred CCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHH
Confidence 456899999999999997 666665422 13446788999988876554455555554421110 1111 1
Q ss_pred HH-----HHHHHHHHc--CCceEEEEEeCC
Q 048163 282 NK-----LQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 282 ~~-----~~~~l~~~l--~~kr~LlVlDdv 304 (350)
.. ..-.+.+++ +++..|+|+||+
T Consensus 269 ~r~~Apy~a~tiAEYFrd~GkdVLiv~DDL 298 (574)
T PTZ00185 269 LQYLAPYSGVTMGEYFMNRGRHCLCVYDDL 298 (574)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCEEEEEcCc
Confidence 10 112233333 589999999999
No 271
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=96.20 E-value=0.0093 Score=57.14 Aligned_cols=51 Identities=27% Similarity=0.313 Sum_probs=38.7
Q ss_pred cccch---hhHHHHHHHHhcCCC---CCCCCeEEEEEeecCCCchHHHHHHHHhccc
Q 048163 190 VYGRE---TEKKDVVELLLRDDL---SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQ 240 (350)
Q Consensus 190 ~vGr~---~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~ 240 (350)
+-|-+ .|+++++++|..+.. .+..-++-|.++||+|.|||-||+.|.-...
T Consensus 306 VkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~ 362 (752)
T KOG0734|consen 306 VKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAG 362 (752)
T ss_pred ccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccC
Confidence 34544 678888998876642 2344578899999999999999999987633
No 272
>PRK14974 cell division protein FtsY; Provisional
Probab=96.18 E-value=0.035 Score=51.37 Aligned_cols=25 Identities=32% Similarity=0.345 Sum_probs=21.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+..++.++|+.|+||||++..++..
T Consensus 139 ~~~vi~~~G~~GvGKTTtiakLA~~ 163 (336)
T PRK14974 139 KPVVIVFVGVNGTGKTTTIAKLAYY 163 (336)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence 4689999999999999988887764
No 273
>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=96.17 E-value=0.028 Score=52.33 Aligned_cols=113 Identities=13% Similarity=0.187 Sum_probs=61.7
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.|.|+.|+||||+.+.+... +..++...++. +..+.-. .... ...+..... ...+.......++..|+.
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~--i~~~~~~~i~t-iEdp~E~--~~~~-~~~~i~q~e-vg~~~~~~~~~l~~~lr~ 194 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDY--INKNAAGHIIT-IEDPIEY--VHRN-KRSLINQRE-VGLDTLSFANALRAALRE 194 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHh--hCcCCCCEEEE-EcCChhh--hccC-ccceEEccc-cCCCCcCHHHHHHHhhcc
Confidence 368999999999999999988764 33334444443 2222110 0000 000000000 111123355667778888
Q ss_pred ceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChhHHH
Q 048163 295 KIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~ 339 (350)
..=.|++|++.+. ..+... +.....|-.++.|....+++.
T Consensus 195 ~pd~i~vgEird~--~~~~~~---l~aa~tGh~v~~T~Ha~~~~~ 234 (343)
T TIGR01420 195 DPDVILIGEMRDL--ETVELA---LTAAETGHLVFGTLHTNSAAQ 234 (343)
T ss_pred CCCEEEEeCCCCH--HHHHHH---HHHHHcCCcEEEEEcCCCHHH
Confidence 8889999999532 333321 222234656777777766553
No 274
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=96.17 E-value=0.028 Score=51.62 Aligned_cols=39 Identities=36% Similarity=0.549 Sum_probs=30.8
Q ss_pred ccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHH
Q 048163 191 YGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLV 235 (350)
Q Consensus 191 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v 235 (350)
-+|..+..--+++|+.++ ...|++.|.+|.|||.||-..
T Consensus 227 ~prn~eQ~~ALdlLld~d------I~lV~L~G~AGtGKTlLALaA 265 (436)
T COG1875 227 RPRNAEQRVALDLLLDDD------IDLVSLGGKAGTGKTLLALAA 265 (436)
T ss_pred CcccHHHHHHHHHhcCCC------CCeEEeeccCCccHhHHHHHH
Confidence 456666666777887664 799999999999999888664
No 275
>PRK06547 hypothetical protein; Provisional
Probab=96.14 E-value=0.0054 Score=51.14 Aligned_cols=26 Identities=38% Similarity=0.442 Sum_probs=23.2
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
....+|.|.|+.|+||||+|+.+...
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 35789999999999999999999875
No 276
>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=96.14 E-value=0.0043 Score=43.20 Aligned_cols=22 Identities=36% Similarity=0.570 Sum_probs=19.6
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|.|.|+.|+||||+++.+.+.
T Consensus 1 ~i~i~G~~gsGKst~~~~l~~~ 22 (69)
T cd02019 1 IIAITGGSGSGKSTVAKKLAEQ 22 (69)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999998775
No 277
>PRK13531 regulatory ATPase RavA; Provisional
Probab=96.13 E-value=0.007 Score=58.16 Aligned_cols=43 Identities=16% Similarity=0.252 Sum_probs=37.2
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++|+++.++.+...+.... -+.|.|++|+|||+||+.+...
T Consensus 20 ~~i~gre~vI~lll~aalag~--------hVLL~GpPGTGKT~LAraLa~~ 62 (498)
T PRK13531 20 KGLYERSHAIRLCLLAALSGE--------SVFLLGPPGIAKSLIARRLKFA 62 (498)
T ss_pred hhccCcHHHHHHHHHHHccCC--------CEEEECCCChhHHHHHHHHHHH
Confidence 457899999999998887653 5889999999999999999874
No 278
>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=96.10 E-value=0.017 Score=57.23 Aligned_cols=132 Identities=13% Similarity=0.109 Sum_probs=72.6
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccc-cccccCceeEEEeCCCCCHHHHHHH
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQ-VQDHFDLKAWTCVSDDFDVFRLTKT 265 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~-~~~~F~~~~wv~~~~~~~~~~~~~~ 265 (350)
...++|....+.++++.+..-.. ....|.|+|..|+|||++|+.++.... .... -+.|++..... ..+..
T Consensus 195 ~~~liG~s~~~~~~~~~~~~~a~----~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~p---fv~i~c~~~~~--~~~~~ 265 (534)
T TIGR01817 195 EDGIIGKSPAMRQVVDQARVVAR----SNSTVLLRGESGTGKELIAKAIHYLSPRAKRP---FVKVNCAALSE--TLLES 265 (534)
T ss_pred cCceEECCHHHHHHHHHHHHHhC----cCCCEEEECCCCccHHHHHHHHHHhCCCCCCC---eEEeecCCCCH--HHHHH
Confidence 45789999888888887765321 234678999999999999999987522 2222 34455554321 22222
Q ss_pred HHHHhCCCCCCCC-CCHHHHHHHHHHHc-CCceEEEEEeCCCCCCcccHhhhcCccCCCC-----------CCceEEEec
Q 048163 266 ILISIVPDQNVDN-HNLNKLQEELKKKL-SGKIFLLVLDDVWNENYNDWDRLRPPFEAGA-----------PGSKIIVTA 332 (350)
Q Consensus 266 il~~l~~~~~~~~-~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTt 332 (350)
. +.+...... ..... . ...+ ....-.|+||+|.......+..+...+..+. ...+||.||
T Consensus 266 ~---lfg~~~~~~~~~~~~---~-~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s 338 (534)
T TIGR01817 266 E---LFGHEKGAFTGAIAQ---R-KGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAAT 338 (534)
T ss_pred H---HcCCCCCccCCCCcC---C-CCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeC
Confidence 1 111111000 00000 0 0001 1234568899997766666666666554321 124788876
Q ss_pred CC
Q 048163 333 RN 334 (350)
Q Consensus 333 r~ 334 (350)
..
T Consensus 339 ~~ 340 (534)
T TIGR01817 339 NR 340 (534)
T ss_pred CC
Confidence 54
No 279
>PRK06762 hypothetical protein; Provisional
Probab=96.09 E-value=0.0052 Score=50.80 Aligned_cols=24 Identities=38% Similarity=0.473 Sum_probs=21.4
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+|.|.|+.|+||||+|+.+...
T Consensus 2 ~~li~i~G~~GsGKST~A~~L~~~ 25 (166)
T PRK06762 2 TTLIIIRGNSGSGKTTIAKQLQER 25 (166)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 368999999999999999998765
No 280
>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=96.08 E-value=0.0084 Score=55.05 Aligned_cols=52 Identities=23% Similarity=0.364 Sum_probs=44.4
Q ss_pred ccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...|+|.++.+++|++.+..........-+++-++||-|.|||||+..+-+-
T Consensus 60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~ 111 (358)
T PF08298_consen 60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRG 111 (358)
T ss_pred cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHH
Confidence 4679999999999999998654434567899999999999999999998764
No 281
>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=96.07 E-value=0.013 Score=49.53 Aligned_cols=22 Identities=41% Similarity=0.539 Sum_probs=20.1
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|+|.|.+|+||||||+.+...
T Consensus 1 ii~i~G~sgsGKTtla~~l~~~ 22 (187)
T cd02024 1 IVGISGVTNSGKTTLAKLLQRI 22 (187)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999875
No 282
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0097 Score=54.37 Aligned_cols=56 Identities=21% Similarity=0.250 Sum_probs=40.3
Q ss_pred cccccchhhHHHHHHHHhcC----C---CCCCCCeEEEEEeecCCCchHHHHHHHHhcccccccc
Q 048163 188 AKVYGRETEKKDVVELLLRD----D---LSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF 245 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~----~---~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F 245 (350)
..+=|-+++.++|.+...-+ + .-+-..++-|.++||+|.|||-||++|++. ....|
T Consensus 151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~--T~AtF 213 (406)
T COG1222 151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ--TDATF 213 (406)
T ss_pred hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc--cCceE
Confidence 44567788888887765422 1 013456788999999999999999999996 44444
No 283
>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=96.05 E-value=0.0052 Score=51.76 Aligned_cols=25 Identities=28% Similarity=0.401 Sum_probs=22.1
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++|.|.|++|+||||+++.+...
T Consensus 2 ~~~ii~i~G~~GsGKsTl~~~l~~~ 26 (188)
T TIGR01360 2 KCKIIFIVGGPGSGKGTQCEKIVEK 26 (188)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 3579999999999999999999764
No 284
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.03 E-value=0.0073 Score=52.77 Aligned_cols=55 Identities=25% Similarity=0.299 Sum_probs=43.4
Q ss_pred cccccccchhhHH---HHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccc
Q 048163 186 KEAKVYGRETEKK---DVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQ 240 (350)
Q Consensus 186 ~~~~~vGr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~ 240 (350)
.-++++|.++... -|++.|..++..+...++.|..+|++|.|||.+|+.+.+..+
T Consensus 119 t~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~k 176 (368)
T COG1223 119 TLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAK 176 (368)
T ss_pred cHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccC
Confidence 3456788875553 466777777666778899999999999999999999998643
No 285
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.02 E-value=0.046 Score=52.02 Aligned_cols=25 Identities=32% Similarity=0.388 Sum_probs=21.5
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+++++|+.|+||||+...+...
T Consensus 190 ~g~vi~lvGpnG~GKTTtlakLA~~ 214 (420)
T PRK14721 190 QGGVYALIGPTGVGKTTTTAKLAAR 214 (420)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 4579999999999999999987653
No 286
>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]
Probab=96.02 E-value=0.016 Score=51.81 Aligned_cols=116 Identities=16% Similarity=0.230 Sum_probs=65.7
Q ss_pred cccccchhhHHHHHHHHhcC-CCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRD-DLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~-~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
..++|..--.+.++..+..- ...++.++-+++.+|..|+||..+++.+.+.....+.=. .....+
T Consensus 82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S--------------~~V~~f 147 (344)
T KOG2170|consen 82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRS--------------PFVHHF 147 (344)
T ss_pred HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccc--------------hhHHHh
Confidence 34566655555666655431 112467889999999999999999999887632111000 011111
Q ss_pred HHHhCCCCCCCCCCH----HHHHHHHHHHcC-CceEEEEEeCCCCCCcccHhhhcCccC
Q 048163 267 LISIVPDQNVDNHNL----NKLQEELKKKLS-GKIFLLVLDDVWNENYNDWDRLRPPFE 320 (350)
Q Consensus 267 l~~l~~~~~~~~~~~----~~~~~~l~~~l~-~kr~LlVlDdv~~~~~~~~~~l~~~l~ 320 (350)
+....- + ..... +++...++..++ -+|-|+|||++......-.+.|...|.
T Consensus 148 vat~hF--P-~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLd 203 (344)
T KOG2170|consen 148 VATLHF--P-HASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLD 203 (344)
T ss_pred hhhccC--C-ChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHhhhhc
Confidence 111111 1 22222 333444444443 379999999997665556666666655
No 287
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=96.01 E-value=0.072 Score=47.75 Aligned_cols=118 Identities=15% Similarity=0.150 Sum_probs=65.4
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCC---------------------
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPD--------------------- 273 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~--------------------- 273 (350)
-.++.|.|++|+|||+++.++....- ..+-..++|++...+ ..++...++..+...
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~-~~~g~~vl~iS~E~~--~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLI-TQHGVRVGTISLEEP--VVRTARRLLGQYAGKRLHLPDTVFIYTLEEFDAAFD 106 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHH-HhcCceEEEEEcccC--HHHHHHHHHHHHhCCCcccCCccccccHHHHHHHHH
Confidence 45888999999999999999876521 222345788887653 333443333321110
Q ss_pred -----------CCCCCCCHHHHHHHHHHHcCC-ceEEEEEeCCCCCC------cc---cHhhhcCccC--CCCCCceEEE
Q 048163 274 -----------QNVDNHNLNKLQEELKKKLSG-KIFLLVLDDVWNEN------YN---DWDRLRPPFE--AGAPGSKIIV 330 (350)
Q Consensus 274 -----------~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~------~~---~~~~l~~~l~--~~~~gs~iiv 330 (350)
......+.+.+...++..... +.-+||+|.+.... .. ....+...|. ....++.|++
T Consensus 107 ~~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~~vtvll 186 (271)
T cd01122 107 EFEGTGRLFMYDSFGEYSMDSVLEKVRYMAVSHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHITL 186 (271)
T ss_pred HhcCCCcEEEEcCCCccCHHHHHHHHHHHHhcCCceEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhCCEEEE
Confidence 000112456666666665533 45578999872211 01 1122223332 2357888999
Q ss_pred ecCCh
Q 048163 331 TARNQ 335 (350)
Q Consensus 331 Ttr~~ 335 (350)
|+.-.
T Consensus 187 ~sq~~ 191 (271)
T cd01122 187 VSHLR 191 (271)
T ss_pred Eeccc
Confidence 98643
No 288
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=96.01 E-value=0.027 Score=49.60 Aligned_cols=22 Identities=27% Similarity=0.454 Sum_probs=19.1
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+..|+|++|+|||+|+.++.-.
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~ 24 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALA 24 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHH
Confidence 5578999999999999998754
No 289
>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=96.01 E-value=0.0043 Score=51.68 Aligned_cols=43 Identities=23% Similarity=0.105 Sum_probs=31.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD 258 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~ 258 (350)
..++.+.||.|+|||.||+.+...... +.....+-++++....
T Consensus 3 ~~~~ll~GpsGvGKT~la~~la~~l~~-~~~~~~~~~d~s~~~~ 45 (171)
T PF07724_consen 3 KSNFLLAGPSGVGKTELAKALAELLFV-GSERPLIRIDMSEYSE 45 (171)
T ss_dssp SEEEEEESSTTSSHHHHHHHHHHHHT--SSCCEEEEEEGGGHCS
T ss_pred EEEEEEECCCCCCHHHHHHHHHHHhcc-CCccchHHHhhhcccc
Confidence 578899999999999999999875221 3444556667666433
No 290
>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=95.99 E-value=0.015 Score=48.88 Aligned_cols=22 Identities=45% Similarity=0.613 Sum_probs=20.1
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|+|.|..|+||||||+.+...
T Consensus 1 ii~i~G~sgsGKttla~~l~~~ 22 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQ 22 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999875
No 291
>PRK03839 putative kinase; Provisional
Probab=95.99 E-value=0.0056 Score=51.38 Aligned_cols=22 Identities=41% Similarity=0.724 Sum_probs=20.3
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.|.|.|++|+||||+++.+++.
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~ 23 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4889999999999999999886
No 292
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=95.99 E-value=0.034 Score=53.36 Aligned_cols=89 Identities=21% Similarity=0.212 Sum_probs=55.2
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCCCC------CCCCHH-----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQNV------DNHNLN----- 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~~------~~~~~~----- 282 (350)
-..++|.|..|+|||||+..+....... +=+.++++-+.+... +.+++.+++..-...... +.....
T Consensus 144 GQR~gIfa~~GvGKt~Ll~~i~~~~~~~-~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~ 222 (463)
T PRK09280 144 GGKIGLFGGAGVGKTVLIQELINNIAKE-HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVA 222 (463)
T ss_pred CCEEEeecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence 4678999999999999999886542211 124577777776654 456677666542221110 111111
Q ss_pred HHHHHHHHHc---CCceEEEEEeCC
Q 048163 283 KLQEELKKKL---SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l---~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++|++
T Consensus 223 ~~a~tiAEyfrd~~G~~VLll~Dsl 247 (463)
T PRK09280 223 LTGLTMAEYFRDVEGQDVLLFIDNI 247 (463)
T ss_pred HHHHHHHHHHHHhcCCceEEEecch
Confidence 1233455655 679999999999
No 293
>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=95.96 E-value=0.0047 Score=52.92 Aligned_cols=122 Identities=15% Similarity=0.149 Sum_probs=58.2
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHHHHc-
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--DNHNLNKLQEELKKKL- 292 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~~~l- 292 (350)
.++.|.|+.|.||||+.+.+..... ..+.. .|+..... ... .+.+++..+...... .......-...+...+
T Consensus 30 ~~~~l~G~Ng~GKStll~~i~~~~~-~~~~g--~~~~~~~~-~i~-~~dqi~~~~~~~d~i~~~~s~~~~e~~~l~~i~~ 104 (202)
T cd03243 30 RLLLITGPNMGGKSTYLRSIGLAVL-LAQIG--CFVPAESA-SIP-LVDRIFTRIGAEDSISDGRSTFMAELLELKEILS 104 (202)
T ss_pred eEEEEECCCCCccHHHHHHHHHHHH-HHHcC--CCcccccc-ccC-CcCEEEEEecCcccccCCceeHHHHHHHHHHHHH
Confidence 6899999999999999999983311 00111 11111100 000 001111111111110 1112222222333333
Q ss_pred -CCceEEEEEeCCCCCCcc-cHhhhcCc-cCC-CCCCceEEEecCChhHHHhcC
Q 048163 293 -SGKIFLLVLDDVWNENYN-DWDRLRPP-FEA-GAPGSKIIVTARNQEVAAIMG 342 (350)
Q Consensus 293 -~~kr~LlVlDdv~~~~~~-~~~~l~~~-l~~-~~~gs~iivTtr~~~va~~~~ 342 (350)
...+-++++|+.-..... .-..+... +.. ...++.+|++|++.+++..+.
T Consensus 105 ~~~~~~llllDEp~~gld~~~~~~l~~~ll~~l~~~~~~vi~~tH~~~~~~~~~ 158 (202)
T cd03243 105 LATPRSLVLIDELGRGTSTAEGLAIAYAVLEHLLEKGCRTLFATHFHELADLPE 158 (202)
T ss_pred hccCCeEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCeEEEECChHHHHHHhh
Confidence 357899999999443111 11112111 110 124778999999998887654
No 294
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=95.95 E-value=0.049 Score=48.95 Aligned_cols=26 Identities=35% Similarity=0.503 Sum_probs=22.3
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+++.++|++|+||||++..+...
T Consensus 70 ~~~~vi~l~G~~G~GKTTt~akLA~~ 95 (272)
T TIGR00064 70 NKPNVILFVGVNGVGKTTTIAKLANK 95 (272)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 34689999999999999999888764
No 295
>PRK08972 fliI flagellum-specific ATP synthase; Validated
Probab=95.95 E-value=0.021 Score=54.38 Aligned_cols=86 Identities=17% Similarity=0.184 Sum_probs=52.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCCCC----CC-C-CH-----H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQNV----DN-H-NL-----N 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~~----~~-~-~~-----~ 282 (350)
-..++|+|+.|+|||||++.+.... ..+.++.+-+.+... +.+++..++..-...... .+ . .. .
T Consensus 162 GqrigI~G~sG~GKSTLL~~I~~~~----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~ 237 (444)
T PRK08972 162 GQRMGLFAGSGVGKSVLLGMMTRGT----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC 237 (444)
T ss_pred CCEEEEECCCCCChhHHHHHhccCC----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence 3568999999999999999998642 224556666766654 345666665442221110 11 1 11 1
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++||+
T Consensus 238 ~~A~tiAEyfrd~G~~VLl~~Dsl 261 (444)
T PRK08972 238 ETATTIAEYFRDQGLNVLLLMDSL 261 (444)
T ss_pred HHHHHHHHHHHHcCCCEEEEEcCh
Confidence 1222344444 689999999999
No 296
>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=95.94 E-value=0.005 Score=52.56 Aligned_cols=22 Identities=41% Similarity=0.588 Sum_probs=19.9
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|+|.|+.|+|||||++.+...
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~ 22 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQ 22 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999998764
No 297
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=95.93 E-value=0.023 Score=54.60 Aligned_cols=89 Identities=19% Similarity=0.150 Sum_probs=56.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCCCC------CCCCH-----H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQNV------DNHNL-----N 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~~------~~~~~-----~ 282 (350)
-..++|.|.+|+|||+|...+...... .+-+.++++-+.+... +.+++.+++..-...... +.... .
T Consensus 143 GQR~gIfa~~G~GKt~Ll~~~~~~~~~-~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~ 221 (461)
T PRK12597 143 GGKTGLFGGAGVGKTVLMMELIFNISK-QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVV 221 (461)
T ss_pred CCEEEeecCCCCChhHHHHHHHHHHHh-hCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHH
Confidence 467899999999999999888876332 2567778887776654 456666665432211110 11111 1
Q ss_pred HHHHHHHHHc--C-CceEEEEEeCC
Q 048163 283 KLQEELKKKL--S-GKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~-~kr~LlVlDdv 304 (350)
...-.+.+++ + +++.||++|++
T Consensus 222 ~~a~tiAEyfrd~~G~~VLl~~Dsl 246 (461)
T PRK12597 222 LTGLTIAEYLRDEEKEDVLLFIDNI 246 (461)
T ss_pred HHHHHHHHHHHHhcCCceEEEeccc
Confidence 2233455555 3 89999999999
No 298
>PF14516 AAA_35: AAA-like domain
Probab=95.93 E-value=0.099 Score=48.47 Aligned_cols=110 Identities=15% Similarity=0.150 Sum_probs=67.1
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-----CCHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-----FDVFRL 262 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-----~~~~~~ 262 (350)
+-.+.|...-+.+.+.|..+. ..+.|.|+..+|||+|...+.+..+.. .| ..+++++..- .+...+
T Consensus 11 ~~Yi~R~~~e~~~~~~i~~~G-------~~~~I~apRq~GKTSll~~l~~~l~~~-~~-~~v~id~~~~~~~~~~~~~~f 81 (331)
T PF14516_consen 11 PFYIERPPAEQECYQEIVQPG-------SYIRIKAPRQMGKTSLLLRLLERLQQQ-GY-RCVYIDLQQLGSAIFSDLEQF 81 (331)
T ss_pred CcccCchHHHHHHHHHHhcCC-------CEEEEECcccCCHHHHHHHHHHHHHHC-CC-EEEEEEeecCCCcccCCHHHH
Confidence 334677756667777776543 689999999999999999998764332 33 3457776542 245555
Q ss_pred HHHHHH----HhCCCCCC------CCCCHHHHHHHHHHHc---CCceEEEEEeCCCC
Q 048163 263 TKTILI----SIVPDQNV------DNHNLNKLQEELKKKL---SGKIFLLVLDDVWN 306 (350)
Q Consensus 263 ~~~il~----~l~~~~~~------~~~~~~~~~~~l~~~l---~~kr~LlVlDdv~~ 306 (350)
++.++. ++.....- ...........+.+.+ .+++.+|+||++..
T Consensus 82 ~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~ 138 (331)
T PF14516_consen 82 LRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDR 138 (331)
T ss_pred HHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhh
Confidence 555544 44432210 1112223333444432 26899999999954
No 299
>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.
Probab=95.93 E-value=0.024 Score=48.42 Aligned_cols=24 Identities=33% Similarity=0.487 Sum_probs=21.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.+++|+|+.|.|||||.+.+...
T Consensus 26 Ge~~~i~G~nGsGKStLl~~l~G~ 49 (200)
T cd03217 26 GEVHALMGPNGSGKSTLAKTIMGH 49 (200)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 468999999999999999998764
No 300
>PRK08149 ATP synthase SpaL; Validated
Probab=95.91 E-value=0.029 Score=53.39 Aligned_cols=86 Identities=17% Similarity=0.260 Sum_probs=51.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCCC------CCCCH-----H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQNV------DNHNL-----N 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~~------~~~~~-----~ 282 (350)
-..++|+|+.|+|||||.+.++.... -+.++...+.... .+.++..+.+......... +.... .
T Consensus 151 Gq~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~ 226 (428)
T PRK08149 151 GQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA 226 (428)
T ss_pred CCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence 46789999999999999999987422 2333334444433 4556666666543321110 11111 1
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++|+.||++||+
T Consensus 227 ~~a~tiAE~fr~~G~~Vll~~Dsl 250 (428)
T PRK08149 227 LVATTVAEYFRDQGKRVVLFIDSM 250 (428)
T ss_pred HHHHHHHHHHHHcCCCEEEEccch
Confidence 1222344444 689999999999
No 301
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=95.90 E-value=0.0081 Score=49.92 Aligned_cols=26 Identities=27% Similarity=0.367 Sum_probs=23.0
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
....+++|+|+.|+|||||++.+...
T Consensus 4 ~~~~ii~ivG~sgsGKTTLi~~li~~ 29 (173)
T PRK10751 4 TMIPLLAIAAWSGTGKTTLLKKLIPA 29 (173)
T ss_pred CCceEEEEECCCCChHHHHHHHHHHH
Confidence 35679999999999999999999865
No 302
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=95.89 E-value=0.0051 Score=46.92 Aligned_cols=21 Identities=48% Similarity=0.608 Sum_probs=18.7
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|-|+|++|+|||+||+.+..+
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~ 21 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKD 21 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999998775
No 303
>cd03285 ABC_MSH2_euk MutS2 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=95.89 E-value=0.0061 Score=53.07 Aligned_cols=121 Identities=12% Similarity=0.089 Sum_probs=61.5
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--DNHNLNKLQEELKKK 291 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~~~ 291 (350)
...++.|.|+.|.||||+.+.+.--. + -+....+|.+.. ....++..++..++..... .......-...+...
T Consensus 29 ~~~~~~l~G~n~~GKstll~~i~~~~-~--la~~g~~vpa~~--~~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a~i 103 (222)
T cd03285 29 KSRFLIITGPNMGGKSTYIRQIGVIV-L--MAQIGCFVPCDS--ADIPIVDCILARVGASDSQLKGVSTFMAEMLETAAI 103 (222)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHH-H--HHHhCCCcCccc--EEEeccceeEeeeccccchhcCcChHHHHHHHHHHH
Confidence 35789999999999999999876321 0 111112222221 0111222333333322110 112223333333344
Q ss_pred c--CCceEEEEEeCCCCC-Ccc-----cHhhhcCccCCCCCCceEEEecCChhHHHhc
Q 048163 292 L--SGKIFLLVLDDVWNE-NYN-----DWDRLRPPFEAGAPGSKIIVTARNQEVAAIM 341 (350)
Q Consensus 292 l--~~kr~LlVlDdv~~~-~~~-----~~~~l~~~l~~~~~gs~iivTtr~~~va~~~ 341 (350)
+ -..+-|++||+.-.. +.. .|..+ ..+.. ..|+.+|++|...++...+
T Consensus 104 l~~~~~~sLvLLDEp~~gT~~lD~~~~~~~il-~~l~~-~~~~~vlisTH~~el~~~~ 159 (222)
T cd03285 104 LKSATENSLIIIDELGRGTSTYDGFGLAWAIA-EYIAT-QIKCFCLFATHFHELTALA 159 (222)
T ss_pred HHhCCCCeEEEEecCcCCCChHHHHHHHHHHH-HHHHh-cCCCeEEEEechHHHHHHh
Confidence 4 356889999999321 111 12211 22322 2478899999988777643
No 304
>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=95.88 E-value=0.0099 Score=51.70 Aligned_cols=121 Identities=10% Similarity=0.033 Sum_probs=62.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--DNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~~~l 292 (350)
..++.|.|+.|.||||+.+.+.-.. +..+-.+..|..-.. ...+..|+..++..... .......-...+...+
T Consensus 31 g~~~~itG~N~~GKStll~~i~~~~-~la~~G~~v~a~~~~----~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il 105 (222)
T cd03287 31 GYCQIITGPNMGGKSSYIRQVALIT-IMAQIGSFVPASSAT----LSIFDSVLTRMGASDSIQHGMSTFMVELSETSHIL 105 (222)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHH-HHHhCCCEEEcCceE----EeccceEEEEecCccccccccchHHHHHHHHHHHH
Confidence 4688999999999999999987531 111112222221000 01111222222221110 1223333333344444
Q ss_pred --CCceEEEEEeCCCCCCc--ccH---hhhcCccCCCCCCceEEEecCChhHHHhc
Q 048163 293 --SGKIFLLVLDDVWNENY--NDW---DRLRPPFEAGAPGSKIIVTARNQEVAAIM 341 (350)
Q Consensus 293 --~~kr~LlVlDdv~~~~~--~~~---~~l~~~l~~~~~gs~iivTtr~~~va~~~ 341 (350)
.+++-|++||+...... +.. ..+...|... .++.+|++|+..+++...
T Consensus 106 ~~~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~~-~~~~~i~~TH~~~l~~~~ 160 (222)
T cd03287 106 SNCTSRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPSLGEIL 160 (222)
T ss_pred HhCCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHhc-cCCeEEEEcccHHHHHHH
Confidence 35799999999843321 111 1223333322 578999999999987654
No 305
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=95.87 E-value=0.053 Score=55.88 Aligned_cols=118 Identities=14% Similarity=0.165 Sum_probs=70.4
Q ss_pred ccccchhhHHHHHHHHhcCCCCC-C-CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHH
Q 048163 189 KVYGRETEKKDVVELLLRDDLSN-D-GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~~~~~-~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
.++|.++.+..+-+.+....... . .....+.+.||.|+|||-||+.+... +-+..+.-+-+++++.- .
T Consensus 563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~--~Fgse~~~IriDmse~~------e-- 632 (898)
T KOG1051|consen 563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEY--VFGSEENFIRLDMSEFQ------E-- 632 (898)
T ss_pred hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHH--HcCCccceEEechhhhh------h--
Confidence 35677777777777766543211 1 25677889999999999999998775 33444555555666521 1
Q ss_pred HHHhCCCCC--CCCCCHHHHHHHHHHHcCCce-EEEEEeCCCCCCcccHhhhcCccC
Q 048163 267 LISIVPDQN--VDNHNLNKLQEELKKKLSGKI-FLLVLDDVWNENYNDWDRLRPPFE 320 (350)
Q Consensus 267 l~~l~~~~~--~~~~~~~~~~~~l~~~l~~kr-~LlVlDdv~~~~~~~~~~l~~~l~ 320 (350)
...+....+ ......+ .|.+.++.+. .+|.||||........+.+...+.
T Consensus 633 vskligsp~gyvG~e~gg----~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD 685 (898)
T KOG1051|consen 633 VSKLIGSPPGYVGKEEGG----QLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLD 685 (898)
T ss_pred hhhccCCCcccccchhHH----HHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHh
Confidence 233322221 0122222 4556665555 477799997766666665555443
No 306
>PRK04040 adenylate kinase; Provisional
Probab=95.86 E-value=0.0077 Score=51.02 Aligned_cols=24 Identities=29% Similarity=0.548 Sum_probs=21.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+|.|+|++|+||||+++.+...
T Consensus 2 ~~~i~v~G~pG~GKtt~~~~l~~~ 25 (188)
T PRK04040 2 MKVVVVTGVPGVGKTTVLNKALEK 25 (188)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHH
Confidence 368999999999999999999775
No 307
>PRK00131 aroK shikimate kinase; Reviewed
Probab=95.86 E-value=0.0072 Score=50.13 Aligned_cols=25 Identities=32% Similarity=0.481 Sum_probs=22.2
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
....|.|+|++|+||||+|+.+...
T Consensus 3 ~~~~i~l~G~~GsGKstla~~La~~ 27 (175)
T PRK00131 3 KGPNIVLIGFMGAGKSTIGRLLAKR 27 (175)
T ss_pred CCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 3468999999999999999999875
No 308
>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=95.86 E-value=0.026 Score=50.65 Aligned_cols=23 Identities=30% Similarity=0.297 Sum_probs=18.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+.|.|.|.+|+||||+|+.+...
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~ 24 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKY 24 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHH
T ss_pred EEEEEEcCCCCcHHHHHHHHHHH
Confidence 57899999999999999999875
No 309
>PRK08927 fliI flagellum-specific ATP synthase; Validated
Probab=95.85 E-value=0.031 Score=53.35 Aligned_cols=87 Identities=20% Similarity=0.210 Sum_probs=52.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCCCC------CCCCH-----
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQNV------DNHNL----- 281 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~~------~~~~~----- 281 (350)
.-..++|+|..|+|||||.+.++.... .+..+.+-+.+... +.+++.+.+..-+..... +....
T Consensus 157 ~Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a 232 (442)
T PRK08927 157 RGQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA 232 (442)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence 346789999999999999999987532 23455566766554 335555555432211110 11111
Q ss_pred HHHHHHHHHHc--CCceEEEEEeCC
Q 048163 282 NKLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 282 ~~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
....-.+.+++ ++++.|+++||+
T Consensus 233 ~~~a~tiAEyfrd~G~~Vll~~Dsl 257 (442)
T PRK08927 233 AYLTLAIAEYFRDQGKDVLCLMDSV 257 (442)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEeCc
Confidence 11222344444 689999999999
No 310
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=95.84 E-value=0.019 Score=44.79 Aligned_cols=50 Identities=20% Similarity=0.312 Sum_probs=33.5
Q ss_pred ccccchhhHHHHHHHHhcC-CCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 189 KVYGRETEKKDVVELLLRD-DLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~-~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++|..-..+.+++.+..- ...+++++-|++.+|+.|+|||.+++.+.+.
T Consensus 26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ 76 (127)
T PF06309_consen 26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH 76 (127)
T ss_pred HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence 4556554444444444321 0114667899999999999999988888765
No 311
>COG3903 Predicted ATPase [General function prediction only]
Probab=95.84 E-value=0.0021 Score=59.64 Aligned_cols=115 Identities=18% Similarity=0.198 Sum_probs=68.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHH-HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFR-LTKTILISIVPDQNVDNHNLNKLQEELKKKL 292 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~-~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l 292 (350)
..+.+.++|+|||||||++-++.. ....|....|..--.+.+-.. ++-.....++....+.... ...+....
T Consensus 13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~~~----~~~~~~~~ 85 (414)
T COG3903 13 ALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPGDSA----VDTLVRRI 85 (414)
T ss_pred hhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhcccccccchHH----HHHHHHHH
Confidence 468899999999999999998876 456677656555444454444 4444444455543322222 33445556
Q ss_pred CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChh
Q 048163 293 SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQE 336 (350)
Q Consensus 293 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~ 336 (350)
.++|.++|+||..+-. +.-..+.-.+..+.+.-.|+.|+|...
T Consensus 86 ~~rr~llvldncehl~-~~~a~~i~all~~~~~~~~~atsre~~ 128 (414)
T COG3903 86 GDRRALLVLDNCEHLL-DACAALIVALLGACPRLAILATSREAI 128 (414)
T ss_pred hhhhHHHHhcCcHHHH-HHHHHHHHHHHccchhhhhHHHhHhhh
Confidence 6789999999993321 122222223333334456777777643
No 312
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=95.84 E-value=0.011 Score=49.11 Aligned_cols=24 Identities=33% Similarity=0.505 Sum_probs=22.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.++.|.||.|+|||||++.++.+
T Consensus 4 G~l~vlsgPSG~GKsTl~k~L~~~ 27 (191)
T COG0194 4 GLLIVLSGPSGVGKSTLVKALLED 27 (191)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhh
Confidence 468899999999999999999986
No 313
>PRK05922 type III secretion system ATPase; Validated
Probab=95.84 E-value=0.029 Score=53.48 Aligned_cols=86 Identities=10% Similarity=0.198 Sum_probs=50.2
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhCCCCCC------CCCCH-----H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIVPDQNV------DNHNL-----N 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~------~~~~~-----~ 282 (350)
-..++|.|+.|+|||||.+.+.... ..+....+.+++. ..+.+++.+........... +.... .
T Consensus 157 GqrigI~G~nG~GKSTLL~~Ia~~~----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~ 232 (434)
T PRK05922 157 GQRIGVFSEPGSGKSSLLSTIAKGS----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAG 232 (434)
T ss_pred CcEEEEECCCCCChHHHHHHHhccC----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHH
Confidence 3568999999999999999998642 2233444444443 23445555555433322110 11111 1
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++||+
T Consensus 233 ~~a~tiAEyfrd~G~~VLl~~Dsl 256 (434)
T PRK05922 233 RAAMTIAEYFRDQGHRVLFIMDSL 256 (434)
T ss_pred HHHHHHHHHHHHcCCCEEEeccch
Confidence 1223344554 589999999999
No 314
>PHA00729 NTP-binding motif containing protein
Probab=95.83 E-value=0.014 Score=50.55 Aligned_cols=25 Identities=44% Similarity=0.468 Sum_probs=22.1
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
....|.|.|.+|+||||||..+.+.
T Consensus 16 ~f~nIlItG~pGvGKT~LA~aLa~~ 40 (226)
T PHA00729 16 GFVSAVIFGKQGSGKTTYALKVARD 40 (226)
T ss_pred CeEEEEEECCCCCCHHHHHHHHHHH
Confidence 3567999999999999999999875
No 315
>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=95.82 E-value=0.034 Score=52.54 Aligned_cols=51 Identities=27% Similarity=0.359 Sum_probs=36.5
Q ss_pred cccccchhhHHHHHHHHhcC--------CCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRD--------DLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++|.++.++.+...+... +.......+.|.++|++|+|||++|+.+...
T Consensus 12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~ 70 (441)
T TIGR00390 12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL 70 (441)
T ss_pred hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence 45788888887776655531 1011223477899999999999999999875
No 316
>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=95.82 E-value=0.033 Score=53.03 Aligned_cols=86 Identities=22% Similarity=0.271 Sum_probs=48.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhCCCCCC------CCCCHHH----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIVPDQNV------DNHNLNK---- 283 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~~------~~~~~~~---- 283 (350)
-..++|.|..|+|||||.+.+....+ . +..+.+.+... ..+.++....+..-...... +......
T Consensus 140 Gq~i~I~G~sG~GKTtLl~~I~~~~~---~-~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~ 215 (418)
T TIGR03498 140 GQRLGIFAGSGVGKSTLLSMLARNTD---A-DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAA 215 (418)
T ss_pred CcEEEEECCCCCChHHHHHHHhCCCC---C-CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHH
Confidence 46789999999999999998886422 1 22222333332 33455555555442221110 1111111
Q ss_pred -HHHHHHHHc--CCceEEEEEeCC
Q 048163 284 -LQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 284 -~~~~l~~~l--~~kr~LlVlDdv 304 (350)
..-.+.+++ ++++.||++||+
T Consensus 216 ~~a~~iAEyfrd~G~~Vll~~Dsl 239 (418)
T TIGR03498 216 YTATAIAEYFRDQGKDVLLLMDSV 239 (418)
T ss_pred HHHHHHHHHHHHcCCCEEEeccch
Confidence 222344554 689999999999
No 317
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=95.81 E-value=0.036 Score=56.54 Aligned_cols=87 Identities=21% Similarity=0.133 Sum_probs=58.9
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC----CCCCHHHHHHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV----DNHNLNKLQEE 287 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~~ 287 (350)
-+.-+++-|.|+.|+|||||+.+++.. ....-..++|+...+.++.. .+++++.+... .....+.....
T Consensus 57 ip~GsiteI~G~~GsGKTtLal~~~~~--a~~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~ 129 (790)
T PRK09519 57 LPRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEI 129 (790)
T ss_pred ccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHH
Confidence 345688889999999999999887654 22233567999988877732 55555554221 23444556666
Q ss_pred HHHHcC-CceEEEEEeCCC
Q 048163 288 LKKKLS-GKIFLLVLDDVW 305 (350)
Q Consensus 288 l~~~l~-~kr~LlVlDdv~ 305 (350)
+...++ ++--|||+|.+-
T Consensus 130 i~~lv~~~~~~LVVIDSI~ 148 (790)
T PRK09519 130 ADMLIRSGALDIVVIDSVA 148 (790)
T ss_pred HHHHhhcCCCeEEEEcchh
Confidence 666664 466789999984
No 318
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=95.81 E-value=0.033 Score=47.06 Aligned_cols=42 Identities=26% Similarity=0.245 Sum_probs=28.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhcccccccc--------CceeEEEeCCCC
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHF--------DLKAWTCVSDDF 257 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F--------~~~~wv~~~~~~ 257 (350)
.+..|.|++|+|||+++.++....-....| ..++|++...+.
T Consensus 33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~ 82 (193)
T PF13481_consen 33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSE 82 (193)
T ss_dssp SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-H
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCH
Confidence 478899999999999999987653322222 367888877753
No 319
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.80 E-value=0.049 Score=55.45 Aligned_cols=87 Identities=20% Similarity=0.194 Sum_probs=47.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC--HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD--VFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~--~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l 292 (350)
..++.++|+.|+||||++.++............+..+... .+. ..+-++...+.++.... ...+..++.+.+.+ +
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~D-t~RigA~eQL~~~a~~~gvpv~-~~~~~~~l~~al~~-~ 261 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTD-SFRIGALEQLRIYGRILGVPVH-AVKDAADLRFALAA-L 261 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCc-ccchHHHHHHHHHHHhCCCCcc-ccCCHHHHHHHHHH-h
Confidence 4799999999999999999887653211111233444432 232 34445555555554332 23344444444443 3
Q ss_pred CCceEEEEEeCCC
Q 048163 293 SGKIFLLVLDDVW 305 (350)
Q Consensus 293 ~~kr~LlVlDdv~ 305 (350)
+++ =+|++|-..
T Consensus 262 ~~~-D~VLIDTAG 273 (767)
T PRK14723 262 GDK-HLVLIDTVG 273 (767)
T ss_pred cCC-CEEEEeCCC
Confidence 333 356666664
No 320
>PRK04328 hypothetical protein; Provisional
Probab=95.77 E-value=0.035 Score=49.29 Aligned_cols=42 Identities=17% Similarity=0.209 Sum_probs=32.0
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD 256 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~ 256 (350)
+.-.++.|.|++|+|||+|+.++.... -..-..++|++..++
T Consensus 21 p~gs~ili~G~pGsGKT~l~~~fl~~~--~~~ge~~lyis~ee~ 62 (249)
T PRK04328 21 PERNVVLLSGGPGTGKSIFSQQFLWNG--LQMGEPGVYVALEEH 62 (249)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHH--HhcCCcEEEEEeeCC
Confidence 456899999999999999999976542 223456788887663
No 321
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.77 E-value=0.055 Score=52.41 Aligned_cols=25 Identities=28% Similarity=0.331 Sum_probs=22.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
..+++++|+.|+||||++.++....
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~ 280 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARC 280 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHH
Confidence 4799999999999999999998653
No 322
>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=95.75 E-value=0.033 Score=57.39 Aligned_cols=51 Identities=24% Similarity=0.186 Sum_probs=35.4
Q ss_pred cccccchhhHHHHHHHHhcCCC-------CCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDL-------SNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++.|.+..++.|.+.+.-+-. .+-...+.+.++|++|+|||+||+.+.+.
T Consensus 453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e 510 (733)
T TIGR01243 453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATE 510 (733)
T ss_pred hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 4467777777777665542110 01233566889999999999999999986
No 323
>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=95.75 E-value=0.0082 Score=50.27 Aligned_cols=23 Identities=30% Similarity=0.470 Sum_probs=20.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++.|.|+.|+|||||++.+...
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 47899999999999999998764
No 324
>COG3899 Predicted ATPase [General function prediction only]
Probab=95.75 E-value=0.027 Score=58.75 Aligned_cols=46 Identities=33% Similarity=0.510 Sum_probs=39.9
Q ss_pred cccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 190 VYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 190 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
++||+.+.+.|.+.+.... .....++.+.|..|+|||+|++.|..-
T Consensus 2 l~GRe~ev~~Ll~~f~~v~---~g~~~~~lv~G~sGIGKsalv~ev~~~ 47 (849)
T COG3899 2 LYGRETELAQLLAAFDRVS---KGRGEVVLVAGESGIGKSALVNEVHKP 47 (849)
T ss_pred CCchHhHHHHHHHHHHHHh---CCCeEEEEEeecCCCcHHHHHHHHHHH
Confidence 6899999999999987653 345669999999999999999999875
No 325
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.75 E-value=0.024 Score=50.56 Aligned_cols=89 Identities=18% Similarity=0.111 Sum_probs=59.2
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCC-----------------
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQ----------------- 274 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~----------------- 274 (350)
-+.-+++.|.|.+|+|||+++.++... ...++..++||+..+.. .++.+...+ ++...
T Consensus 20 ~p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~~--~~l~~~~~~-~g~d~~~~~~~g~l~i~d~~~~ 94 (260)
T COG0467 20 LPRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEESP--EELLENARS-FGWDLEVYIEKGKLAILDAFLS 94 (260)
T ss_pred CcCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCCH--HHHHHHHHH-cCCCHHHHhhcCCEEEEEcccc
Confidence 346789999999999999999999875 44558889999988743 333333322 22110
Q ss_pred -CC-------CCCCHHHHHHHHHHHcCC-ceEEEEEeCCC
Q 048163 275 -NV-------DNHNLNKLQEELKKKLSG-KIFLLVLDDVW 305 (350)
Q Consensus 275 -~~-------~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~ 305 (350)
.. ...+...+...+.+.... +..-+|+|++-
T Consensus 95 ~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~ 134 (260)
T COG0467 95 EKGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSIT 134 (260)
T ss_pred ccccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCc
Confidence 00 123455666666666533 36788999994
No 326
>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=95.75 E-value=0.0067 Score=50.95 Aligned_cols=22 Identities=27% Similarity=0.418 Sum_probs=19.8
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|.|.|++|+||||+|+.+...
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~ 22 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVEN 22 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5789999999999999998774
No 327
>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=95.71 E-value=0.065 Score=55.15 Aligned_cols=104 Identities=13% Similarity=0.196 Sum_probs=52.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHc--C
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKL--S 293 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l--~ 293 (350)
++..|.|.+|+||||+++.+..-.+.. ...+.+.+..... ...+.. .......++..+...+.... -
T Consensus 369 ~~~il~G~aGTGKTtll~~i~~~~~~~---g~~V~~~ApTg~A-----a~~L~~---~~g~~a~Ti~~~~~~~~~~~~~~ 437 (744)
T TIGR02768 369 DIAVVVGRAGTGKSTMLKAAREAWEAA---GYRVIGAALSGKA-----AEGLQA---ESGIESRTLASLEYAWANGRDLL 437 (744)
T ss_pred CEEEEEecCCCCHHHHHHHHHHHHHhC---CCeEEEEeCcHHH-----HHHHHh---ccCCceeeHHHHHhhhccCcccC
Confidence 478899999999999999987542211 2233333332111 111211 11112233333322111100 1
Q ss_pred CceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec
Q 048163 294 GKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA 332 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt 332 (350)
.+.-|||+|++...+......|.... ...|++||+.=
T Consensus 438 ~~~~llIvDEasMv~~~~~~~Ll~~~--~~~~~kliLVG 474 (744)
T TIGR02768 438 SDKDVLVIDEAGMVGSRQMARVLKEA--EEAGAKVVLVG 474 (744)
T ss_pred CCCcEEEEECcccCCHHHHHHHHHHH--HhcCCEEEEEC
Confidence 34679999999655444444443322 23578877754
No 328
>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....
Probab=95.71 E-value=0.044 Score=47.37 Aligned_cols=83 Identities=22% Similarity=0.333 Sum_probs=51.4
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCC-----CCCCCH--------
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQN-----VDNHNL-------- 281 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~-----~~~~~~-------- 281 (350)
..++|.|.+|+|||+|+..+.+... -+..+++.+.+.. .+.++.+++...-..... ......
T Consensus 16 qr~~I~g~~g~GKt~Ll~~i~~~~~----~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~ 91 (215)
T PF00006_consen 16 QRIGIFGGAGVGKTVLLQEIANNQD----ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY 91 (215)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHCT----TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred CEEEEEcCcccccchhhHHHHhccc----ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence 5789999999999999999988632 2334888887664 445566655433111100 011111
Q ss_pred --HHHHHHHHHHcCCceEEEEEeCC
Q 048163 282 --NKLQEELKKKLSGKIFLLVLDDV 304 (350)
Q Consensus 282 --~~~~~~l~~~l~~kr~LlVlDdv 304 (350)
-...+.+++ ++++.|+++||+
T Consensus 92 ~a~t~AEyfrd--~G~dVlli~Dsl 114 (215)
T PF00006_consen 92 TALTIAEYFRD--QGKDVLLIIDSL 114 (215)
T ss_dssp HHHHHHHHHHH--TTSEEEEEEETH
T ss_pred cchhhhHHHhh--cCCceeehhhhh
Confidence 112333333 799999999999
No 329
>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=95.70 E-value=0.024 Score=46.36 Aligned_cols=117 Identities=17% Similarity=0.153 Sum_probs=61.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC--CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcC
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF--DVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLS 293 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~ 293 (350)
.+++|+|+.|.|||||.+.+.... ......+++.-.... .... ....+.... +-..-+...-.+...+.
T Consensus 26 ~~~~i~G~nGsGKStll~~l~g~~---~~~~G~i~~~~~~~~~~~~~~----~~~~i~~~~--qlS~G~~~r~~l~~~l~ 96 (157)
T cd00267 26 EIVALVGPNGSGKSTLLRAIAGLL---KPTSGEILIDGKDIAKLPLEE----LRRRIGYVP--QLSGGQRQRVALARALL 96 (157)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC---CCCccEEEECCEEcccCCHHH----HHhceEEEe--eCCHHHHHHHHHHHHHh
Confidence 689999999999999999998642 223344444322111 1111 111111100 01111222233455555
Q ss_pred CceEEEEEeCCCCC-CcccHhhhcCccCC-CCCCceEEEecCChhHHHhc
Q 048163 294 GKIFLLVLDDVWNE-NYNDWDRLRPPFEA-GAPGSKIIVTARNQEVAAIM 341 (350)
Q Consensus 294 ~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTtr~~~va~~~ 341 (350)
...=++++|+.-.. +......+...+.. ...+..++++|.+.+.....
T Consensus 97 ~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~~ 146 (157)
T cd00267 97 LNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAELA 146 (157)
T ss_pred cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHh
Confidence 56788999998432 22223334333321 12256889999988776654
No 330
>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=95.70 E-value=0.0083 Score=50.24 Aligned_cols=23 Identities=35% Similarity=0.590 Sum_probs=20.9
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+++.|+|+.|+|||||++.+...
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~~ 24 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEE 24 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHcc
Confidence 57899999999999999999874
No 331
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=95.69 E-value=0.0081 Score=61.75 Aligned_cols=120 Identities=15% Similarity=0.123 Sum_probs=60.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC--CCCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN--VDNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~~l~~~l 292 (350)
...+.|.|+.|.||||+.+.+.-..- .....++|.+.... ...++..+...++.... ........-...+...+
T Consensus 322 ~~~liItGpNg~GKSTlLK~i~~~~l---~aq~G~~Vpa~~~~-~~~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~il 397 (771)
T TIGR01069 322 KRVLAITGPNTGGKTVTLKTLGLLAL---MFQSGIPIPANEHS-EIPYFEEIFADIGDEQSIEQNLSTFSGHMKNISAIL 397 (771)
T ss_pred ceEEEEECCCCCCchHHHHHHHHHHH---HHHhCCCccCCccc-cccchhheeeecChHhHHhhhhhHHHHHHHHHHHHH
Confidence 47899999999999999999865310 01111222222210 00112222211111110 01111222222233333
Q ss_pred C--CceEEEEEeCCCCCC-cccHhhh----cCccCCCCCCceEEEecCChhHHHh
Q 048163 293 S--GKIFLLVLDDVWNEN-YNDWDRL----RPPFEAGAPGSKIIVTARNQEVAAI 340 (350)
Q Consensus 293 ~--~kr~LlVlDdv~~~~-~~~~~~l----~~~l~~~~~gs~iivTtr~~~va~~ 340 (350)
. ..+-|++||+.-... +.+...+ ...+. ..|+.+|+||+..++...
T Consensus 398 ~~~~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~ 450 (771)
T TIGR01069 398 SKTTENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKAL 450 (771)
T ss_pred HhcCCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHH
Confidence 2 478999999995532 2222233 22232 358899999999988654
No 332
>PRK07594 type III secretion system ATPase SsaN; Validated
Probab=95.68 E-value=0.047 Score=52.07 Aligned_cols=86 Identities=19% Similarity=0.260 Sum_probs=50.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCC------CCCCCHHH----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQN------VDNHNLNK---- 283 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~------~~~~~~~~---- 283 (350)
-..++|.|..|+|||||.+.+.... +.+..+++.+.+.. .+.+++.+....-..... .+......
T Consensus 155 GqrigI~G~sG~GKSTLL~~I~~~~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~ 230 (433)
T PRK07594 155 GQRVGIFSAPGVGKSTLLAMLCNAP----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRAL 230 (433)
T ss_pred CCEEEEECCCCCCccHHHHHhcCCC----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHH
Confidence 4678999999999999999988742 23445666565544 334555554432111000 01111111
Q ss_pred -HHHHHHHHc--CCceEEEEEeCC
Q 048163 284 -LQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 284 -~~~~l~~~l--~~kr~LlVlDdv 304 (350)
..-.+.+++ ++++.||++||+
T Consensus 231 ~~a~tiAEyfrd~G~~VLl~~Dsl 254 (433)
T PRK07594 231 FVATTIAEFFRDNGKRVVLLADSL 254 (433)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeCH
Confidence 122344444 589999999999
No 333
>PRK06936 type III secretion system ATPase; Provisional
Probab=95.67 E-value=0.041 Score=52.52 Aligned_cols=87 Identities=20% Similarity=0.245 Sum_probs=53.1
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCCCC-----CCC-CHH----
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQNV-----DNH-NLN---- 282 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~~-----~~~-~~~---- 282 (350)
+-..++|.|..|+|||||.+.+++... -+.++++-+.+... +.+++...+..-+..... ... ...
T Consensus 161 ~Gq~~~I~G~sG~GKStLl~~Ia~~~~----~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a 236 (439)
T PRK06936 161 EGQRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKA 236 (439)
T ss_pred CCCEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHH
Confidence 346799999999999999999988532 35677777877654 344454444321111110 111 111
Q ss_pred -HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 -KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 -~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.|+++|++
T Consensus 237 ~~~a~tiAEyfrd~G~~Vll~~Dsl 261 (439)
T PRK06936 237 GFVATSIAEYFRDQGKRVLLLMDSV 261 (439)
T ss_pred HHHHHHHHHHHHHcCCCEEEeccch
Confidence 1122344444 689999999999
No 334
>PRK15453 phosphoribulokinase; Provisional
Probab=95.67 E-value=0.079 Score=47.45 Aligned_cols=78 Identities=12% Similarity=0.088 Sum_probs=43.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCc-eeEEEeCCCC--CHHHHHHHH--HHHhCCCC-C--CCCCCHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDL-KAWTCVSDDF--DVFRLTKTI--LISIVPDQ-N--VDNHNLNKLQ 285 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~--~~~~~~~~i--l~~l~~~~-~--~~~~~~~~~~ 285 (350)
+..+|+|.|.+|+||||+++.+..... +... ...++..... +-.++-..+ ...-+.+. . +++.+.+.+.
T Consensus 4 k~piI~ItG~SGsGKTTva~~l~~if~---~~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL~ 80 (290)
T PRK15453 4 KHPIIAVTGSSGAGTTTVKRAFEKIFR---RENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDELE 80 (290)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHh---hcCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHHH
Confidence 568999999999999999999875321 1111 2333332221 222221111 11111111 1 3677888888
Q ss_pred HHHHHHcCC
Q 048163 286 EELKKKLSG 294 (350)
Q Consensus 286 ~~l~~~l~~ 294 (350)
+.++...++
T Consensus 81 ~~l~~l~~~ 89 (290)
T PRK15453 81 QLFREYGET 89 (290)
T ss_pred HHHHHHhcC
Confidence 888876653
No 335
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=95.67 E-value=0.041 Score=54.30 Aligned_cols=133 Identities=13% Similarity=0.014 Sum_probs=68.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
..++|....+.++++.+..-.. .-.-|.|+|..|+||+++|+.++.... ..-..-+.++++... .+.+...
T Consensus 204 ~~~ig~s~~~~~~~~~~~~~A~----~~~pvlI~GE~GtGK~~lA~aiH~~s~--r~~~pfv~inca~~~--~~~~e~e- 274 (520)
T PRK10820 204 SQIVAVSPKMRQVVEQARKLAM----LDAPLLITGDTGTGKDLLAYACHLRSP--RGKKPFLALNCASIP--DDVVESE- 274 (520)
T ss_pred cceeECCHHHHHHHHHHHHHhC----CCCCEEEECCCCccHHHHHHHHHHhCC--CCCCCeEEeccccCC--HHHHHHH-
Confidence 3578888777777776654221 123478999999999999999875421 111222456665533 2222221
Q ss_pred HHhCCCCCCCCCCHHHHHHHHHHHc-CCceEEEEEeCCCCCCcccHhhhcCccCCCC-----------CCceEEEecCC
Q 048163 268 ISIVPDQNVDNHNLNKLQEELKKKL-SGKIFLLVLDDVWNENYNDWDRLRPPFEAGA-----------PGSKIIVTARN 334 (350)
Q Consensus 268 ~~l~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTtr~ 334 (350)
+.+............. ...+ ....=.|+||+|..........+...+..+. ...+||.||..
T Consensus 275 --lFG~~~~~~~~~~~~~---~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~ 348 (520)
T PRK10820 275 --LFGHAPGAYPNALEGK---KGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQK 348 (520)
T ss_pred --hcCCCCCCcCCcccCC---CChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCC
Confidence 1111110000000000 0011 1223457899997766556666666554321 12377776654
No 336
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=95.65 E-value=0.01 Score=45.84 Aligned_cols=22 Identities=32% Similarity=0.604 Sum_probs=19.9
Q ss_pred EEEeecCCCchHHHHHHHHhcc
Q 048163 218 IPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~~ 239 (350)
|.|+|..|+|||||.+.+....
T Consensus 2 I~V~G~~g~GKTsLi~~l~~~~ 23 (119)
T PF08477_consen 2 IVVLGDSGVGKTSLIRRLCGGE 23 (119)
T ss_dssp EEEECSTTSSHHHHHHHHHHSS
T ss_pred EEEECcCCCCHHHHHHHHhcCC
Confidence 7899999999999999998764
No 337
>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=95.65 E-value=0.011 Score=46.36 Aligned_cols=27 Identities=33% Similarity=0.518 Sum_probs=18.5
Q ss_pred EEEeecCCCchHHHHHHHHhccccccccC
Q 048163 218 IPIIGMGGLGKTTLAQLVYNDKQVQDHFD 246 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~~~~~~~F~ 246 (350)
|.|+|.+|+|||++|+.+... ....|.
T Consensus 2 vLleg~PG~GKT~la~~lA~~--~~~~f~ 28 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARS--LGLSFK 28 (131)
T ss_dssp EEEES---HHHHHHHHHHHHH--TT--EE
T ss_pred EeeECCCccHHHHHHHHHHHH--cCCcee
Confidence 579999999999999999885 555664
No 338
>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.
Probab=95.65 E-value=0.041 Score=50.57 Aligned_cols=86 Identities=20% Similarity=0.250 Sum_probs=49.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC-CCCHHHHHHHHHHHhCCCCCC------CCCCH-----H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD-DFDVFRLTKTILISIVPDQNV------DNHNL-----N 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~------~~~~~-----~ 282 (350)
-..++|+|+.|+|||||.+.+..... -+..+..-+.. ...+.++....+..-...... +.... .
T Consensus 69 Gqri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~ 144 (326)
T cd01136 69 GQRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA 144 (326)
T ss_pred CcEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH
Confidence 35789999999999999999887532 22334444443 335556666555542221110 11111 1
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++|+.||++||+
T Consensus 145 ~~a~~~AEyfr~~g~~Vll~~Dsl 168 (326)
T cd01136 145 YTATAIAEYFRDQGKDVLLLMDSL 168 (326)
T ss_pred HHHHHHHHHHHHcCCCeEEEeccc
Confidence 1222333444 689999999998
No 339
>PRK00625 shikimate kinase; Provisional
Probab=95.65 E-value=0.0088 Score=49.89 Aligned_cols=22 Identities=23% Similarity=0.326 Sum_probs=19.8
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.|.|+|++|+||||+++.+.+.
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~~ 23 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAKF 23 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4889999999999999999765
No 340
>PRK00889 adenylylsulfate kinase; Provisional
Probab=95.63 E-value=0.012 Score=49.10 Aligned_cols=25 Identities=28% Similarity=0.391 Sum_probs=22.2
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+|.|.|++|+||||+|+.+...
T Consensus 3 ~g~~i~~~G~~GsGKST~a~~la~~ 27 (175)
T PRK00889 3 RGVTVWFTGLSGAGKTTIARALAEK 27 (175)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3469999999999999999999875
No 341
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=95.62 E-value=0.011 Score=47.38 Aligned_cols=39 Identities=21% Similarity=0.366 Sum_probs=27.7
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD 255 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~ 255 (350)
++|.|+|+.|+|||||++.+.+... ...+...+..+...
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~-~~g~~v~~ik~~~~ 39 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELK-RRGYRVAVIKHTDH 39 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEEEE-ST
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHh-HcCCceEEEEEccC
Confidence 4799999999999999999998732 34455555666655
No 342
>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.
Probab=95.62 E-value=0.073 Score=47.53 Aligned_cols=86 Identities=20% Similarity=0.199 Sum_probs=49.3
Q ss_pred eEEEEEeecCCCchHHHH-HHHHhccccccccCce-eEEEeCCCCC-HHHHHHHHHHHhCCCCC------CCCCCHHH--
Q 048163 215 FSVIPIIGMGGLGKTTLA-QLVYNDKQVQDHFDLK-AWTCVSDDFD-VFRLTKTILISIVPDQN------VDNHNLNK-- 283 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa-~~v~~~~~~~~~F~~~-~wv~~~~~~~-~~~~~~~il~~l~~~~~------~~~~~~~~-- 283 (350)
-.-++|.|..|+|||+|+ ..+.+.. +-+.+ +++-+.+... +.+++..+...-..... .+......
T Consensus 69 GQr~~Ifg~~g~GKt~L~l~~i~~~~----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~ 144 (274)
T cd01132 69 GQRELIIGDRQTGKTAIAIDTIINQK----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYL 144 (274)
T ss_pred CCEEEeeCCCCCCccHHHHHHHHHhc----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHH
Confidence 457899999999999996 5565531 23333 6677777654 44566665543211110 01111111
Q ss_pred ---HHHHHHHHc--CCceEEEEEeCC
Q 048163 284 ---LQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 284 ---~~~~l~~~l--~~kr~LlVlDdv 304 (350)
..-.+.+++ ++++.||++||+
T Consensus 145 a~~~a~aiAE~fr~~G~~Vlvl~Dsl 170 (274)
T cd01132 145 APYTGCAMGEYFMDNGKHALIIYDDL 170 (274)
T ss_pred HHHHHHHHHHHHHHCCCCEEEEEcCh
Confidence 112233333 589999999999
No 343
>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=95.60 E-value=0.0097 Score=49.71 Aligned_cols=23 Identities=22% Similarity=0.340 Sum_probs=21.0
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
++|.+.|++|+||||+|+.+...
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHh
Confidence 58999999999999999999765
No 344
>PRK06217 hypothetical protein; Validated
Probab=95.60 E-value=0.011 Score=49.90 Aligned_cols=35 Identities=31% Similarity=0.450 Sum_probs=25.6
Q ss_pred EEEEEeecCCCchHHHHHHHHhcccccccc--CceeEE
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHF--DLKAWT 251 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F--~~~~wv 251 (350)
..|.|.|++|+||||||+.+...... .+| +..+|-
T Consensus 2 ~~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~ 38 (183)
T PRK06217 2 MRIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWL 38 (183)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeec
Confidence 35899999999999999999876432 233 345554
No 345
>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=95.59 E-value=0.0087 Score=48.50 Aligned_cols=22 Identities=27% Similarity=0.616 Sum_probs=19.5
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
++.|.|++|+||||+|+.+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 3679999999999999998775
No 346
>PRK06793 fliI flagellum-specific ATP synthase; Validated
Probab=95.58 E-value=0.074 Score=50.75 Aligned_cols=124 Identities=15% Similarity=0.119 Sum_probs=69.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC------CCCCC-----HHH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN------VDNHN-----LNK 283 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~------~~~~~-----~~~ 283 (350)
-..++|.|..|+|||||.+.++...+. ...++...-.....+.+++...+..-+.... .+... ...
T Consensus 156 Gqri~I~G~sG~GKTtLl~~Ia~~~~~---~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~ 232 (432)
T PRK06793 156 GQKIGIFAGSGVGKSTLLGMIAKNAKA---DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAK 232 (432)
T ss_pred CcEEEEECCCCCChHHHHHHHhccCCC---CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHHH
Confidence 457899999999999999999875321 1223332223335666777766655322111 01111 111
Q ss_pred HHHHHHHHc--CCceEEEEEeCCCCCCcccHhhhcCcc--CCCCCCceEEEecCChhHHHhcCC
Q 048163 284 LQEELKKKL--SGKIFLLVLDDVWNENYNDWDRLRPPF--EAGAPGSKIIVTARNQEVAAIMGT 343 (350)
Q Consensus 284 ~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l--~~~~~gs~iivTtr~~~va~~~~~ 343 (350)
....+.+++ ++++.||++|++-... ..+..+...+ ++. .|-...+.|....++...+.
T Consensus 233 ~a~~iAEyfr~~G~~VLlilDslTr~a-~A~reisl~~~e~p~-~G~~~~~~s~l~~L~ERag~ 294 (432)
T PRK06793 233 LATSIAEYFRDQGNNVLLMMDSVTRFA-DARRSVDIAVKELPI-GGKTLLMESYMKKLLERSGK 294 (432)
T ss_pred HHHHHHHHHHHcCCcEEEEecchHHHH-HHHHHHHHHhcCCCC-CCeeeeeeccchhHHHHhcc
Confidence 223344444 5899999999993321 2333444333 222 36666777777777766553
No 347
>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=95.57 E-value=0.026 Score=51.72 Aligned_cols=114 Identities=15% Similarity=0.100 Sum_probs=56.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCC
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSG 294 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~ 294 (350)
...+.|+|+.|+|||||++.+.... .... .++.+.-........ .... ++...........-...+.+...|+.
T Consensus 144 ~~~ili~G~tGsGKTTll~al~~~~--~~~~-~iv~ied~~El~~~~--~~~~-~l~~~~~~~~~~~~~~~~~l~~~Lr~ 217 (308)
T TIGR02788 144 RKNIIISGGTGSGKTTFLKSLVDEI--PKDE-RIITIEDTREIFLPH--PNYV-HLFYSKGGQGLAKVTPKDLLQSCLRM 217 (308)
T ss_pred CCEEEEECCCCCCHHHHHHHHHccC--Cccc-cEEEEcCccccCCCC--CCEE-EEEecCCCCCcCccCHHHHHHHHhcC
Confidence 3689999999999999999887642 1111 122221111111100 0000 00000000111112234455666777
Q ss_pred ceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChhHHH
Q 048163 295 KIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va~ 339 (350)
..=.|++|++-+ .+.+..+.. +..+.. -++.|++..+++.
T Consensus 218 ~pd~ii~gE~r~--~e~~~~l~a-~~~g~~--~~i~T~Ha~~~~~ 257 (308)
T TIGR02788 218 RPDRIILGELRG--DEAFDFIRA-VNTGHP--GSITTLHAGSPEE 257 (308)
T ss_pred CCCeEEEeccCC--HHHHHHHHH-HhcCCC--eEEEEEeCCCHHH
Confidence 777899999954 244443322 222221 3578888776554
No 348
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=95.56 E-value=0.083 Score=50.37 Aligned_cols=26 Identities=35% Similarity=0.455 Sum_probs=22.5
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
....+|.++|+.|+||||++.++...
T Consensus 98 ~~~~vi~lvG~~GvGKTTtaaKLA~~ 123 (429)
T TIGR01425 98 GKQNVIMFVGLQGSGKTTTCTKLAYY 123 (429)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 34689999999999999999988754
No 349
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=95.56 E-value=0.012 Score=51.74 Aligned_cols=64 Identities=19% Similarity=0.166 Sum_probs=39.1
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEE-------eCCCCCHHHH--HHHHHHHhCCCCC
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTC-------VSDDFDVFRL--TKTILISIVPDQN 275 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~-------~~~~~~~~~~--~~~il~~l~~~~~ 275 (350)
.++...|.++||+|+||||..+.++.+..-++.-.+++-+. ..-+.++.+. +++..++.+....
T Consensus 16 ~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPN 88 (366)
T KOG1532|consen 16 IQRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPN 88 (366)
T ss_pred ccCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCC
Confidence 45678899999999999999999988743333323333221 1222344443 4466666555443
No 350
>PRK09099 type III secretion system ATPase; Provisional
Probab=95.55 E-value=0.049 Score=52.15 Aligned_cols=88 Identities=19% Similarity=0.157 Sum_probs=50.3
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCCCH-----H
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV------DNHNL-----N 282 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~------~~~~~-----~ 282 (350)
.-..++|.|+.|+|||||.+.+...... -..+++..-.+...+.++...+...-...... +.... .
T Consensus 162 ~Gq~~~I~G~sG~GKTtLl~~ia~~~~~---d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~ 238 (441)
T PRK09099 162 EGQRMGIFAPAGVGKSTLMGMFARGTQC---DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAA 238 (441)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhCCCCC---CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHH
Confidence 3468899999999999999999865322 12333333333334555556555432211110 11111 1
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.|+++||+
T Consensus 239 ~~a~tiAEyfrd~G~~VLl~~Dsl 262 (441)
T PRK09099 239 YVATAIAEYFRDRGLRVLLMMDSL 262 (441)
T ss_pred HHHHHHHHHHHHcCCCEEEeccch
Confidence 1222344444 589999999999
No 351
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.54 E-value=0.076 Score=46.49 Aligned_cols=49 Identities=20% Similarity=0.141 Sum_probs=32.2
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
.-.++.|.|+.|+|||||+.++.... .+.. ..+++++... +..++++.+
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~-~~~g-~~~~yi~~e~--~~~~~~~~~ 71 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGF-LQNG-YSVSYVSTQL--TTTEFIKQM 71 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHH-HhCC-CcEEEEeCCC--CHHHHHHHH
Confidence 34699999999999999987665532 1122 3456766443 445666655
No 352
>PHA02774 E1; Provisional
Probab=95.54 E-value=0.042 Score=53.89 Aligned_cols=48 Identities=10% Similarity=0.046 Sum_probs=32.9
Q ss_pred HHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEe
Q 048163 197 KKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCV 253 (350)
Q Consensus 197 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~ 253 (350)
...|..+|.. .++...+.|+||+|+|||.+|..+.+-.. -..+.||+.
T Consensus 421 l~~lk~~l~~-----~PKknciv~~GPP~TGKS~fa~sL~~~L~----G~vi~fvN~ 468 (613)
T PHA02774 421 LTALKDFLKG-----IPKKNCLVIYGPPDTGKSMFCMSLIKFLK----GKVISFVNS 468 (613)
T ss_pred HHHHHHHHhc-----CCcccEEEEECCCCCCHHHHHHHHHHHhC----CCEEEEEEC
Confidence 4555566532 23557899999999999999999987521 233456654
No 353
>PRK00300 gmk guanylate kinase; Provisional
Probab=95.54 E-value=0.011 Score=50.61 Aligned_cols=24 Identities=29% Similarity=0.394 Sum_probs=21.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.+|+|+|+.|+|||||++.+...
T Consensus 5 g~~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 5 GLLIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhh
Confidence 468999999999999999999875
No 354
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=95.53 E-value=0.011 Score=59.79 Aligned_cols=45 Identities=24% Similarity=0.413 Sum_probs=35.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+.++||++|.+++++.|..... + --.++|.+|||||+++.-++..
T Consensus 170 DPvIGRd~EI~r~iqIL~RR~K---N---NPvLiGEpGVGKTAIvEGLA~r 214 (786)
T COG0542 170 DPVIGRDEEIRRTIQILSRRTK---N---NPVLVGEPGVGKTAIVEGLAQR 214 (786)
T ss_pred CCCcChHHHHHHHHHHHhccCC---C---CCeEecCCCCCHHHHHHHHHHH
Confidence 4479999999999999987653 1 1246799999999988777653
No 355
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=95.53 E-value=0.017 Score=50.38 Aligned_cols=88 Identities=22% Similarity=0.214 Sum_probs=54.2
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCC--------------CCC-
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQ--------------NVD- 277 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~--------------~~~- 277 (350)
+.-.++.|.|++|+|||+|+.++.... ....=..++|++...+. .++.+.+- .++.+. ...
T Consensus 17 p~gs~~li~G~~GsGKT~l~~q~l~~~-~~~~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~ 92 (226)
T PF06745_consen 17 PKGSVVLISGPPGSGKTTLALQFLYNG-LKNFGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPER 92 (226)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHHHHH-HHHHT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred CCCcEEEEEeCCCCCcHHHHHHHHHHh-hhhcCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence 456899999999999999999976532 11113457888876643 33333322 332210 001
Q ss_pred ----CCCHHHHHHHHHHHcCC-ceEEEEEeCC
Q 048163 278 ----NHNLNKLQEELKKKLSG-KIFLLVLDDV 304 (350)
Q Consensus 278 ----~~~~~~~~~~l~~~l~~-kr~LlVlDdv 304 (350)
..+...+...+.+.++. +...+|+|.+
T Consensus 93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsl 124 (226)
T PF06745_consen 93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSL 124 (226)
T ss_dssp ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETH
T ss_pred ccccccCHHHHHHHHHHHHHhcCCCEEEEECH
Confidence 35677777777777643 4579999998
No 356
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=95.52 E-value=0.015 Score=48.93 Aligned_cols=36 Identities=28% Similarity=0.375 Sum_probs=27.7
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEE
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTC 252 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~ 252 (350)
.+++.|+||.|+|||||++.+... ....|...++.+
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~--~~~~~~~~v~~T 37 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQE--FPDKFGRVVSHT 37 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHH--STTTEEEEEEEE
T ss_pred CCEEEEECCCCCCHHHHHHHHHHh--cccccccceeec
Confidence 468899999999999999999885 445565444443
No 357
>PRK11823 DNA repair protein RadA; Provisional
Probab=95.52 E-value=0.075 Score=51.31 Aligned_cols=84 Identities=19% Similarity=0.128 Sum_probs=51.4
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC----CCCCHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV----DNHNLNKLQEELK 289 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~~l~ 289 (350)
.-.++.|.|++|+|||||+.++..... ..-..++|++..+.+ .++.. ..+.++..... ...+.+.+...+.
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a--~~g~~vlYvs~Ees~--~qi~~-ra~rlg~~~~~l~~~~e~~l~~i~~~i~ 153 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAARLA--AAGGKVLYVSGEESA--SQIKL-RAERLGLPSDNLYLLAETNLEAILATIE 153 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEccccH--HHHHH-HHHHcCCChhcEEEeCCCCHHHHHHHHH
Confidence 457999999999999999999987522 222456888765533 33322 23444432211 2244555555443
Q ss_pred HHcCCceEEEEEeCCC
Q 048163 290 KKLSGKIFLLVLDDVW 305 (350)
Q Consensus 290 ~~l~~kr~LlVlDdv~ 305 (350)
+ .+.-++|+|.+.
T Consensus 154 ~---~~~~lVVIDSIq 166 (446)
T PRK11823 154 E---EKPDLVVIDSIQ 166 (446)
T ss_pred h---hCCCEEEEechh
Confidence 3 355689999983
No 358
>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=95.52 E-value=0.069 Score=48.78 Aligned_cols=24 Identities=21% Similarity=0.389 Sum_probs=21.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.+++|.|+.|.|||||.+.+...
T Consensus 28 Gei~~l~G~NGaGKTTLl~~l~Gl 51 (301)
T TIGR03522 28 GRIVGFLGPNGAGKSTTMKIITGY 51 (301)
T ss_pred CeEEEEECCCCCCHHHHHHHHhCC
Confidence 468999999999999999998754
No 359
>PF13245 AAA_19: Part of AAA domain
Probab=95.51 E-value=0.024 Score=40.27 Aligned_cols=22 Identities=36% Similarity=0.472 Sum_probs=16.6
Q ss_pred EEEEEeecCCCchH-HHHHHHHh
Q 048163 216 SVIPIIGMGGLGKT-TLAQLVYN 237 (350)
Q Consensus 216 ~vi~I~G~gGvGKT-tLa~~v~~ 237 (350)
+++.|.|++|.||| ++++.+..
T Consensus 11 ~~~vv~g~pGtGKT~~~~~~i~~ 33 (76)
T PF13245_consen 11 PLFVVQGPPGTGKTTTLAARIAE 33 (76)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 57788999999999 44544444
No 360
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=95.51 E-value=0.018 Score=49.93 Aligned_cols=52 Identities=17% Similarity=0.093 Sum_probs=33.1
Q ss_pred EEEEeecCCCchHHHHHHHHhccc-----cccccCceeEEEeCCCCCHHHHHHHHHH
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQ-----VQDHFDLKAWTCVSDDFDVFRLTKTILI 268 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~-----~~~~F~~~~wv~~~~~~~~~~~~~~il~ 268 (350)
+..|+||+|.|||+++..+..... ....-...+-+....+..+..++..+..
T Consensus 19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 788999999999977666655421 1234455566666666677777777766
No 361
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=95.51 E-value=0.05 Score=45.14 Aligned_cols=119 Identities=15% Similarity=0.054 Sum_probs=61.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEE---EeCCCCCHHHHHHHHHH---HhCCCC----CCCCCC---H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWT---CVSDDFDVFRLTKTILI---SIVPDQ----NVDNHN---L 281 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv---~~~~~~~~~~~~~~il~---~l~~~~----~~~~~~---~ 281 (350)
...|-|++..|.||||.|..+.-.. ..+=..+..+ --........++..+.- +.+... .....+ .
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra--~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~ 82 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRA--LGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIA 82 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHH--HHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHH
Confidence 3578888889999999998876542 1111122222 22212333344433200 001100 000011 1
Q ss_pred HHHHHHHHHHcCC-ceEEEEEeCCCCC---CcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 282 NKLQEELKKKLSG-KIFLLVLDDVWNE---NYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 282 ~~~~~~l~~~l~~-kr~LlVlDdv~~~---~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
....+..++.+.. +-=|||||++-.. ..-..+.+...|...+.+..||+|-|+.
T Consensus 83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~ 140 (173)
T TIGR00708 83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC 140 (173)
T ss_pred HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence 2223334444444 4459999999321 1234455666665556678999999986
No 362
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.50 E-value=0.054 Score=50.57 Aligned_cols=82 Identities=26% Similarity=0.227 Sum_probs=53.8
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC----CCCCHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV----DNHNLNKLQEELK 289 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~~l~ 289 (350)
.-.++.|-|.+|+|||||..++..+.. ..- .+++|+-.+... ++ +-....++..... ...+++.....+.
T Consensus 92 ~Gs~iLIgGdPGIGKSTLLLQva~~lA--~~~-~vLYVsGEES~~--Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~ 165 (456)
T COG1066 92 PGSVILIGGDPGIGKSTLLLQVAARLA--KRG-KVLYVSGEESLQ--QI-KLRADRLGLPTNNLYLLAETNLEDIIAELE 165 (456)
T ss_pred cccEEEEccCCCCCHHHHHHHHHHHHH--hcC-cEEEEeCCcCHH--HH-HHHHHHhCCCccceEEehhcCHHHHHHHHH
Confidence 457899999999999999999998633 222 677777665432 22 1223344432221 3456666666555
Q ss_pred HHcCCceEEEEEeCC
Q 048163 290 KKLSGKIFLLVLDDV 304 (350)
Q Consensus 290 ~~l~~kr~LlVlDdv 304 (350)
+ .+.-|+|+|.+
T Consensus 166 ~---~~p~lvVIDSI 177 (456)
T COG1066 166 Q---EKPDLVVIDSI 177 (456)
T ss_pred h---cCCCEEEEecc
Confidence 5 57889999999
No 363
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=95.50 E-value=0.044 Score=51.86 Aligned_cols=52 Identities=25% Similarity=0.356 Sum_probs=37.6
Q ss_pred ccccccchhhHHHHHHHHhcC--------CCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 187 EAKVYGRETEKKDVVELLLRD--------DLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 187 ~~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...++|.++.++.+..++... ..........|.++|+.|+|||+||+.+...
T Consensus 14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~ 73 (443)
T PRK05201 14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL 73 (443)
T ss_pred ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence 345789888888887777531 1001112467899999999999999999875
No 364
>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta. A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.
Probab=95.49 E-value=0.023 Score=54.28 Aligned_cols=89 Identities=16% Similarity=0.189 Sum_probs=56.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCCCC------CCCCH-----H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQNV------DNHNL-----N 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~~------~~~~~-----~ 282 (350)
-.-++|.|.+|+|||+|+.++..... +.+-+.++++-+.+... +.+++.++...-...... +.... .
T Consensus 138 GQr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~ 216 (449)
T TIGR03305 138 GGKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG 216 (449)
T ss_pred CCEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence 46789999999999999999877632 23346788888877664 455666665432211110 11111 1
Q ss_pred HHHHHHHHHc---CCceEEEEEeCC
Q 048163 283 KLQEELKKKL---SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l---~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++||+
T Consensus 217 ~~a~tiAEyfrd~~G~~VLl~~Dsl 241 (449)
T TIGR03305 217 HTALTMAEYFRDDEKQDVLLLIDNI 241 (449)
T ss_pred HHHHHHHHHHHHhcCCceEEEecCh
Confidence 1233455555 468999999999
No 365
>PRK12678 transcription termination factor Rho; Provisional
Probab=95.49 E-value=0.019 Score=56.08 Aligned_cols=100 Identities=19% Similarity=0.210 Sum_probs=53.3
Q ss_pred HHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCcee-EEEeCCCCC-HHHHHHHHHHHhCCCCCC
Q 048163 199 DVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKA-WTCVSDDFD-VFRLTKTILISIVPDQNV 276 (350)
Q Consensus 199 ~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~-wv~~~~~~~-~~~~~~~il~~l~~~~~~ 276 (350)
+++++|..-. .-....|+|++|+|||||++.+.+... ..+-++.+ .+-+.+... +.++.+.+-..+...+..
T Consensus 405 RvIDll~PIG-----kGQR~LIvgpp~aGKTtLL~~IAn~i~-~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D 478 (672)
T PRK12678 405 RVIDLIMPIG-----KGQRGLIVSPPKAGKTTILQNIANAIT-TNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFD 478 (672)
T ss_pred eeeeeecccc-----cCCEeEEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCC
Confidence 4555554432 345678999999999999999988521 12333433 334444332 333333321111111111
Q ss_pred CCC----CHHHHHHHHHHHc--CCceEEEEEeCC
Q 048163 277 DNH----NLNKLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 277 ~~~----~~~~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
... ....+.-.+.++| .++..||+||++
T Consensus 479 ~p~~~~~~~a~~ai~~Ae~fre~G~dVlillDSl 512 (672)
T PRK12678 479 RPPSDHTTVAELAIERAKRLVELGKDVVVLLDSI 512 (672)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence 111 1122333344444 689999999999
No 366
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=95.49 E-value=0.036 Score=46.04 Aligned_cols=79 Identities=16% Similarity=0.167 Sum_probs=44.5
Q ss_pred EEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHh--CCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 218 IPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISI--VPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l--~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
+.|.|..|+|||++|.++... .....+++.-...++. ++...|.+.. .............+.+.+.+. . +
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~-~-~ 73 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDD-EMAERIARHRKRRPAHWRTIETPRDLVSALKEL-D-P 73 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceEeecHHHHHHHHHhc-C-C
Confidence 679999999999999998753 2346677777776654 3444433321 111111111222333333222 2 2
Q ss_pred eEEEEEeCC
Q 048163 296 IFLLVLDDV 304 (350)
Q Consensus 296 r~LlVlDdv 304 (350)
.-.+++|.+
T Consensus 74 ~~~VLIDcl 82 (169)
T cd00544 74 GDVVLIDCL 82 (169)
T ss_pred CCEEEEEcH
Confidence 337999998
No 367
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=95.46 E-value=0.059 Score=48.13 Aligned_cols=43 Identities=19% Similarity=0.235 Sum_probs=31.9
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF 257 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~ 257 (350)
+.-+++.|.|++|+|||+++.++..... ..-..+++++...+.
T Consensus 34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a--~~Ge~vlyis~Ee~~ 76 (259)
T TIGR03878 34 PAYSVINITGVSDTGKSLMVEQFAVTQA--SRGNPVLFVTVESPA 76 (259)
T ss_pred ECCcEEEEEcCCCCCHHHHHHHHHHHHH--hCCCcEEEEEecCCc
Confidence 4568999999999999999999865421 223467888886533
No 368
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=95.45 E-value=0.011 Score=48.60 Aligned_cols=20 Identities=45% Similarity=0.748 Sum_probs=18.6
Q ss_pred EEEEeecCCCchHHHHHHHH
Q 048163 217 VIPIIGMGGLGKTTLAQLVY 236 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~ 236 (350)
.|+|.|.+|+||||+++.+.
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 58999999999999999886
No 369
>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=95.43 E-value=0.011 Score=47.58 Aligned_cols=22 Identities=41% Similarity=0.625 Sum_probs=19.9
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|.|.|+.|+||||+|+.+...
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~ 22 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKK 22 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999864
No 370
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=95.42 E-value=0.052 Score=55.06 Aligned_cols=115 Identities=17% Similarity=0.072 Sum_probs=62.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccc-cccccCceeEEEeCCCCCHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQ-VQDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~-~~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
+.++|....+.++++.+..-.. ...-|.|+|..|+||+++|+.+++... -...| +.|++.... ...+..++
T Consensus 325 ~~l~g~s~~~~~~~~~~~~~a~----~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pf---v~vnc~~~~-~~~~~~el 396 (638)
T PRK11388 325 DHMPQDSPQMRRLIHFGRQAAK----SSFPVLLCGEEGVGKALLAQAIHNESERAAGPY---IAVNCQLYP-DEALAEEF 396 (638)
T ss_pred cceEECCHHHHHHHHHHHHHhC----cCCCEEEECCCCcCHHHHHHHHHHhCCccCCCe---EEEECCCCC-hHHHHHHh
Confidence 3467887777777776654321 223478999999999999999987521 12223 445555432 22222233
Q ss_pred HHHhCCCCCCCCCCHHHHHHHHHHHc-CCceEEEEEeCCCCCCcccHhhhcCccC
Q 048163 267 LISIVPDQNVDNHNLNKLQEELKKKL-SGKIFLLVLDDVWNENYNDWDRLRPPFE 320 (350)
Q Consensus 267 l~~l~~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~ 320 (350)
+........ ..... .+ ....=.|+||++..........|...|.
T Consensus 397 fg~~~~~~~--~~~~g--------~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~ 441 (638)
T PRK11388 397 LGSDRTDSE--NGRLS--------KFELAHGGTLFLEKVEYLSPELQSALLQVLK 441 (638)
T ss_pred cCCCCcCcc--CCCCC--------ceeECCCCEEEEcChhhCCHHHHHHHHHHHh
Confidence 322111000 00000 01 1223468999997766666666666554
No 371
>PRK05688 fliI flagellum-specific ATP synthase; Validated
Probab=95.40 E-value=0.052 Score=51.97 Aligned_cols=86 Identities=19% Similarity=0.211 Sum_probs=49.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCCC------CCCCHH-----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQNV------DNHNLN----- 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~~------~~~~~~----- 282 (350)
-..++|+|..|+|||||++.+.... ..+.++...+.... ...++...++..-...... +.....
T Consensus 168 GqrigI~G~sG~GKSTLl~~I~g~~----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~ 243 (451)
T PRK05688 168 GQRLGLFAGTGVGKSVLLGMMTRFT----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAA 243 (451)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCC----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHH
Confidence 3568999999999999999987642 12343444444433 3445555554432221110 111111
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++||+
T Consensus 244 ~~a~aiAEyfrd~G~~VLl~~Dsl 267 (451)
T PRK05688 244 MYCTRIAEYFRDKGKNVLLLMDSL 267 (451)
T ss_pred HHHHHHHHHHHHCCCCEEEEecch
Confidence 1122344444 689999999999
No 372
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=95.38 E-value=0.013 Score=49.52 Aligned_cols=23 Identities=26% Similarity=0.413 Sum_probs=20.7
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+.|+|+.|+|||||++.+...
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~~ 25 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQR 25 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhcc
Confidence 47899999999999999999765
No 373
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=95.37 E-value=0.025 Score=46.40 Aligned_cols=35 Identities=23% Similarity=0.391 Sum_probs=29.2
Q ss_pred hhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 195 TEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 195 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+.++.|.++|. -+++.++|..|+|||||.+.+..+
T Consensus 24 ~g~~~l~~~l~---------~k~~vl~G~SGvGKSSLiN~L~~~ 58 (161)
T PF03193_consen 24 EGIEELKELLK---------GKTSVLLGQSGVGKSSLINALLPE 58 (161)
T ss_dssp TTHHHHHHHHT---------TSEEEEECSTTSSHHHHHHHHHTS
T ss_pred cCHHHHHHHhc---------CCEEEEECCCCCCHHHHHHHHHhh
Confidence 45777888773 268999999999999999999875
No 374
>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=95.37 E-value=0.093 Score=50.78 Aligned_cols=85 Identities=16% Similarity=0.116 Sum_probs=50.5
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC----CCCCHHHHHHHH
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV----DNHNLNKLQEEL 288 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~~l 288 (350)
..-.++.|.|.+|+|||||+.++..... ..-..++|++..+. ..++.. -...++..... ...+.+.+...+
T Consensus 92 ~~GsvilI~G~pGsGKTTL~lq~a~~~a--~~g~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~~~e~~~~~I~~~i 166 (454)
T TIGR00416 92 VPGSLILIGGDPGIGKSTLLLQVACQLA--KNQMKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYVLSETNWEQICANI 166 (454)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHH--hcCCcEEEEECcCC--HHHHHH-HHHHcCCChHHeEEcCCCCHHHHHHHH
Confidence 3568899999999999999999976522 12235778876553 333322 12233322110 234455555544
Q ss_pred HHHcCCceEEEEEeCCC
Q 048163 289 KKKLSGKIFLLVLDDVW 305 (350)
Q Consensus 289 ~~~l~~kr~LlVlDdv~ 305 (350)
.+ .+.-++|+|.+-
T Consensus 167 ~~---~~~~~vVIDSIq 180 (454)
T TIGR00416 167 EE---ENPQACVIDSIQ 180 (454)
T ss_pred Hh---cCCcEEEEecch
Confidence 43 355689999983
No 375
>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=95.36 E-value=0.091 Score=51.38 Aligned_cols=88 Identities=17% Similarity=0.133 Sum_probs=56.3
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC--------------CC
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN--------------VD 277 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--------------~~ 277 (350)
-..-+++.|.|++|+|||||+.++.... -.+-..+++++..+ +..++.+.+ +.++.+.. +.
T Consensus 260 ~~~gs~~li~G~~G~GKt~l~~~f~~~~--~~~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~ 334 (484)
T TIGR02655 260 FFKDSIILATGATGTGKTLLVSKFLENA--CANKERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPE 334 (484)
T ss_pred ccCCcEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEcccc
Confidence 3456899999999999999999998753 22334567777666 344444443 33333211 12
Q ss_pred CCCHHHHHHHHHHHcCC-ceEEEEEeCC
Q 048163 278 NHNLNKLQEELKKKLSG-KIFLLVLDDV 304 (350)
Q Consensus 278 ~~~~~~~~~~l~~~l~~-kr~LlVlDdv 304 (350)
....++....+.+.+.. +.-++|+|.+
T Consensus 335 ~~~~~~~~~~i~~~i~~~~~~~vvIDsi 362 (484)
T TIGR02655 335 SAGLEDHLQIIKSEIADFKPARIAIDSL 362 (484)
T ss_pred cCChHHHHHHHHHHHHHcCCCEEEEcCH
Confidence 23346666666666643 5568999999
No 376
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=95.34 E-value=0.11 Score=52.33 Aligned_cols=97 Identities=22% Similarity=0.239 Sum_probs=57.9
Q ss_pred ccccchhhHHHHHHHHhcC----C--CCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHH
Q 048163 189 KVYGRETEKKDVVELLLRD----D--LSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRL 262 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~----~--~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 262 (350)
++=|.++-+..|.+-+.-+ + .++-.+.+-|.++||+|.|||-||++|+.... .-|+++..+
T Consensus 673 DVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcs-------L~FlSVKGP------ 739 (953)
T KOG0736|consen 673 DVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECS-------LNFLSVKGP------ 739 (953)
T ss_pred cccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhce-------eeEEeecCH------
Confidence 4456676666676654321 1 11234467899999999999999999998522 234555553
Q ss_pred HHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEEeCCCC
Q 048163 263 TKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVLDDVWN 306 (350)
Q Consensus 263 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~ 306 (350)
++++.--+ .+.+.+.+.+.+.-+.+.|.|.||++.+
T Consensus 740 --ELLNMYVG------qSE~NVR~VFerAR~A~PCVIFFDELDS 775 (953)
T KOG0736|consen 740 --ELLNMYVG------QSEENVREVFERARSAAPCVIFFDELDS 775 (953)
T ss_pred --HHHHHHhc------chHHHHHHHHHHhhccCCeEEEeccccc
Confidence 22222111 1112233334444456899999999955
No 377
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=95.33 E-value=0.015 Score=49.37 Aligned_cols=25 Identities=48% Similarity=0.474 Sum_probs=22.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
..+|+|-||=|+||||||+.+.+..
T Consensus 4 ~~~IvI~G~IG~GKSTLa~~La~~l 28 (216)
T COG1428 4 AMVIVIEGMIGAGKSTLAQALAEHL 28 (216)
T ss_pred ccEEEEecccccCHHHHHHHHHHHh
Confidence 5789999999999999999998763
No 378
>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit. Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.
Probab=95.32 E-value=0.062 Score=51.68 Aligned_cols=90 Identities=16% Similarity=0.185 Sum_probs=55.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcccccccc--CceeEEEeCCCCC-HHHHHHHHHHHhCCCCCC------CCCCH----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF--DLKAWTCVSDDFD-VFRLTKTILISIVPDQNV------DNHNL---- 281 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F--~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~~------~~~~~---- 281 (350)
-.-++|.|..|+|||+|+.++.+.....+.+ ..++++-+.+..+ +.+++..++..-...... +....
T Consensus 141 GQR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~ 220 (458)
T TIGR01041 141 GQKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIV 220 (458)
T ss_pred CCEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHH
Confidence 3568999999999999999998864432111 1567777777654 456666666432221110 11111
Q ss_pred -HHHHHHHHHHc---CCceEEEEEeCC
Q 048163 282 -NKLQEELKKKL---SGKIFLLVLDDV 304 (350)
Q Consensus 282 -~~~~~~l~~~l---~~kr~LlVlDdv 304 (350)
.-..-.+.+++ ++++.||++||+
T Consensus 221 a~~~a~tiAEyfr~d~G~~VLli~Dsl 247 (458)
T TIGR01041 221 TPRMALTAAEYLAFEKDMHVLVILTDM 247 (458)
T ss_pred HHHHHHHHHHHHHHccCCcEEEEEcCh
Confidence 11222355555 478999999999
No 379
>PRK14530 adenylate kinase; Provisional
Probab=95.30 E-value=0.014 Score=50.61 Aligned_cols=23 Identities=26% Similarity=0.385 Sum_probs=20.4
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+.|.|+|++|+||||+++.+...
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~ 26 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEE 26 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH
Confidence 36899999999999999999764
No 380
>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]. It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].
Probab=95.30 E-value=0.065 Score=50.55 Aligned_cols=40 Identities=25% Similarity=0.330 Sum_probs=33.7
Q ss_pred chhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHH-HHHHhc
Q 048163 193 RETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLA-QLVYND 238 (350)
Q Consensus 193 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa-~~v~~~ 238 (350)
|.+..++|..||.+.. -..|.|.||.|+||+.|+ .++..+
T Consensus 1 R~e~~~~L~~wL~e~~------~TFIvV~GPrGSGK~elV~d~~L~~ 41 (431)
T PF10443_consen 1 RKEAIEQLKSWLNENP------NTFIVVQGPRGSGKRELVMDHVLKD 41 (431)
T ss_pred CchHHHHHHHHHhcCC------CeEEEEECCCCCCccHHHHHHHHhC
Confidence 5677899999997654 379999999999999999 777765
No 381
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=95.29 E-value=0.056 Score=51.51 Aligned_cols=51 Identities=31% Similarity=0.230 Sum_probs=34.8
Q ss_pred cccccchhhHHHHHHHHhc----CCC------CCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLR----DDL------SNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~----~~~------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..++|.+..++.+...+.. -.. .-......+.++|+.|+|||+||+.+...
T Consensus 71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~ 131 (412)
T PRK05342 71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARI 131 (412)
T ss_pred hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Confidence 3578998888877555421 000 00112466899999999999999999864
No 382
>PRK03846 adenylylsulfate kinase; Provisional
Probab=95.29 E-value=0.018 Score=49.15 Aligned_cols=26 Identities=27% Similarity=0.322 Sum_probs=23.0
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
++..+|.|+|++|+||||||+.+...
T Consensus 22 ~~~~~i~i~G~~GsGKSTla~~l~~~ 47 (198)
T PRK03846 22 HKGVVLWFTGLSGSGKSTVAGALEEA 47 (198)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 45689999999999999999999764
No 383
>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=95.29 E-value=0.013 Score=46.92 Aligned_cols=22 Identities=32% Similarity=0.596 Sum_probs=19.7
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+.|+|+.|+|||||++.+...
T Consensus 1 ~i~i~GpsGsGKstl~~~L~~~ 22 (137)
T cd00071 1 LIVLSGPSGVGKSTLLKRLLEE 22 (137)
T ss_pred CEEEECCCCCCHHHHHHHHHhc
Confidence 3789999999999999999875
No 384
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=95.29 E-value=0.11 Score=45.34 Aligned_cols=117 Identities=11% Similarity=0.031 Sum_probs=63.8
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC-----------------
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN----------------- 275 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~----------------- 275 (350)
+.-.++.|.|++|+|||+|+.++.... . ..-...+|++...+. .++... ..+++....
T Consensus 18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~-~-~~g~~~~~is~e~~~--~~i~~~-~~~~g~~~~~~~~~~~l~i~d~~~~~ 92 (229)
T TIGR03881 18 PRGFFVAVTGEPGTGKTIFCLHFAYKG-L-RDGDPVIYVTTEESR--ESIIRQ-AAQFGMDFEKAIEEGKLVIIDALMKE 92 (229)
T ss_pred cCCeEEEEECCCCCChHHHHHHHHHHH-H-hcCCeEEEEEccCCH--HHHHHH-HHHhCCCHHHHhhcCCEEEEEccccc
Confidence 356899999999999999999876532 1 223467888875433 333222 122111000
Q ss_pred ------CCCCCHHHHHHHHHHHcCC---ceEEEEEeCCCCC---CcccHhhhcCccC--CCCCCceEEEecCC
Q 048163 276 ------VDNHNLNKLQEELKKKLSG---KIFLLVLDDVWNE---NYNDWDRLRPPFE--AGAPGSKIIVTARN 334 (350)
Q Consensus 276 ------~~~~~~~~~~~~l~~~l~~---kr~LlVlDdv~~~---~~~~~~~l~~~l~--~~~~gs~iivTtr~ 334 (350)
....+.+++...+.+.++. +.-++|+|.+..- .......+...|. -...|+.+|+|+..
T Consensus 93 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~~~~~r~~~~~l~~~l~~~~~tvil~~~~ 165 (229)
T TIGR03881 93 KEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDKPAMARKYSYYLKRVLNRWNFTILLTSQY 165 (229)
T ss_pred cccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhccChHHHHHHHHHHHHHHHhCCCEEEEEecc
Confidence 0123456666666665532 3458899998322 1111111111111 12458889999874
No 385
>PRK13947 shikimate kinase; Provisional
Probab=95.27 E-value=0.014 Score=48.41 Aligned_cols=22 Identities=41% Similarity=0.530 Sum_probs=20.1
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.|.|+|++|+||||+++.+.+.
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~ 24 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATT 24 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 4899999999999999999875
No 386
>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=95.27 E-value=0.032 Score=44.25 Aligned_cols=25 Identities=36% Similarity=0.315 Sum_probs=22.3
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
-.+|.+.|.-|+||||+++.+....
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 3689999999999999999998763
No 387
>PRK13949 shikimate kinase; Provisional
Probab=95.26 E-value=0.014 Score=48.47 Aligned_cols=23 Identities=35% Similarity=0.518 Sum_probs=20.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.-|.|+|+.|+||||+++.+...
T Consensus 2 ~~I~liG~~GsGKstl~~~La~~ 24 (169)
T PRK13949 2 ARIFLVGYMGAGKTTLGKALARE 24 (169)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 35899999999999999998875
No 388
>PRK14737 gmk guanylate kinase; Provisional
Probab=95.26 E-value=0.019 Score=48.53 Aligned_cols=25 Identities=24% Similarity=0.352 Sum_probs=22.4
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+|.|+||+|+|||||++.+...
T Consensus 3 ~~~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 3 SPKLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHhc
Confidence 4578999999999999999999874
No 389
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=95.26 E-value=0.015 Score=50.44 Aligned_cols=58 Identities=12% Similarity=0.111 Sum_probs=36.6
Q ss_pred HHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccC--CCCCCceEEEecCChhHHHhcCCC
Q 048163 287 ELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFE--AGAPGSKIIVTARNQEVAAIMGTV 344 (350)
Q Consensus 287 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~--~~~~gs~iivTtr~~~va~~~~~~ 344 (350)
.+.+.|.-+.-+||+|+.-+. +......+...|. ....+-.+|+.|.+-.++..|+..
T Consensus 151 aIARAL~~~PklLIlDEptSaLD~siQa~IlnlL~~l~~~~~lt~l~IsHdl~~v~~~cdR 211 (252)
T COG1124 151 AIARALIPEPKLLILDEPTSALDVSVQAQILNLLLELKKERGLTYLFISHDLALVEHMCDR 211 (252)
T ss_pred HHHHHhccCCCEEEecCchhhhcHHHHHHHHHHHHHHHHhcCceEEEEeCcHHHHHHHhhh
Confidence 466677777889999998432 1112222333332 124566899999999988887643
No 390
>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=95.25 E-value=0.015 Score=48.32 Aligned_cols=22 Identities=45% Similarity=0.543 Sum_probs=18.9
Q ss_pred EEEeecCCCchHHHHHHHHhcc
Q 048163 218 IPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~~ 239 (350)
|.|.|.+|+|||||++.+++..
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l 23 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEEL 23 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHHHHh
Confidence 6899999999999999998763
No 391
>PRK14738 gmk guanylate kinase; Provisional
Probab=95.25 E-value=0.02 Score=49.25 Aligned_cols=26 Identities=19% Similarity=0.298 Sum_probs=22.6
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.....+.|+|++|+|||||++.+...
T Consensus 11 ~~~~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 11 AKPLLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence 46788999999999999999998753
No 392
>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=95.24 E-value=0.04 Score=46.62 Aligned_cols=22 Identities=41% Similarity=0.593 Sum_probs=20.4
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|.|.|+.|+||||+++.+...
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~ 23 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAER 23 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999875
No 393
>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.24 E-value=0.083 Score=52.06 Aligned_cols=32 Identities=28% Similarity=0.291 Sum_probs=26.6
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhcccccccc
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF 245 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F 245 (350)
-...+-|..+||+|.|||++|+.+.+. .+.+|
T Consensus 465 i~ppkGVLlyGPPGC~KT~lAkalAne--~~~nF 496 (693)
T KOG0730|consen 465 ISPPKGVLLYGPPGCGKTLLAKALANE--AGMNF 496 (693)
T ss_pred CCCCceEEEECCCCcchHHHHHHHhhh--hcCCe
Confidence 456789999999999999999999985 34444
No 394
>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=95.23 E-value=0.02 Score=46.67 Aligned_cols=88 Identities=17% Similarity=0.029 Sum_probs=47.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEe-------CC--CCCHHH---HHH---HHHHHhCCCCC----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCV-------SD--DFDVFR---LTK---TILISIVPDQN---- 275 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~-------~~--~~~~~~---~~~---~il~~l~~~~~---- 275 (350)
..+|-|.|.+|+||||||+.+.... ...-..+.++.. +. .++..+ -++ .+...+.....
T Consensus 2 g~vIwltGlsGsGKtTlA~~L~~~L--~~~g~~~~~LDgD~lR~~l~~dl~fs~~dR~e~~rr~~~~A~ll~~~G~ivIv 79 (156)
T PF01583_consen 2 GFVIWLTGLSGSGKTTLARALERRL--FARGIKVYLLDGDNLRHGLNADLGFSKEDREENIRRIAEVAKLLADQGIIVIV 79 (156)
T ss_dssp -EEEEEESSTTSSHHHHHHHHHHHH--HHTTS-EEEEEHHHHCTTTTTT--SSHHHHHHHHHHHHHHHHHHHHTTSEEEE
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEecCcchhhccCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEE
Confidence 4688999999999999999998753 233334444431 11 233221 111 11212211110
Q ss_pred CCCCCHHHHHHHHHHHcCCceEEEEEeCC
Q 048163 276 VDNHNLNKLQEELKKKLSGKIFLLVLDDV 304 (350)
Q Consensus 276 ~~~~~~~~~~~~l~~~l~~kr~LlVlDdv 304 (350)
.......+..+..++.+...+|+-|+=++
T Consensus 80 a~isp~~~~R~~~R~~~~~~~f~eVyv~~ 108 (156)
T PF01583_consen 80 AFISPYREDREWARELIPNERFIEVYVDC 108 (156)
T ss_dssp E----SHHHHHHHHHHHHTTEEEEEEEES
T ss_pred eeccCchHHHHHHHHhCCcCceEEEEeCC
Confidence 02334456666777777666898888777
No 395
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=95.23 E-value=0.083 Score=47.61 Aligned_cols=88 Identities=15% Similarity=0.092 Sum_probs=48.4
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC----C--CCCHHHHHH
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV----D--NHNLNKLQE 286 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~--~~~~~~~~~ 286 (350)
.+..++.|.|.+|+|||||...+.+.. ...+...+ + .....+..+ ...++..+.+... . -.+...+..
T Consensus 102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l--~~~~~~~V-I-~gD~~t~~D--a~rI~~~g~pvvqi~tG~~Chl~a~mv~~ 175 (290)
T PRK10463 102 RKQLVLNLVSSPGSGKTTLLTETLMRL--KDSVPCAV-I-EGDQQTVND--AARIRATGTPAIQVNTGKGCHLDAQMIAD 175 (290)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHh--ccCCCEEE-E-CCCcCcHHH--HHHHHhcCCcEEEecCCCCCcCcHHHHHH
Confidence 468999999999999999999988752 22232222 2 222222222 2223333322110 0 122344555
Q ss_pred HHHHHcCCceEEEEEeCCCC
Q 048163 287 ELKKKLSGKIFLLVLDDVWN 306 (350)
Q Consensus 287 ~l~~~l~~kr~LlVlDdv~~ 306 (350)
.+..+....-=+||++++..
T Consensus 176 Al~~L~~~~~d~liIEnvGn 195 (290)
T PRK10463 176 AAPRLPLDDNGILFIENVGN 195 (290)
T ss_pred HHHHHhhcCCcEEEEECCCC
Confidence 56555444456788999953
No 396
>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=95.21 E-value=0.012 Score=48.36 Aligned_cols=21 Identities=29% Similarity=0.575 Sum_probs=18.6
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|.|+|+.|+||||+|+.+...
T Consensus 1 i~l~G~~GsGKSTla~~l~~~ 21 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHR 21 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHh
Confidence 468999999999999998765
No 397
>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=95.17 E-value=0.016 Score=47.00 Aligned_cols=21 Identities=48% Similarity=0.706 Sum_probs=19.2
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|.|+|++|+||||+|+.+...
T Consensus 2 i~l~G~~GsGKstla~~la~~ 22 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKA 22 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 789999999999999999764
No 398
>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=95.16 E-value=0.048 Score=54.38 Aligned_cols=23 Identities=30% Similarity=0.245 Sum_probs=20.1
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
++..|.|.+|.||||++..+..-
T Consensus 161 ~~~vitGgpGTGKTt~v~~ll~~ 183 (586)
T TIGR01447 161 NFSLITGGPGTGKTTTVARLLLA 183 (586)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHH
Confidence 68889999999999999888654
No 399
>cd03286 ABC_MSH6_euk MutS6 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=95.16 E-value=0.027 Score=48.83 Aligned_cols=122 Identities=12% Similarity=0.074 Sum_probs=62.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCC--CCCCCHHHHHHHHHHHc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQN--VDNHNLNKLQEELKKKL 292 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~~l~~~l 292 (350)
..++.|.|+.|.|||++.+.+.-..-.. ....+|.+.. .. ..++..|+..++.... ........-...+...+
T Consensus 30 ~~~~~itG~n~~gKs~~l~~i~~~~~la---~~G~~vpa~~-~~-i~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il 104 (218)
T cd03286 30 PRILVLTGPNMGGKSTLLRTVCLAVIMA---QMGMDVPAKS-MR-LSLVDRIFTRIGARDDIMKGESTFMVELSETANIL 104 (218)
T ss_pred CcEEEEECCCCCchHHHHHHHHHHHHHH---HcCCccCccc-cE-eccccEEEEecCcccccccCcchHHHHHHHHHHHH
Confidence 4688999999999999999886531100 1111222211 00 0011111122221111 02233333344444444
Q ss_pred C--CceEEEEEeCCCCCC-cccH----hhhcCccCCCCCCceEEEecCChhHHHhcC
Q 048163 293 S--GKIFLLVLDDVWNEN-YNDW----DRLRPPFEAGAPGSKIIVTARNQEVAAIMG 342 (350)
Q Consensus 293 ~--~kr~LlVlDdv~~~~-~~~~----~~l~~~l~~~~~gs~iivTtr~~~va~~~~ 342 (350)
+ .++-|++||++-.-. ..+= ..+...|.. ..++.+|++|...+++..+.
T Consensus 105 ~~~~~~sLvLlDE~~~Gt~~~dg~~la~ail~~L~~-~~~~~~i~~TH~~el~~~~~ 160 (218)
T cd03286 105 RHATPDSLVILDELGRGTSTHDGYAIAHAVLEYLVK-KVKCLTLFSTHYHSLCDEFH 160 (218)
T ss_pred HhCCCCeEEEEecccCCCCchHHHHHHHHHHHHHHH-hcCCcEEEEeccHHHHHHhh
Confidence 3 578999999994321 1111 111223332 24889999999999887664
No 400
>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=95.16 E-value=0.081 Score=50.33 Aligned_cols=86 Identities=20% Similarity=0.224 Sum_probs=49.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCC------CCCCCH-----H
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQN------VDNHNL-----N 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~------~~~~~~-----~ 282 (350)
-..++|.|..|+|||||.+.+..... .+..+.+.+.... .+.++...++..-..... .+.... .
T Consensus 137 Gq~~~I~G~sG~GKTtLl~~I~~~~~----~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~ 212 (411)
T TIGR03496 137 GQRMGIFAGSGVGKSTLLGMMARYTE----ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAA 212 (411)
T ss_pred CcEEEEECCCCCCHHHHHHHHhcCCC----CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHH
Confidence 35789999999999999998886422 2334445555543 344555555443211110 011111 1
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++||+
T Consensus 213 ~~a~tiAEyfr~~G~~Vll~~Dsl 236 (411)
T TIGR03496 213 FYATAIAEYFRDQGKDVLLLMDSL 236 (411)
T ss_pred HHHHHHHHHHHHCCCCEEEEEeCh
Confidence 1222334444 689999999999
No 401
>PRK07196 fliI flagellum-specific ATP synthase; Validated
Probab=95.16 E-value=0.059 Score=51.45 Aligned_cols=87 Identities=16% Similarity=0.218 Sum_probs=47.6
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhCCCC------CCCCC-----CH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIVPDQ------NVDNH-----NL 281 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~~~~------~~~~~-----~~ 281 (350)
+-..++|.|+.|+|||||++.+..... .+..+...+... ..+.++....+..-.... ..+.. ..
T Consensus 154 ~GQ~igI~G~sGaGKSTLl~~I~g~~~----~dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a 229 (434)
T PRK07196 154 KGQRVGLMAGSGVGKSVLLGMITRYTQ----ADVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKA 229 (434)
T ss_pred cceEEEEECCCCCCccHHHHHHhcccC----CCeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHH
Confidence 346799999999999999999876422 122222333322 233344434443322111 00111 11
Q ss_pred HHHHHHHHHHc--CCceEEEEEeCC
Q 048163 282 NKLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 282 ~~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
......+.+++ ++++.||++||+
T Consensus 230 ~e~a~~iAEyfr~~g~~Vll~~Dsl 254 (434)
T PRK07196 230 TELCHAIATYYRDKGHDVLLLVDSL 254 (434)
T ss_pred HHHHHHHHHHhhhccCCEEEeecch
Confidence 22333444444 579999999999
No 402
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=95.15 E-value=0.035 Score=54.44 Aligned_cols=26 Identities=31% Similarity=0.270 Sum_probs=23.1
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+.+.++||+|.|||.||+.+.+.
T Consensus 274 ~~~~giLl~GpPGtGKT~lAkava~~ 299 (494)
T COG0464 274 RPPKGVLLYGPPGTGKTLLAKAVALE 299 (494)
T ss_pred CCCCeeEEECCCCCCHHHHHHHHHhh
Confidence 45668999999999999999999984
No 403
>CHL00195 ycf46 Ycf46; Provisional
Probab=95.15 E-value=0.032 Score=54.31 Aligned_cols=26 Identities=27% Similarity=0.406 Sum_probs=23.0
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+..+.|.++|++|+|||.+|+.+.+.
T Consensus 257 ~~pkGILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 257 PTPRGLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred CCCceEEEECCCCCcHHHHHHHHHHH
Confidence 34678999999999999999999885
No 404
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.
Probab=95.14 E-value=0.19 Score=46.42 Aligned_cols=60 Identities=17% Similarity=0.146 Sum_probs=41.6
Q ss_pred HHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHH
Q 048163 199 DVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTIL 267 (350)
Q Consensus 199 ~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il 267 (350)
++++.|..-. +-..++|.|..|+|||+|++++.+.. +-+.++++-+.+..+ +.+++.++-
T Consensus 146 rvID~l~Pi~-----kGqr~~I~G~~G~GKT~L~~~Iak~~----~~dvvVyv~iGERg~Ev~e~l~ef~ 206 (369)
T cd01134 146 RVLDTLFPVV-----KGGTAAIPGPFGCGKTVIQQSLSKYS----NSDIVIYVGCGERGNEMTEVLEEFP 206 (369)
T ss_pred hhhhcccccc-----CCCEEEEECCCCCChHHHHHHHHhCC----CCCEEEEEEeCCChHHHHHHHHHHH
Confidence 3555554432 33578999999999999999998852 335688888877654 345555543
No 405
>COG4240 Predicted kinase [General function prediction only]
Probab=95.12 E-value=0.11 Score=44.58 Aligned_cols=83 Identities=17% Similarity=0.113 Sum_probs=48.0
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhC----CCCCCCCCCHHHHHHH
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIV----PDQNVDNHNLNKLQEE 287 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~----~~~~~~~~~~~~~~~~ 287 (350)
..+.-+++|.|+-|+||||++..+++....++- ..+...+...-+-...-...++++.. .-..+..++..-+.+.
T Consensus 47 ~grPli~gisGpQGSGKStls~~i~~~L~~kg~-ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlglnV 125 (300)
T COG4240 47 RGRPLIVGISGPQGSGKSTLSALIVRLLAAKGL-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLNV 125 (300)
T ss_pred cCCceEEEeecCCCCchhhHHHHHHHHHHHhcc-cceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHHH
Confidence 345789999999999999999999987433332 34444444332222222223333321 1111245666666666
Q ss_pred HHHHcCCc
Q 048163 288 LKKKLSGK 295 (350)
Q Consensus 288 l~~~l~~k 295 (350)
|....+++
T Consensus 126 Lnai~~g~ 133 (300)
T COG4240 126 LNAIARGG 133 (300)
T ss_pred HHHHhcCC
Confidence 66666655
No 406
>PRK04132 replication factor C small subunit; Provisional
Probab=95.12 E-value=0.088 Score=54.41 Aligned_cols=95 Identities=13% Similarity=0.055 Sum_probs=59.1
Q ss_pred cCCCchHHHHHHHHhcccccccc-CceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCceEEEEE
Q 048163 223 MGGLGKTTLAQLVYNDKQVQDHF-DLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGKIFLLVL 301 (350)
Q Consensus 223 ~gGvGKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl 301 (350)
|-++||||+|..++++.- .+.+ ...+-++++...++. .+++++..+....+ . -..+.-++||
T Consensus 574 Ph~lGKTT~A~ala~~l~-g~~~~~~~lElNASd~rgid-~IR~iIk~~a~~~~-~--------------~~~~~KVvII 636 (846)
T PRK04132 574 PTVLHNTTAALALARELF-GENWRHNFLELNASDERGIN-VIREKVKEFARTKP-I--------------GGASFKIIFL 636 (846)
T ss_pred CCcccHHHHHHHHHHhhh-cccccCeEEEEeCCCcccHH-HHHHHHHHHHhcCC-c--------------CCCCCEEEEE
Confidence 788999999999988631 1222 235666777654544 44455444322111 0 0124579999
Q ss_pred eCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 302 DDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 302 Ddv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
|++...+...++.|...+......+++|+++.+
T Consensus 637 DEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~ 669 (846)
T PRK04132 637 DEADALTQDAQQALRRTMEMFSSNVRFILSCNY 669 (846)
T ss_pred ECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCC
Confidence 999887777888888877643456666665554
No 407
>PRK07721 fliI flagellum-specific ATP synthase; Validated
Probab=95.11 E-value=0.074 Score=51.01 Aligned_cols=88 Identities=16% Similarity=0.104 Sum_probs=47.6
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCC------CCCCCCH-----H
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQ------NVDNHNL-----N 282 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~------~~~~~~~-----~ 282 (350)
.-..++|+|..|+|||||++.+...... -...+++.-.....+.++....+..-.... ..+.... .
T Consensus 157 ~Gq~i~I~G~sG~GKStLl~~I~~~~~~---~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~ 233 (438)
T PRK07721 157 KGQRVGIFAGSGVGKSTLMGMIARNTSA---DLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGA 233 (438)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhcccCC---CeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHH
Confidence 3578999999999999999988764221 123333332233344444443222111100 0011111 1
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++||+
T Consensus 234 ~~a~~iAEyfr~~g~~Vll~~Dsl 257 (438)
T PRK07721 234 YTATAIAEYFRDQGLNVMLMMDSV 257 (438)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeCh
Confidence 1222344444 689999999999
No 408
>TIGR01039 atpD ATP synthase, F1 beta subunit. The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.
Probab=95.10 E-value=0.13 Score=49.38 Aligned_cols=90 Identities=22% Similarity=0.208 Sum_probs=55.2
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCCC-----CCCC-CHH----
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQN-----VDNH-NLN---- 282 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~~-----~~~~-~~~---- 282 (350)
+-..++|.|..|+|||+|+..+...... ++=..++++-+.+... +.+++.+++..-..... .... ...
T Consensus 142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~-~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a 220 (461)
T TIGR01039 142 KGGKIGLFGGAGVGKTVLIQELINNIAK-EHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRV 220 (461)
T ss_pred cCCEEEeecCCCCChHHHHHHHHHHHHh-cCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence 3467899999999999999998765221 1224677777776654 45666666543221110 0111 111
Q ss_pred -HHHHHHHHHc---CCceEEEEEeCC
Q 048163 283 -KLQEELKKKL---SGKIFLLVLDDV 304 (350)
Q Consensus 283 -~~~~~l~~~l---~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++||+
T Consensus 221 ~~~a~tiAEyfrd~~G~~VLll~Dsl 246 (461)
T TIGR01039 221 ALTGLTMAEYFRDEQGQDVLLFIDNI 246 (461)
T ss_pred HHHHHHHHHHHHHhcCCeeEEEecch
Confidence 1233455666 468999999999
No 409
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=95.10 E-value=0.19 Score=44.05 Aligned_cols=41 Identities=15% Similarity=0.056 Sum_probs=29.3
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD 255 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~ 255 (350)
.-.++.|.|++|+|||+++.++..+.-. .+=..++|++...
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~-~~g~~vly~s~E~ 52 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAK-KQGKPVLFFSLEM 52 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHH-hCCCceEEEeCCC
Confidence 4478899999999999999998765222 2123567777655
No 410
>PRK14527 adenylate kinase; Provisional
Probab=95.09 E-value=0.019 Score=48.64 Aligned_cols=25 Identities=28% Similarity=0.380 Sum_probs=22.2
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+|.|.|++|+||||+|+.+...
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~~ 29 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQE 29 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 4578999999999999999998764
No 411
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.08 E-value=0.24 Score=46.70 Aligned_cols=74 Identities=20% Similarity=0.159 Sum_probs=43.8
Q ss_pred HHHHHHHHhcCC-CC--CCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC--CCHHHHHHHHHHHhC
Q 048163 197 KKDVVELLLRDD-LS--NDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD--FDVFRLTKTILISIV 271 (350)
Q Consensus 197 ~~~l~~~L~~~~-~~--~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~il~~l~ 271 (350)
.++|+++|-... .. ....+.+|-.+|.-|+||||.+-++.+..+. .....-+.+... +.+.+=++.+..+++
T Consensus 79 ~eELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~~lkk---~~~kvllVaaD~~RpAA~eQL~~La~q~~ 155 (451)
T COG0541 79 YEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYLKK---KGKKVLLVAADTYRPAAIEQLKQLAEQVG 155 (451)
T ss_pred HHHHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHHHHHH---cCCceEEEecccCChHHHHHHHHHHHHcC
Confidence 466777776421 11 1346799999999999999999888775332 332222222222 233444555555555
Q ss_pred CC
Q 048163 272 PD 273 (350)
Q Consensus 272 ~~ 273 (350)
.+
T Consensus 156 v~ 157 (451)
T COG0541 156 VP 157 (451)
T ss_pred Cc
Confidence 43
No 412
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=95.07 E-value=0.021 Score=43.38 Aligned_cols=22 Identities=36% Similarity=0.385 Sum_probs=19.8
Q ss_pred eEEEEEeecCCCchHHHHHHHH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVY 236 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~ 236 (350)
-..++|+|+.|+|||||++.+.
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh
Confidence 3688999999999999999875
No 413
>PRK13975 thymidylate kinase; Provisional
Probab=95.07 E-value=0.02 Score=48.67 Aligned_cols=24 Identities=38% Similarity=0.479 Sum_probs=21.7
Q ss_pred EEEEEeecCCCchHHHHHHHHhcc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
..|.|.|+.|+||||+++.+....
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~~l 26 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAEKL 26 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 579999999999999999998863
No 414
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=95.06 E-value=0.079 Score=47.10 Aligned_cols=78 Identities=14% Similarity=0.071 Sum_probs=42.8
Q ss_pred EEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC--CHHHHHHHHHHHh--CCCC-C--CCCCCHHHHHHHHH
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF--DVFRLTKTILISI--VPDQ-N--VDNHNLNKLQEELK 289 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~il~~l--~~~~-~--~~~~~~~~~~~~l~ 289 (350)
+|+|.|..|+||||+++.+....+..+ .....++..... +-...-..+.... +.+. . +++.+.+.+.+.++
T Consensus 1 IIgItG~SGSGKTTv~~~l~~~l~~~g--~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l~ 78 (277)
T cd02029 1 VIAVTGSSGAGTTTVKRAFEHIFAREG--IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELFR 78 (277)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHhcC--CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHHH
Confidence 589999999999999998876422111 112333332222 1112211222211 1111 1 36778888888888
Q ss_pred HHcCCce
Q 048163 290 KKLSGKI 296 (350)
Q Consensus 290 ~~l~~kr 296 (350)
...+++.
T Consensus 79 ~L~~g~~ 85 (277)
T cd02029 79 TYGETGR 85 (277)
T ss_pred HHHcCCC
Confidence 8776553
No 415
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=95.05 E-value=0.014 Score=60.13 Aligned_cols=125 Identities=19% Similarity=0.157 Sum_probs=63.8
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--DNHNLNKLQEELKKK 291 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~~~ 291 (350)
..+++.|.|+.+.||||+.+.+.--.- ...+..+|.+.... ..-++..|+..++..... ...+...-...+...
T Consensus 326 ~~~~~iITGpN~gGKTt~lktigl~~~---maq~G~~vpa~~~~-~i~~~~~i~~~ig~~~si~~~lStfS~~m~~~~~I 401 (782)
T PRK00409 326 DKTVLVITGPNTGGKTVTLKTLGLAAL---MAKSGLPIPANEPS-EIPVFKEIFADIGDEQSIEQSLSTFSGHMTNIVRI 401 (782)
T ss_pred CceEEEEECCCCCCcHHHHHHHHHHHH---HHHhCCCcccCCCc-cccccceEEEecCCccchhhchhHHHHHHHHHHHH
Confidence 357889999999999999998854210 11222233333211 111222222222222110 112222222333333
Q ss_pred cC--CceEEEEEeCCCCCC-cccHhhhcCc-cCC-CCCCceEEEecCChhHHHhcC
Q 048163 292 LS--GKIFLLVLDDVWNEN-YNDWDRLRPP-FEA-GAPGSKIIVTARNQEVAAIMG 342 (350)
Q Consensus 292 l~--~kr~LlVlDdv~~~~-~~~~~~l~~~-l~~-~~~gs~iivTtr~~~va~~~~ 342 (350)
+. ..+-|++||+.-... +.+-..+... +.. ...|+.+|+||+..+++....
T Consensus 402 l~~~~~~sLvLlDE~~~GtDp~eg~ala~aile~l~~~~~~vIitTH~~el~~~~~ 457 (782)
T PRK00409 402 LEKADKNSLVLFDELGAGTDPDEGAALAISILEYLRKRGAKIIATTHYKELKALMY 457 (782)
T ss_pred HHhCCcCcEEEecCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECChHHHHHHHh
Confidence 32 477899999995432 2222223221 111 134789999999999887644
No 416
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=95.05 E-value=0.055 Score=48.42 Aligned_cols=107 Identities=10% Similarity=0.165 Sum_probs=54.4
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKKKLSGK 295 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~k 295 (350)
.++.|.|+.|+||||+.+.+... +...-..++.+.-+..+.... ..++..... .. ......++..|+..
T Consensus 81 GlilisG~tGSGKTT~l~all~~--i~~~~~~iitiEdp~E~~~~~-----~~q~~v~~~-~~---~~~~~~l~~~lR~~ 149 (264)
T cd01129 81 GIILVTGPTGSGKTTTLYSALSE--LNTPEKNIITVEDPVEYQIPG-----INQVQVNEK-AG---LTFARGLRAILRQD 149 (264)
T ss_pred CEEEEECCCCCcHHHHHHHHHhh--hCCCCCeEEEECCCceecCCC-----ceEEEeCCc-CC---cCHHHHHHHHhccC
Confidence 58999999999999999988654 211111122222111111110 011111110 11 13455667777777
Q ss_pred eEEEEEeCCCCCCcccHh-hhcCccCCCCCCceEEEecCChhHHH
Q 048163 296 IFLLVLDDVWNENYNDWD-RLRPPFEAGAPGSKIIVTARNQEVAA 339 (350)
Q Consensus 296 r~LlVlDdv~~~~~~~~~-~l~~~l~~~~~gs~iivTtr~~~va~ 339 (350)
.=.|+++++.+. +... .+.. ...|-.++-|.+-.++..
T Consensus 150 PD~i~vgEiR~~--e~a~~~~~a----a~tGh~v~tTlHa~~~~~ 188 (264)
T cd01129 150 PDIIMVGEIRDA--ETAEIAVQA----ALTGHLVLSTLHTNDAPG 188 (264)
T ss_pred CCEEEeccCCCH--HHHHHHHHH----HHcCCcEEEEeccCCHHH
Confidence 888999999543 2222 2222 223434566666555543
No 417
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=95.04 E-value=0.052 Score=54.51 Aligned_cols=74 Identities=15% Similarity=0.068 Sum_probs=52.0
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
..++|.+..++.|...+... +.+.++|++|+||||+|+.+.... ...+|+..+|..-+. .+..++++.++
T Consensus 31 ~~vigq~~a~~~L~~~~~~~--------~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~np~-~~~~~~~~~v~ 100 (637)
T PRK13765 31 DQVIGQEHAVEVIKKAAKQR--------RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPNPE-DPNNPKIRTVP 100 (637)
T ss_pred HHcCChHHHHHHHHHHHHhC--------CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeCCC-cchHHHHHHHH
Confidence 56789888888877766532 368899999999999999998752 233567778865533 35556666666
Q ss_pred HHhC
Q 048163 268 ISIV 271 (350)
Q Consensus 268 ~~l~ 271 (350)
..++
T Consensus 101 ~~~G 104 (637)
T PRK13765 101 AGKG 104 (637)
T ss_pred HhcC
Confidence 5444
No 418
>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=95.02 E-value=0.05 Score=51.14 Aligned_cols=27 Identities=22% Similarity=0.219 Sum_probs=23.0
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQ 240 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~ 240 (350)
....+.|.|+||+|||+|.+.+.+..+
T Consensus 21 ~~~~~fv~G~~GtGKs~l~~~i~~~~~ 47 (364)
T PF05970_consen 21 EGLNFFVTGPAGTGKSFLIKAIIDYLR 47 (364)
T ss_pred CCcEEEEEcCCCCChhHHHHHHHHHhc
Confidence 346889999999999999999987643
No 419
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=95.01 E-value=0.057 Score=45.75 Aligned_cols=23 Identities=43% Similarity=0.488 Sum_probs=21.3
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..|+|.|+.|+||||+++.+.+.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~ 26 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKL 26 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 67999999999999999999875
No 420
>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=95.01 E-value=0.023 Score=49.22 Aligned_cols=21 Identities=29% Similarity=0.331 Sum_probs=19.6
Q ss_pred EEEEEeecCCCchHHHHHHHH
Q 048163 216 SVIPIIGMGGLGKTTLAQLVY 236 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~ 236 (350)
.++.|.|+.|.||||+.+.+.
T Consensus 31 ~~~~l~Gpn~sGKstllr~i~ 51 (216)
T cd03284 31 QILLITGPNMAGKSTYLRQVA 51 (216)
T ss_pred eEEEEECCCCCChHHHHHHHH
Confidence 789999999999999999985
No 421
>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=95.01 E-value=0.07 Score=54.70 Aligned_cols=104 Identities=15% Similarity=0.066 Sum_probs=53.8
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH-----
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKK----- 290 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~----- 290 (350)
+++.|.|.+|+||||+++.+.......+. ...+++.++.......+- +..+. ...+...+......
T Consensus 339 ~~~iitGgpGTGKTt~l~~i~~~~~~~~~-~~~v~l~ApTg~AA~~L~----e~~g~----~a~Tih~lL~~~~~~~~~~ 409 (720)
T TIGR01448 339 KVVILTGGPGTGKTTITRAIIELAEELGG-LLPVGLAAPTGRAAKRLG----EVTGL----TASTIHRLLGYGPDTFRHN 409 (720)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCC-CceEEEEeCchHHHHHHH----HhcCC----ccccHHHHhhccCCccchh
Confidence 47889999999999999998775322211 145666655433222221 11111 11222211110000
Q ss_pred Hc--CCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEe
Q 048163 291 KL--SGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVT 331 (350)
Q Consensus 291 ~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivT 331 (350)
.. ....-+||+|++...+......+...++ .|++||+.
T Consensus 410 ~~~~~~~~~llIvDEaSMvd~~~~~~Ll~~~~---~~~rlilv 449 (720)
T TIGR01448 410 HLEDPIDCDLLIVDESSMMDTWLALSLLAALP---DHARLLLV 449 (720)
T ss_pred hhhccccCCEEEEeccccCCHHHHHHHHHhCC---CCCEEEEE
Confidence 00 1234589999996654444445554443 46777763
No 422
>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]
Probab=95.01 E-value=0.025 Score=52.85 Aligned_cols=159 Identities=18% Similarity=0.197 Sum_probs=80.5
Q ss_pred cccccchhhHHHHHHHHhcCCC-----------CCCCCeEEEEEeecCCCchHHHHHHHHhcccccc--ccC-ceeEEEe
Q 048163 188 AKVYGRETEKKDVVELLLRDDL-----------SNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQD--HFD-LKAWTCV 253 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~-----------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~--~F~-~~~wv~~ 253 (350)
-...|-.+++..|.+.+--... ...+.--++.|+|..|+||||+.+.+.-...... .|. ..--|.+
T Consensus 371 ld~~~lp~e~~~IleSFGv~~r~ieryvlr~vNL~ikpGdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~v 450 (593)
T COG2401 371 LDIKGLPNEFQDILESFGVRQRVIERYVLRNLNLEIKPGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEV 450 (593)
T ss_pred eecccCChHHHHHHHHhcchheeeeeeeeeceeeEecCCCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceec
Confidence 3445556666666665532110 0123456899999999999999999875421111 010 0000111
Q ss_pred -------------CCCCCHHHHHH-------------HHHHHhCCCCCC-------CCCCHHHHHHHHHHHcCCceEEEE
Q 048163 254 -------------SDDFDVFRLTK-------------TILISIVPDQNV-------DNHNLNKLQEELKKKLSGKIFLLV 300 (350)
Q Consensus 254 -------------~~~~~~~~~~~-------------~il~~l~~~~~~-------~~~~~~~~~~~l~~~l~~kr~LlV 300 (350)
...++...++. .|++..+..... +-.+-..-..+|...+..+.=+++
T Consensus 451 p~nt~~a~iPge~Ep~f~~~tilehl~s~tGD~~~AveILnraGlsDAvlyRr~f~ELStGQKeR~KLAkllaerpn~~~ 530 (593)
T COG2401 451 PKNTVSALIPGEYEPEFGEVTILEHLRSKTGDLNAAVEILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLLAERPNVLL 530 (593)
T ss_pred cccchhhccCcccccccCchhHHHHHhhccCchhHHHHHHHhhccchhhhhhccHhhcCcchHHHHHHHHHHhcCCCcEE
Confidence 01122122222 233333332210 111222234467777777778888
Q ss_pred EeCCCCCC-cccHhhhcCccCC--CCCCceEEEecCChhHHHhcCCCCc
Q 048163 301 LDDVWNEN-YNDWDRLRPPFEA--GAPGSKIIVTARNQEVAAIMGTVRA 346 (350)
Q Consensus 301 lDdv~~~~-~~~~~~l~~~l~~--~~~gs~iivTtr~~~va~~~~~~~~ 346 (350)
.|.....- ..---.+...+.. ...|+.+++.|++.++-+.+.+...
T Consensus 531 iDEF~AhLD~~TA~rVArkiselaRe~giTlivvThrpEv~~AL~PD~l 579 (593)
T COG2401 531 IDEFAAHLDELTAVRVARKISELAREAGITLIVVTHRPEVGNALRPDTL 579 (593)
T ss_pred hhhhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEEecCHHHHhccCCcee
Confidence 88873321 0001112222322 2368899999999999888866543
No 423
>PLN02200 adenylate kinase family protein
Probab=94.99 E-value=0.023 Score=49.87 Aligned_cols=25 Identities=20% Similarity=0.222 Sum_probs=22.0
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+|.|.|++|+||||+|+.+...
T Consensus 42 ~~~ii~I~G~PGSGKsT~a~~La~~ 66 (234)
T PLN02200 42 TPFITFVLGGPGSGKGTQCEKIVET 66 (234)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHH
Confidence 4578999999999999999988764
No 424
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.99 E-value=0.057 Score=50.00 Aligned_cols=65 Identities=23% Similarity=0.132 Sum_probs=46.9
Q ss_pred ccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHH
Q 048163 189 KVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
.++|.++....+...+... .-+.+.|++|+|||+||+.+... .. -.-.+|.+.......+++...
T Consensus 25 ~~~g~~~~~~~~l~a~~~~--------~~vll~G~PG~gKT~la~~lA~~--l~---~~~~~i~~t~~l~p~d~~G~~ 89 (329)
T COG0714 25 VVVGDEEVIELALLALLAG--------GHVLLEGPPGVGKTLLARALARA--LG---LPFVRIQCTPDLLPSDLLGTY 89 (329)
T ss_pred eeeccHHHHHHHHHHHHcC--------CCEEEECCCCccHHHHHHHHHHH--hC---CCeEEEecCCCCCHHHhcCch
Confidence 3788888887777766654 35789999999999999999875 22 234667777766666654433
No 425
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=94.99 E-value=0.084 Score=43.88 Aligned_cols=82 Identities=15% Similarity=0.084 Sum_probs=43.6
Q ss_pred EEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCC--CCCCCCHHHHHHHHHHHcC
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQ--NVDNHNLNKLQEELKKKLS 293 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~--~~~~~~~~~~~~~l~~~l~ 293 (350)
..+.|.|.+|+|||++|..+..... ...+++.....++ .+....|-.....-. .........+...+.....
T Consensus 2 ~~ili~G~~~sGKS~~a~~l~~~~~-----~~~~~iat~~~~~-~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~ 75 (170)
T PRK05800 2 MLILVTGGARSGKSRFAERLAAQSG-----LQVLYIATAQPFD-DEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAA 75 (170)
T ss_pred CEEEEECCCCccHHHHHHHHHHHcC-----CCcEeCcCCCCCh-HHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcC
Confidence 3689999999999999999876421 1234444444333 344455544332211 1011111123334444333
Q ss_pred CceEEEEEeCC
Q 048163 294 GKIFLLVLDDV 304 (350)
Q Consensus 294 ~kr~LlVlDdv 304 (350)
+ .-++++|.+
T Consensus 76 ~-~~~VlID~L 85 (170)
T PRK05800 76 P-GRCVLVDCL 85 (170)
T ss_pred C-CCEEEehhH
Confidence 3 237888988
No 426
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=94.98 E-value=0.023 Score=48.48 Aligned_cols=24 Identities=25% Similarity=0.411 Sum_probs=21.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+|.|.|++|+||||+|+.+...
T Consensus 3 ~~~i~i~G~~G~GKst~a~~l~~~ 26 (197)
T PRK12339 3 STIHFIGGIPGVGKTSISGYIARH 26 (197)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHh
Confidence 468999999999999999999875
No 427
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=94.97 E-value=0.023 Score=48.85 Aligned_cols=27 Identities=26% Similarity=0.410 Sum_probs=24.0
Q ss_pred CCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 212 DGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 212 ~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...+++|+++|+.|+|||||...+...
T Consensus 19 ~~~~~~i~~~G~~gsGKTTli~~l~~~ 45 (207)
T TIGR00073 19 KHGLVVLNFMSSPGSGKTTLIEKLIDN 45 (207)
T ss_pred hcCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 346899999999999999999998764
No 428
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase.
Probab=94.95 E-value=0.15 Score=48.70 Aligned_cols=86 Identities=19% Similarity=0.257 Sum_probs=48.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC-CCHHHHHHHHHHHhCCCCC-----CCCC-CHH-----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD-FDVFRLTKTILISIVPDQN-----VDNH-NLN----- 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~il~~l~~~~~-----~~~~-~~~----- 282 (350)
-..++|.|+.|+|||||.+.+..... .+....+.+... ..+.++..+.+........ .... ...
T Consensus 145 Gq~~~I~G~sG~GKStLl~~I~~~~~----~~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~~~ 220 (422)
T TIGR02546 145 GQRIGIFAGAGVGKSTLLGMIARGAS----ADVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLKAA 220 (422)
T ss_pred CCEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHHHHH
Confidence 45779999999999999999987522 233444444443 3444555554433221111 0111 111
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.|+++|++
T Consensus 221 ~~a~~~AE~f~~~g~~Vl~~~Dsl 244 (422)
T TIGR02546 221 YTATAIAEYFRDQGKRVLLMMDSL 244 (422)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeCc
Confidence 1222334444 578999999999
No 429
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=94.93 E-value=0.033 Score=54.63 Aligned_cols=60 Identities=17% Similarity=0.268 Sum_probs=42.0
Q ss_pred ccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEe
Q 048163 189 KVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCV 253 (350)
Q Consensus 189 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~ 253 (350)
++.--.+-++++..||...-. +....+++.+.||+|+||||.++.+++.. .|+.+-|.+.
T Consensus 20 eLavhkkKv~eV~~wl~~~~~-~~~~~~iLlLtGP~G~GKtttv~~La~el----g~~v~Ew~np 79 (519)
T PF03215_consen 20 ELAVHKKKVEEVRSWLEEMFS-GSSPKRILLLTGPSGCGKTTTVKVLAKEL----GFEVQEWINP 79 (519)
T ss_pred HhhccHHHHHHHHHHHHHHhc-cCCCcceEEEECCCCCCHHHHHHHHHHHh----CCeeEEecCC
Confidence 344445667888888875321 23345699999999999999999998752 3666667643
No 430
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=94.92 E-value=0.19 Score=53.04 Aligned_cols=103 Identities=13% Similarity=0.201 Sum_probs=50.5
Q ss_pred EEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH--HcCC
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNVDNHNLNKLQEELKK--KLSG 294 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~--~l~~ 294 (350)
++.|.|.+|+||||+.+.+..-.+ . -...+...+..... ...+.. .......++..+...+.. ..-.
T Consensus 364 v~vv~G~AGTGKTT~l~~~~~~~e--~-~G~~V~~~ApTGkA-----A~~L~e---~tGi~a~TI~sll~~~~~~~~~l~ 432 (988)
T PRK13889 364 LGVVVGYAGTGKSAMLGVAREAWE--A-AGYEVRGAALSGIA-----AENLEG---GSGIASRTIASLEHGWGQGRDLLT 432 (988)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHH--H-cCCeEEEecCcHHH-----HHHHhh---ccCcchhhHHHHHhhhcccccccc
Confidence 566999999999999887654311 1 12334443332111 111111 111122333332211110 0112
Q ss_pred ceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEec
Q 048163 295 KIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTA 332 (350)
Q Consensus 295 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt 332 (350)
++-|||+|++...+...+..|.... ...|++||+.=
T Consensus 433 ~~~vlIVDEASMv~~~~m~~LL~~a--~~~garvVLVG 468 (988)
T PRK13889 433 SRDVLVIDEAGMVGTRQLERVLSHA--ADAGAKVVLVG 468 (988)
T ss_pred cCcEEEEECcccCCHHHHHHHHHhh--hhCCCEEEEEC
Confidence 4569999999665444455443322 23578888753
No 431
>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=94.92 E-value=0.029 Score=47.05 Aligned_cols=37 Identities=19% Similarity=0.170 Sum_probs=27.2
Q ss_pred EEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCC
Q 048163 218 IPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDD 256 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~ 256 (350)
+.|.|++|+|||+|+.++....- ..=..++|++...+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~--~~g~~v~~~s~e~~ 38 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL--ARGEPGLYVTLEES 38 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH--HCCCcEEEEECCCC
Confidence 67899999999999999866521 22345778877653
No 432
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=94.92 E-value=0.077 Score=46.30 Aligned_cols=51 Identities=25% Similarity=0.225 Sum_probs=33.8
Q ss_pred cccccchhhHHHHHHHHhcCCC-------CCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDL-------SNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++-|.+-...++.+...-+-. -+-..++-+.++||+|.|||.||+.|.++
T Consensus 155 ~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~ 212 (408)
T KOG0727|consen 155 ADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANH 212 (408)
T ss_pred cccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhc
Confidence 3455666555555554321100 02335678899999999999999999987
No 433
>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=94.90 E-value=0.023 Score=48.51 Aligned_cols=120 Identities=16% Similarity=0.141 Sum_probs=52.1
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHHH
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTILISIVPDQNV--DNHNLNKLQEELKK 290 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~~ 290 (350)
..+.++.+.|.+|+||||++..+..... ....+.++...-....--+..+... ...... .......+...+.+
T Consensus 13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~----~~~~v~i~~D~~r~~~p~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~ 87 (199)
T PF06414_consen 13 EKPTLIIIAGQPGSGKSTLARQLLEEFG----GGGIVVIDADEFRQFHPDYDELLKA-DPDEASELTQKEASRLAEKLIE 87 (199)
T ss_dssp SS-EEEEEES-TTSTTHHHHHHHHHHT-----TT-SEEE-GGGGGGGSTTHHHHHHH-HCCCTHHHHHHHHHHHHHHHHH
T ss_pred cCCEEEEEeCCCCCCHHHHHHHhhhhcc----CCCeEEEehHHHHHhccchhhhhhh-hhhhhHHHHHHHHHHHHHHHHH
Confidence 5688999999999999999999876421 2444555433211111111222221 110100 01112334455555
Q ss_pred HcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCChhHH
Q 048163 291 KLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQEVA 338 (350)
Q Consensus 291 ~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~~va 338 (350)
..-.+++=+|+|..-.. ......+...+...+-...|++..-+++++
T Consensus 88 ~a~~~~~nii~E~tl~~-~~~~~~~~~~~k~~GY~v~l~~v~~~~e~s 134 (199)
T PF06414_consen 88 YAIENRYNIIFEGTLSN-PSKLRKLIREAKAAGYKVELYYVAVPPELS 134 (199)
T ss_dssp HHHHCT--EEEE--TTS-SHHHHHHHHHHHCTT-EEEEEEE---HHHH
T ss_pred HHHHcCCCEEEecCCCC-hhHHHHHHHHHHcCCceEEEEEEECCHHHH
Confidence 55567778888987432 123333444454332333444444444444
No 434
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=94.90 E-value=0.023 Score=46.89 Aligned_cols=25 Identities=32% Similarity=0.465 Sum_probs=21.9
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+...++|+|+.|+|||||.+.+...
T Consensus 13 ~~~~v~i~G~~g~GKStLl~~l~~~ 37 (173)
T cd04155 13 EEPRILILGLDNAGKTTILKQLASE 37 (173)
T ss_pred CccEEEEEccCCCCHHHHHHHHhcC
Confidence 3466999999999999999999874
No 435
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=94.89 E-value=0.092 Score=52.64 Aligned_cols=52 Identities=21% Similarity=0.134 Sum_probs=31.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhcccc-ccccCceeEEEeCCCCCHHHHHHHH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQV-QDHFDLKAWTCVSDDFDVFRLTKTI 266 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~-~~~F~~~~wv~~~~~~~~~~~~~~i 266 (350)
.++..|.|.+|.||||++..+...... ...-...+.+.+...-....+...+
T Consensus 167 ~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~ 219 (615)
T PRK10875 167 RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESL 219 (615)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHH
Confidence 368889999999999999988764211 1111234555555443444444444
No 436
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=94.89 E-value=0.037 Score=47.26 Aligned_cols=125 Identities=14% Similarity=0.113 Sum_probs=70.5
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeC-------------------CCCC----------------
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVS-------------------DDFD---------------- 258 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~-------------------~~~~---------------- 258 (350)
.--++.|+||.|+|||||.+.+-.-+ ..-...+|+.-. +.|+
T Consensus 27 ~Gevv~iiGpSGSGKSTlLRclN~LE---~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~ 103 (240)
T COG1126 27 KGEVVVIIGPSGSGKSTLLRCLNGLE---EPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPV 103 (240)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHCCc---CCCCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhhH
Confidence 34689999999999999999886532 222334444321 1111
Q ss_pred ---------HHHHHHHHHHHhCCCCCCC-----CCCHHHHHHHHHHHcCCceEEEEEeCCCCC-CcccHhhhcCccC-CC
Q 048163 259 ---------VFRLTKTILISIVPDQNVD-----NHNLNKLQEELKKKLSGKIFLLVLDDVWNE-NYNDWDRLRPPFE-AG 322 (350)
Q Consensus 259 ---------~~~~~~~il~~l~~~~~~~-----~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~-~~ 322 (350)
+.+...++|..++...... -+.=.+-.-.|.+.|.=+.-++.||+.-+. +++.-..+...+. -.
T Consensus 104 ~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA 183 (240)
T COG1126 104 KVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLA 183 (240)
T ss_pred HHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHH
Confidence 2334445555555433211 111222334577777778889999999544 2222222222222 12
Q ss_pred CCCceEEEecCChhHHHhc
Q 048163 323 APGSKIIVTARNQEVAAIM 341 (350)
Q Consensus 323 ~~gs~iivTtr~~~va~~~ 341 (350)
..|-..|+.|..-.-|..+
T Consensus 184 ~eGmTMivVTHEM~FAr~V 202 (240)
T COG1126 184 EEGMTMIIVTHEMGFAREV 202 (240)
T ss_pred HcCCeEEEEechhHHHHHh
Confidence 4577888888887776654
No 437
>CHL00059 atpA ATP synthase CF1 alpha subunit
Probab=94.89 E-value=0.15 Score=49.20 Aligned_cols=86 Identities=19% Similarity=0.228 Sum_probs=50.0
Q ss_pred eEEEEEeecCCCchHHHH-HHHHhccccccccCc-eeEEEeCCCCC-HHHHHHHHHHHhCCCCCC----CCCC--HHH--
Q 048163 215 FSVIPIIGMGGLGKTTLA-QLVYNDKQVQDHFDL-KAWTCVSDDFD-VFRLTKTILISIVPDQNV----DNHN--LNK-- 283 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa-~~v~~~~~~~~~F~~-~~wv~~~~~~~-~~~~~~~il~~l~~~~~~----~~~~--~~~-- 283 (350)
-..++|.|..|+|||+|| ..+.+.. .-+. ++++-+.+..+ +.+++..+...-...... .+.+ ...
T Consensus 141 GQR~~I~g~~g~GKt~Lal~~I~~q~----~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~ 216 (485)
T CHL00059 141 GQRELIIGDRQTGKTAVATDTILNQK----GQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYL 216 (485)
T ss_pred CCEEEeecCCCCCHHHHHHHHHHhcc----cCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHH
Confidence 457899999999999995 4455531 2333 48888877654 445655555432221110 1111 111
Q ss_pred ---HHHHHHHHc--CCceEEEEEeCC
Q 048163 284 ---LQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 284 ---~~~~l~~~l--~~kr~LlVlDdv 304 (350)
..-.+.+++ ++++.|||+||+
T Consensus 217 ap~~a~aiAEyfr~~G~~VLlv~Ddl 242 (485)
T CHL00059 217 APYTGAALAEYFMYRGRHTLIIYDDL 242 (485)
T ss_pred HHHHHhhHHHHHHHcCCCEEEEEcCh
Confidence 112233333 589999999999
No 438
>PRK08472 fliI flagellum-specific ATP synthase; Validated
Probab=94.88 E-value=0.13 Score=49.20 Aligned_cols=86 Identities=14% Similarity=0.130 Sum_probs=47.2
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCH-HHHHHHHHHHhCCCCC---CCCCC-H------HH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDV-FRLTKTILISIVPDQN---VDNHN-L------NK 283 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~-~~~~~~il~~l~~~~~---~~~~~-~------~~ 283 (350)
-..++|.|..|+|||||++.+..... -+..+...+.+.... .++....+........ ..+.+ . ..
T Consensus 157 Gq~~~i~G~sG~GKStLl~~i~~~~~----~~v~vi~~iGergrev~e~~~~~l~~~l~~tvvV~atsddsp~~R~~~~~ 232 (434)
T PRK08472 157 GQKLGIFAGSGVGKSTLMGMIVKGCL----APIKVVALIGERGREIPEFIEKNLGGDLENTVIVVATSDDSPLMRKYGAF 232 (434)
T ss_pred CCEEEEECCCCCCHHHHHHHHhhccC----CCEEEEEeeCccchhHHHHHHHHhcCcccceEEEEECCCCCHHHhhHHHH
Confidence 46889999999999999999986421 233444445554432 3443333221000000 01111 0 01
Q ss_pred HHHHHHHHc--CCceEEEEEeCC
Q 048163 284 LQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 284 ~~~~l~~~l--~~kr~LlVlDdv 304 (350)
....+.+++ ++++.||++||+
T Consensus 233 ~a~~iAEyFrd~G~~Vll~~Dsl 255 (434)
T PRK08472 233 CAMSVAEYFKNQGLDVLFIMDSV 255 (434)
T ss_pred HHHHHHHHHHHcCCCEEEecccc
Confidence 122344444 589999999999
No 439
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=94.87 E-value=0.02 Score=49.45 Aligned_cols=23 Identities=43% Similarity=0.639 Sum_probs=21.0
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.-|.|+|++|+|||||+..+..+
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~ 28 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGD 28 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcC
Confidence 57899999999999999999876
No 440
>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=94.87 E-value=0.079 Score=53.20 Aligned_cols=74 Identities=14% Similarity=0.079 Sum_probs=45.5
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHHHHH
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTKTIL 267 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~il 267 (350)
..++|.++.++.+...+... ..+.++|+.|+||||+++.+.+... ...|...+++.-+. .+..++++.+.
T Consensus 18 ~~viG~~~a~~~l~~a~~~~--------~~~ll~G~pG~GKT~la~~la~~l~-~~~~~~~~~~~n~~-~~~~~~~~~v~ 87 (608)
T TIGR00764 18 DQVIGQEEAVEIIKKAAKQK--------RNVLLIGEPGVGKSMLAKAMAELLP-DEELEDILVYPNPE-DPNMPRIVEVP 87 (608)
T ss_pred hhccCHHHHHHHHHHHHHcC--------CCEEEECCCCCCHHHHHHHHHHHcC-chhheeEEEEeCCC-CCchHHHHHHH
Confidence 56788888887777766532 2455999999999999999987522 22333333332222 23344455555
Q ss_pred HHhC
Q 048163 268 ISIV 271 (350)
Q Consensus 268 ~~l~ 271 (350)
..++
T Consensus 88 ~~~g 91 (608)
T TIGR00764 88 AGEG 91 (608)
T ss_pred Hhhc
Confidence 5444
No 441
>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional
Probab=94.86 E-value=0.2 Score=49.12 Aligned_cols=24 Identities=38% Similarity=0.610 Sum_probs=21.5
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-.+++|+|+.|+|||||.+.+.-.
T Consensus 50 GEivgIiGpNGSGKSTLLkiLaGL 73 (549)
T PRK13545 50 GEIVGIIGLNGSGKSTLSNLIAGV 73 (549)
T ss_pred CCEEEEEcCCCCCHHHHHHHHhCC
Confidence 368999999999999999999764
No 442
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=94.86 E-value=0.031 Score=51.84 Aligned_cols=47 Identities=19% Similarity=0.258 Sum_probs=37.2
Q ss_pred cccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 186 KEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 186 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+=+.++|.++.+..|...+..+ .+.-+.|.|+.|+||||+|+.+++-
T Consensus 15 pf~~ivGq~~~k~al~~~~~~p------~~~~vli~G~~GtGKs~~ar~~~~~ 61 (350)
T CHL00081 15 PFTAIVGQEEMKLALILNVIDP------KIGGVMIMGDRGTGKSTTIRALVDL 61 (350)
T ss_pred CHHHHhChHHHHHHHHHhccCC------CCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 3467899988887777766544 3566779999999999999999764
No 443
>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=94.86 E-value=0.02 Score=46.49 Aligned_cols=22 Identities=36% Similarity=0.587 Sum_probs=19.7
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
++.|.|.+|+||||||+.+...
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~ 22 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEK 22 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHH
Confidence 4789999999999999998774
No 444
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=94.85 E-value=0.024 Score=44.95 Aligned_cols=23 Identities=30% Similarity=0.520 Sum_probs=20.7
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++|+|+.|+|||||.+.+...
T Consensus 12 ~~~~i~G~nGsGKStLl~~l~g~ 34 (137)
T PF00005_consen 12 EIVAIVGPNGSGKSTLLKALAGL 34 (137)
T ss_dssp SEEEEEESTTSSHHHHHHHHTTS
T ss_pred CEEEEEccCCCccccceeeeccc
Confidence 58999999999999999998754
No 445
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=94.85 E-value=0.023 Score=47.31 Aligned_cols=24 Identities=25% Similarity=0.344 Sum_probs=21.2
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...|.|+|+.|+|||||++.+...
T Consensus 4 ~~~I~liG~~GaGKStl~~~La~~ 27 (172)
T PRK05057 4 KRNIFLVGPMGAGKSTIGRQLAQQ 27 (172)
T ss_pred CCEEEEECCCCcCHHHHHHHHHHH
Confidence 346999999999999999999865
No 446
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=94.84 E-value=0.023 Score=49.54 Aligned_cols=126 Identities=19% Similarity=0.250 Sum_probs=66.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccc------------cc----------cccCceeEEEeCCCC------------CHH
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQ------------VQ----------DHFDLKAWTCVSDDF------------DVF 260 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~------------~~----------~~F~~~~wv~~~~~~------------~~~ 260 (350)
--.++|+|+.|+|||||-+.+.--.+ +. .++..--|-++-++- ...
T Consensus 29 GEfvsilGpSGcGKSTLLriiAGL~~p~~G~V~~~g~~v~~p~~~~~~vFQ~~~LlPW~Tv~~NV~l~l~~~~~~~~e~~ 108 (248)
T COG1116 29 GEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGRPVTGPGPDIGYVFQEDALLPWLTVLDNVALGLELRGKSKAEAR 108 (248)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCcccCCCCCCEEEEeccCcccchhhHHhhheehhhccccchHhHH
Confidence 35899999999999999999874211 10 111112232222211 123
Q ss_pred HHHHHHHHHhCCCCCCC-----CCCHHHHHHHHHHHcCCceEEEEEeCCCCC----Cc-ccHhhhcCccCCCCCCceEEE
Q 048163 261 RLTKTILISIVPDQNVD-----NHNLNKLQEELKKKLSGKIFLLVLDDVWNE----NY-NDWDRLRPPFEAGAPGSKIIV 330 (350)
Q Consensus 261 ~~~~~il~~l~~~~~~~-----~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~----~~-~~~~~l~~~l~~~~~gs~iiv 330 (350)
+...+++...+.....+ -+.=..-.-.|.+.|....=+|.||+=-.. +. ...+.+...+ ...+..|++
T Consensus 109 ~~a~~~L~~VgL~~~~~~~P~qLSGGMrQRVaiARAL~~~P~lLLlDEPFgALDalTR~~lq~~l~~lw--~~~~~Tvll 186 (248)
T COG1116 109 ERAKELLELVGLAGFEDKYPHQLSGGMRQRVAIARALATRPKLLLLDEPFGALDALTREELQDELLRLW--EETRKTVLL 186 (248)
T ss_pred HHHHHHHHHcCCcchhhcCccccChHHHHHHHHHHHHhcCCCEEEEcCCcchhhHHHHHHHHHHHHHHH--HhhCCEEEE
Confidence 35666666666543211 111122233566667677778888876221 00 1122222222 234678888
Q ss_pred ecCChhHHHhcC
Q 048163 331 TARNQEVAAIMG 342 (350)
Q Consensus 331 Ttr~~~va~~~~ 342 (350)
.|++-+=|-.++
T Consensus 187 VTHdi~EAv~Ls 198 (248)
T COG1116 187 VTHDVDEAVYLA 198 (248)
T ss_pred EeCCHHHHHhhh
Confidence 888877666554
No 447
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.84 E-value=0.24 Score=44.44 Aligned_cols=24 Identities=33% Similarity=0.412 Sum_probs=21.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...++++|+.|+||||++..+...
T Consensus 75 ~~~i~~~G~~g~GKTtl~~~l~~~ 98 (270)
T PRK06731 75 VQTIALIGPTGVGKTTTLAKMAWQ 98 (270)
T ss_pred CCEEEEECCCCCcHHHHHHHHHHH
Confidence 479999999999999999988654
No 448
>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=94.83 E-value=0.019 Score=50.60 Aligned_cols=21 Identities=33% Similarity=0.412 Sum_probs=17.8
Q ss_pred EeecCCCchHHHHHHHHhccc
Q 048163 220 IIGMGGLGKTTLAQLVYNDKQ 240 (350)
Q Consensus 220 I~G~gGvGKTtLa~~v~~~~~ 240 (350)
|+||+|+||||+++.+.+...
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~ 21 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLE 21 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHT
T ss_pred CCCCCCCCHHHHHHHHHHHHH
Confidence 689999999999999987643
No 449
>TIGR01026 fliI_yscN ATPase FliI/YscN family. This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.
Probab=94.83 E-value=0.12 Score=49.67 Aligned_cols=86 Identities=21% Similarity=0.249 Sum_probs=47.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCC------CCCCCHH-----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQN------VDNHNLN----- 282 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~------~~~~~~~----- 282 (350)
-..++|.|..|+|||||.+.+..... -+..+...+.... .+.++....+..-..... .+.....
T Consensus 163 Gq~~~I~G~sG~GKStLl~~I~~~~~----~~~~vi~~iG~r~~ev~~~~~~~~~~~~l~~tvvv~~~~d~~p~~r~~~~ 238 (440)
T TIGR01026 163 GQRIGIFAGSGVGKSTLLGMIARNTE----ADVNVIALIGERGREVREFIEHDLGEEGLKRSVVVVATSDQSPLLRLKGA 238 (440)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCCC----CCEEEEEEEeecchHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHH
Confidence 45789999999999999998887522 1223333444333 344444444432111100 0111111
Q ss_pred HHHHHHHHHc--CCceEEEEEeCC
Q 048163 283 KLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 283 ~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
...-.+.+++ ++++.||++||+
T Consensus 239 ~~a~t~AE~frd~G~~Vll~~Dsl 262 (440)
T TIGR01026 239 YVATAIAEYFRDQGKDVLLLMDSV 262 (440)
T ss_pred HHHHHHHHHHHHCCCCEEEEEeCh
Confidence 1222333444 689999999999
No 450
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=94.81 E-value=0.046 Score=43.75 Aligned_cols=25 Identities=36% Similarity=0.444 Sum_probs=21.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..+-|.|.|.+|+|||||+.++...
T Consensus 6 ~~PNILvtGTPG~GKstl~~~lae~ 30 (176)
T KOG3347|consen 6 ERPNILVTGTPGTGKSTLAERLAEK 30 (176)
T ss_pred cCCCEEEeCCCCCCchhHHHHHHHH
Confidence 3567899999999999999999853
No 451
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=94.81 E-value=0.073 Score=44.37 Aligned_cols=22 Identities=18% Similarity=0.102 Sum_probs=17.2
Q ss_pred EEEEEeecCCCchHH-HHHHHHh
Q 048163 216 SVIPIIGMGGLGKTT-LAQLVYN 237 (350)
Q Consensus 216 ~vi~I~G~gGvGKTt-La~~v~~ 237 (350)
..+.|.|+.|+|||+ ++..++.
T Consensus 25 ~~~~i~~~~GsGKT~~~~~~~~~ 47 (201)
T smart00487 25 RDVILAAPTGSGKTLAALLPALE 47 (201)
T ss_pred CcEEEECCCCCchhHHHHHHHHH
Confidence 678999999999999 4444444
No 452
>PTZ00494 tuzin-like protein; Provisional
Probab=94.80 E-value=0.35 Score=46.07 Aligned_cols=80 Identities=14% Similarity=0.069 Sum_probs=61.9
Q ss_pred ccccccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCCHHHHHH
Q 048163 185 VKEAKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFDVFRLTK 264 (350)
Q Consensus 185 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 264 (350)
.....++.|+++-..+.+.|.+-+ ...++++.+.|.-|.||++|.+.....+. -..++|.+.. .++-++
T Consensus 368 a~~~~~V~R~~eE~~vRqvL~qld---~aHPRIvV~TG~~GcGKSslcRsAvrkE~-----~paV~VDVRg---~EDtLr 436 (664)
T PTZ00494 368 AAEAFEVRREDEEALVRSVLTQMA---PSHPRIVALAGGSGGGRCVPCRRAVRVEG-----VALVHVDVGG---TEDTLR 436 (664)
T ss_pred cccccccchhhHHHHHHHHHhhcc---CCCCcEEEEecCCCCCchHHHHHHHHHcC-----CCeEEEEecC---CcchHH
Confidence 346678999999888888887764 45689999999999999999998766433 2456677765 356788
Q ss_pred HHHHHhCCCCC
Q 048163 265 TILISIVPDQN 275 (350)
Q Consensus 265 ~il~~l~~~~~ 275 (350)
++++.++.+.-
T Consensus 437 sVVKALgV~nv 447 (664)
T PTZ00494 437 SVVRALGVSNV 447 (664)
T ss_pred HHHHHhCCCCh
Confidence 99999887654
No 453
>PRK07132 DNA polymerase III subunit delta'; Validated
Probab=94.77 E-value=0.53 Score=42.87 Aligned_cols=104 Identities=8% Similarity=-0.004 Sum_probs=60.0
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhcc--------ccccccCceeEEEe-CCCCCHHHHHHHHHHHhCCCCCCCCCCHHHH
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDK--------QVQDHFDLKAWTCV-SDDFDVFRLTKTILISIVPDQNVDNHNLNKL 284 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~--------~~~~~F~~~~wv~~-~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~ 284 (350)
-.++..++|+.|.||+++|..+.... ....|-+...++.. +....++++ +++.+.+.....
T Consensus 17 l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~I-r~l~~~~~~~~~--------- 86 (299)
T PRK07132 17 ISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEF-LSAINKLYFSSF--------- 86 (299)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHH-HHHHHHhccCCc---------
Confidence 35777799999999999999887652 11112222333321 111222221 123322221110
Q ss_pred HHHHHHHcCCceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCC
Q 048163 285 QEELKKKLSGKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARN 334 (350)
Q Consensus 285 ~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~ 334 (350)
-.+++-++|+|++...+....+.+...|...+..+.+|++|.+
T Consensus 87 -------~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~ 129 (299)
T PRK07132 87 -------VQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKN 129 (299)
T ss_pred -------ccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCC
Confidence 0147788899998766666788888888765667777765544
No 454
>PRK00698 tmk thymidylate kinase; Validated
Probab=94.77 E-value=0.069 Score=45.56 Aligned_cols=23 Identities=35% Similarity=0.471 Sum_probs=21.4
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+|+|.|+.|+||||+++.+.+.
T Consensus 4 ~~I~ieG~~gsGKsT~~~~L~~~ 26 (205)
T PRK00698 4 MFITIEGIDGAGKSTQIELLKEL 26 (205)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 68999999999999999999875
No 455
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=94.75 E-value=0.027 Score=45.87 Aligned_cols=22 Identities=32% Similarity=0.643 Sum_probs=19.6
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-|.++|.+|+|||||++.+...
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~~ 23 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMYD 23 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhC
Confidence 4789999999999999999765
No 456
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=94.75 E-value=0.05 Score=46.38 Aligned_cols=42 Identities=26% Similarity=0.305 Sum_probs=29.6
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHh
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYN 237 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~ 237 (350)
.+++|.+..+..|.-.... ..-+.++|++|+|||++|+.+-.
T Consensus 3 ~dI~GQe~aKrAL~iAAaG--------~h~lLl~GppGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 3 SDIVGQEEAKRALEIAAAG--------GHHLLLIGPPGTGKTMLARRLPS 44 (206)
T ss_dssp CCSSSTHHHHHHHHHHHHC--------C--EEEES-CCCTHHHHHHHHHH
T ss_pred hhhcCcHHHHHHHHHHHcC--------CCCeEEECCCCCCHHHHHHHHHH
Confidence 4567877777666555542 36899999999999999999864
No 457
>PLN02348 phosphoribulokinase
Probab=94.73 E-value=0.031 Score=52.37 Aligned_cols=26 Identities=23% Similarity=0.248 Sum_probs=23.5
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+...+|+|.|.+|+||||+|+.+.+.
T Consensus 47 ~~p~IIGIaG~SGSGKSTfA~~L~~~ 72 (395)
T PLN02348 47 DGTVVIGLAADSGCGKSTFMRRLTSV 72 (395)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 46789999999999999999999875
No 458
>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=94.71 E-value=0.084 Score=50.26 Aligned_cols=87 Identities=20% Similarity=0.239 Sum_probs=49.2
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCC-CHHHHHHHHHHHhCCCCC------CCCCCH-----
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDF-DVFRLTKTILISIVPDQN------VDNHNL----- 281 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~il~~l~~~~~------~~~~~~----- 281 (350)
.-..++|+|..|+|||||.+.+..... -+..+..-+.+.. .+.+++...+.+-+.... .+....
T Consensus 136 ~Gqri~I~G~sG~GKTtLl~~i~~~~~----~~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~ 211 (413)
T TIGR03497 136 KGQRVGIFAGSGVGKSTLLGMIARNAK----ADINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKA 211 (413)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhCCCC----CCeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHH
Confidence 346899999999999999998876422 1222333344333 445565554443221110 011111
Q ss_pred HHHHHHHHHHc--CCceEEEEEeCC
Q 048163 282 NKLQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 282 ~~~~~~l~~~l--~~kr~LlVlDdv 304 (350)
....-.+.+++ ++++.||++||+
T Consensus 212 ~~~a~tiAEyfr~~G~~Vll~~Dsl 236 (413)
T TIGR03497 212 AFTATAIAEYFRDQGKDVLLMMDSV 236 (413)
T ss_pred HHHHHHHHHHHHHCCCCEEEEEcCc
Confidence 11223344444 589999999999
No 459
>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=94.71 E-value=0.1 Score=48.23 Aligned_cols=21 Identities=29% Similarity=0.400 Sum_probs=18.7
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
+.+.|++|+||||+++.+...
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~ 22 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSAT 22 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHH
Confidence 578999999999999998865
No 460
>PRK14532 adenylate kinase; Provisional
Probab=94.63 E-value=0.026 Score=47.62 Aligned_cols=21 Identities=24% Similarity=0.343 Sum_probs=19.1
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|.|.|++|+||||+|+.+...
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 788999999999999999764
No 461
>PRK08356 hypothetical protein; Provisional
Probab=94.62 E-value=0.033 Score=47.41 Aligned_cols=20 Identities=30% Similarity=0.534 Sum_probs=18.8
Q ss_pred EEEEEeecCCCchHHHHHHH
Q 048163 216 SVIPIIGMGGLGKTTLAQLV 235 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v 235 (350)
.+|.|.|++|+||||+|+.+
T Consensus 6 ~~i~~~G~~gsGK~t~a~~l 25 (195)
T PRK08356 6 MIVGVVGKIAAGKTTVAKFF 25 (195)
T ss_pred EEEEEECCCCCCHHHHHHHH
Confidence 57899999999999999988
No 462
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=94.62 E-value=0.082 Score=51.73 Aligned_cols=31 Identities=35% Similarity=0.408 Sum_probs=25.4
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhcccccccc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYNDKQVQDHF 245 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F 245 (350)
....-|.+|||+|.|||-||+.|.|. ...+|
T Consensus 543 ~~PsGvLL~GPPGCGKTLlAKAVANE--ag~NF 573 (802)
T KOG0733|consen 543 DAPSGVLLCGPPGCGKTLLAKAVANE--AGANF 573 (802)
T ss_pred CCCCceEEeCCCCccHHHHHHHHhhh--ccCce
Confidence 34677899999999999999999996 34444
No 463
>PRK13948 shikimate kinase; Provisional
Probab=94.62 E-value=0.032 Score=46.94 Aligned_cols=25 Identities=16% Similarity=0.304 Sum_probs=22.3
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
....|.++|+.|+||||+++.+...
T Consensus 9 ~~~~I~LiG~~GsGKSTvg~~La~~ 33 (182)
T PRK13948 9 PVTWVALAGFMGTGKSRIGWELSRA 33 (182)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHH
Confidence 4578999999999999999999864
No 464
>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=94.61 E-value=0.032 Score=42.93 Aligned_cols=21 Identities=33% Similarity=0.544 Sum_probs=19.5
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|+|+|+.|+|||||.+.+...
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 789999999999999999974
No 465
>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.
Probab=94.60 E-value=0.083 Score=43.46 Aligned_cols=46 Identities=22% Similarity=0.246 Sum_probs=28.9
Q ss_pred ceEEEEEeCCCCC-CcccHhhhcCccCC-CCCCceEEEecCChhHHHh
Q 048163 295 KIFLLVLDDVWNE-NYNDWDRLRPPFEA-GAPGSKIIVTARNQEVAAI 340 (350)
Q Consensus 295 kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTtr~~~va~~ 340 (350)
++-|+++|+.-.. +...-..+...+.. ...|+.+|++|.+.+++..
T Consensus 99 ~~~llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~~~~~~ 146 (162)
T cd03227 99 PRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLPELAEL 146 (162)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHh
Confidence 6789999999543 22222233333321 1227899999999988765
No 466
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=94.60 E-value=0.058 Score=46.58 Aligned_cols=21 Identities=52% Similarity=0.835 Sum_probs=18.3
Q ss_pred EEEEeecCCCchHHHHHHHHh
Q 048163 217 VIPIIGMGGLGKTTLAQLVYN 237 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~ 237 (350)
.|+|.|-||+||||+|..+..
T Consensus 2 kIaI~GKGG~GKTtiaalll~ 22 (255)
T COG3640 2 KIAITGKGGVGKTTIAALLLK 22 (255)
T ss_pred eEEEecCCCccHHHHHHHHHH
Confidence 589999999999999988544
No 467
>PRK06761 hypothetical protein; Provisional
Probab=94.60 E-value=0.056 Score=48.61 Aligned_cols=24 Identities=33% Similarity=0.513 Sum_probs=21.9
Q ss_pred EEEEEeecCCCchHHHHHHHHhcc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
++|.|.|++|+||||+++.++...
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L 27 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDIL 27 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhc
Confidence 589999999999999999999864
No 468
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=94.59 E-value=0.03 Score=46.84 Aligned_cols=23 Identities=17% Similarity=0.325 Sum_probs=20.8
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++.|+|+.|+|||||++.+...
T Consensus 4 e~i~l~G~sGsGKSTl~~~la~~ 26 (176)
T PRK09825 4 ESYILMGVSGSGKSLIGSKIAAL 26 (176)
T ss_pred cEEEEECCCCCCHHHHHHHHHHh
Confidence 47899999999999999999874
No 469
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=94.58 E-value=0.14 Score=47.08 Aligned_cols=71 Identities=13% Similarity=0.147 Sum_probs=42.8
Q ss_pred HHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhccccc-cccCceeEEEeCCCCC----HHHHHHHHHHHh
Q 048163 197 KKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYNDKQVQ-DHFDLKAWTCVSDDFD----VFRLTKTILISI 270 (350)
Q Consensus 197 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~~~-~~F~~~~wv~~~~~~~----~~~~~~~il~~l 270 (350)
.+.|.+.+.... .....+|+|.|.=|+|||++.+.+....+.. ..-...+|.+.....+ ...++..|..++
T Consensus 5 a~~la~~I~~~~---~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l 80 (325)
T PF07693_consen 5 AKALAEIIKNPD---SDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQL 80 (325)
T ss_pred HHHHHHHHhccC---CCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHH
Confidence 455666665442 2467999999999999999999998764333 1122344444433333 234444444443
No 470
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=94.57 E-value=0.1 Score=51.64 Aligned_cols=25 Identities=32% Similarity=0.371 Sum_probs=21.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.-..++|+|+.|+|||||++.+...
T Consensus 360 ~G~~vaIvG~SGsGKSTLl~lL~g~ 384 (529)
T TIGR02868 360 PGERVAILGPSGSGKSTLLMLLTGL 384 (529)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhcC
Confidence 4578999999999999999998643
No 471
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=94.57 E-value=0.41 Score=43.31 Aligned_cols=42 Identities=17% Similarity=0.193 Sum_probs=32.2
Q ss_pred CceEEEEEeCCCCCCcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 294 GKIFLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 294 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
+++-++|+|++...+....+.+...|-.-.+++.+|++|.+.
T Consensus 103 ~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~ 144 (290)
T PRK07276 103 GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDE 144 (290)
T ss_pred CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence 567789999998888788999999886545566777766554
No 472
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=94.56 E-value=0.027 Score=46.36 Aligned_cols=21 Identities=38% Similarity=0.377 Sum_probs=17.2
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|+|.|..|+|||||++.+...
T Consensus 2 I~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHc
Confidence 789999999999999999864
No 473
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=94.56 E-value=0.035 Score=45.32 Aligned_cols=24 Identities=33% Similarity=0.602 Sum_probs=21.1
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++.|+|.+|+||||+.+.+...
T Consensus 4 ~kvvvitGVpGvGKTTVl~~~~~~ 27 (189)
T COG2019 4 RKVVVITGVPGVGKTTVLKIALKE 27 (189)
T ss_pred ceEEEEEcCCCCChHHHHHHHHHH
Confidence 689999999999999999877653
No 474
>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=94.54 E-value=0.043 Score=54.22 Aligned_cols=45 Identities=29% Similarity=0.381 Sum_probs=35.7
Q ss_pred cccccchhhHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 188 AKVYGRETEKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 188 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+++|.+..+..+...+... ...-+.|+|+.|+|||++|+.+++.
T Consensus 65 ~~iiGqs~~i~~l~~al~~~------~~~~vLi~Ge~GtGKt~lAr~i~~~ 109 (531)
T TIGR02902 65 DEIIGQEEGIKALKAALCGP------NPQHVIIYGPPGVGKTAAARLVLEE 109 (531)
T ss_pred HHeeCcHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHH
Confidence 35789998888888776433 2345678999999999999999864
No 475
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=94.54 E-value=0.056 Score=45.62 Aligned_cols=36 Identities=28% Similarity=0.171 Sum_probs=26.6
Q ss_pred hHHHHHHHHhcCCCCCCCCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 196 EKKDVVELLLRDDLSNDGEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 196 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+...++...... -..+.|+|+.|+||||+.+.+...
T Consensus 13 ~~~~~l~~~v~~-------g~~i~I~G~tGSGKTTll~aL~~~ 48 (186)
T cd01130 13 LQAAYLWLAVEA-------RKNILISGGTGSGKTTLLNALLAF 48 (186)
T ss_pred HHHHHHHHHHhC-------CCEEEEECCCCCCHHHHHHHHHhh
Confidence 344455544433 368999999999999999988764
No 476
>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=94.54 E-value=0.028 Score=47.53 Aligned_cols=21 Identities=33% Similarity=0.426 Sum_probs=19.2
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|.|.|++|+||||+|+.+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 789999999999999999775
No 477
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=94.54 E-value=0.05 Score=49.76 Aligned_cols=22 Identities=36% Similarity=0.498 Sum_probs=19.2
Q ss_pred EEEEEeecCCCchHHHHHHHHh
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYN 237 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~ 237 (350)
+++.+.|-||+||||+|....-
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~ 23 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALAL 23 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHH
T ss_pred eEEEEecCCCCCcHHHHHHHHH
Confidence 6889999999999999977654
No 478
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=94.53 E-value=0.027 Score=46.09 Aligned_cols=23 Identities=35% Similarity=0.452 Sum_probs=20.5
Q ss_pred EEEEeecCCCchHHHHHHHHhcc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYNDK 239 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~~ 239 (350)
+++|+|+.|+|||||+..+....
T Consensus 1 vi~i~G~~gsGKTtl~~~l~~~l 23 (155)
T TIGR00176 1 VLQIVGPKNSGKTTLIERLVKAL 23 (155)
T ss_pred CEEEECCCCCCHHHHHHHHHHHH
Confidence 57899999999999999998863
No 479
>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.
Probab=94.51 E-value=0.083 Score=50.53 Aligned_cols=90 Identities=16% Similarity=0.211 Sum_probs=57.6
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccc-----------cccCceeEEEeCCCCCHHHHHHHHHHHhC-CCCCC------
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQ-----------DHFDLKAWTCVSDDFDVFRLTKTILISIV-PDQNV------ 276 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~-----------~~F~~~~wv~~~~~~~~~~~~~~il~~l~-~~~~~------ 276 (350)
-.-++|.|-.|+|||+|+.++.+..... +.=..++++.+.+.....+++.+.+..-+ .....
T Consensus 141 GQRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~ats 220 (466)
T TIGR01040 141 GQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLA 220 (466)
T ss_pred CCeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECC
Confidence 4568999999999999999998764310 01115677788888777777777777655 21110
Q ss_pred CCCCHH-----HHHHHHHHHcC---CceEEEEEeCC
Q 048163 277 DNHNLN-----KLQEELKKKLS---GKIFLLVLDDV 304 (350)
Q Consensus 277 ~~~~~~-----~~~~~l~~~l~---~kr~LlVlDdv 304 (350)
+..... ...-.+.++++ +++.||++||+
T Consensus 221 d~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~Dsl 256 (466)
T TIGR01040 221 NDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDM 256 (466)
T ss_pred CCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccCh
Confidence 111111 12223555554 69999999999
No 480
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=94.51 E-value=0.031 Score=45.83 Aligned_cols=24 Identities=29% Similarity=0.498 Sum_probs=21.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.++++|+|+.++|||||...+...
T Consensus 2 ~~Il~ivG~k~SGKTTLie~lv~~ 25 (161)
T COG1763 2 MKILGIVGYKNSGKTTLIEKLVRK 25 (161)
T ss_pred CcEEEEEecCCCChhhHHHHHHHH
Confidence 579999999999999999999765
No 481
>PRK04182 cytidylate kinase; Provisional
Probab=94.51 E-value=0.032 Score=46.49 Aligned_cols=22 Identities=45% Similarity=0.637 Sum_probs=20.4
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|.|.|+.|+||||+++.+.+.
T Consensus 2 ~I~i~G~~GsGKstia~~la~~ 23 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999875
No 482
>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=94.51 E-value=0.25 Score=49.50 Aligned_cols=25 Identities=32% Similarity=0.460 Sum_probs=21.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.-..++|+|+.|.|||||++.+...
T Consensus 365 ~G~~~aivG~sGsGKSTL~~ll~g~ 389 (574)
T PRK11160 365 AGEKVALLGRTGCGKSTLLQLLTRA 389 (574)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhcC
Confidence 3468999999999999999998753
No 483
>PRK06820 type III secretion system ATPase; Validated
Probab=94.50 E-value=0.21 Score=47.86 Aligned_cols=86 Identities=21% Similarity=0.299 Sum_probs=46.8
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCCCCC-HHHHHHHHHHHhCCCC------CCCCCCHHH----
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSDDFD-VFRLTKTILISIVPDQ------NVDNHNLNK---- 283 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~il~~l~~~~------~~~~~~~~~---- 283 (350)
-..++|+|..|+|||||++.+.... +.+..+...+..... +.++....+..-.... ..+......
T Consensus 163 Gqri~I~G~sG~GKStLl~~I~~~~----~~dv~V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~a~ 238 (440)
T PRK06820 163 GQRIGIFAAAGVGKSTLLGMLCADS----AADVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLKGL 238 (440)
T ss_pred CCEEEEECCCCCChHHHHHHHhccC----CCCEEEEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHHHH
Confidence 3578999999999999999887642 233445555555432 2223322222110000 001111111
Q ss_pred -HHHHHHHHc--CCceEEEEEeCC
Q 048163 284 -LQEELKKKL--SGKIFLLVLDDV 304 (350)
Q Consensus 284 -~~~~l~~~l--~~kr~LlVlDdv 304 (350)
..-.+.+++ ++++.||++||+
T Consensus 239 ~~a~tiAEyfrd~G~~VLl~~Dsl 262 (440)
T PRK06820 239 STATTIAEYFRDRGKKVLLMADSL 262 (440)
T ss_pred HHHHHHHHHHHHcCCCEEEEccch
Confidence 122344444 589999999999
No 484
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.49 E-value=0.037 Score=50.92 Aligned_cols=25 Identities=32% Similarity=0.452 Sum_probs=22.4
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...++.++|+.|+||||++..+...
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~ 137 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHK 137 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHH
Confidence 4689999999999999999998765
No 485
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=94.49 E-value=0.031 Score=45.70 Aligned_cols=22 Identities=27% Similarity=0.579 Sum_probs=19.3
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
-|.|+|.+|+|||||++.+.+.
T Consensus 2 ki~v~G~~~~GKTsli~~~~~~ 23 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQG 23 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhC
Confidence 3789999999999999998754
No 486
>PRK13946 shikimate kinase; Provisional
Probab=94.48 E-value=0.031 Score=47.07 Aligned_cols=24 Identities=21% Similarity=0.383 Sum_probs=21.7
Q ss_pred eEEEEEeecCCCchHHHHHHHHhc
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+.|.++|+.|+||||+++.+...
T Consensus 10 ~~~I~l~G~~GsGKsti~~~LA~~ 33 (184)
T PRK13946 10 KRTVVLVGLMGAGKSTVGRRLATM 33 (184)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 467999999999999999999875
No 487
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=94.47 E-value=0.082 Score=48.81 Aligned_cols=26 Identities=31% Similarity=0.429 Sum_probs=22.8
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+...+|+|.|++|+|||||+..+...
T Consensus 54 ~~~~~igi~G~~GaGKSTl~~~l~~~ 79 (332)
T PRK09435 54 GNALRIGITGVPGVGKSTFIEALGMH 79 (332)
T ss_pred CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 35789999999999999999987665
No 488
>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=94.46 E-value=0.034 Score=45.95 Aligned_cols=22 Identities=41% Similarity=0.619 Sum_probs=20.2
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
+|.|.|+.|+||||+|+.+.+.
T Consensus 2 iI~i~G~~GSGKstia~~la~~ 23 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAEK 23 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999764
No 489
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=94.45 E-value=0.037 Score=45.44 Aligned_cols=23 Identities=39% Similarity=0.557 Sum_probs=21.2
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
++++|+|..|+|||||+..+...
T Consensus 2 ~vi~i~G~~gsGKTTli~~L~~~ 24 (159)
T cd03116 2 KVIGFVGYSGSGKTTLLEKLIPA 24 (159)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 58999999999999999999875
No 490
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=94.44 E-value=0.12 Score=43.54 Aligned_cols=119 Identities=17% Similarity=0.066 Sum_probs=62.0
Q ss_pred eEEEEEeecCCCchHHHHHHHHhccccccccCceeEEEeCC---CCCHHHHHHHH--HHHh--CCCCC----CCCCC---
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYNDKQVQDHFDLKAWTCVSD---DFDVFRLTKTI--LISI--VPDQN----VDNHN--- 280 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~~~~---~~~~~~~~~~i--l~~l--~~~~~----~~~~~--- 280 (350)
...|-|+|..|-||||.|.-+.-. .-.+=..+..+..-. ......++..+ +... +.... ....+
T Consensus 22 ~g~v~v~~g~GkGKtt~a~g~a~r--a~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~ 99 (191)
T PRK05986 22 KGLLIVHTGNGKGKSTAAFGMALR--AVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAA 99 (191)
T ss_pred CCeEEEECCCCCChHHHHHHHHHH--HHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence 468899999999999999887643 112112222232211 22333333321 0000 11000 00011
Q ss_pred HHHHHHHHHHHcC-CceEEEEEeCCCCC---CcccHhhhcCccCCCCCCceEEEecCCh
Q 048163 281 LNKLQEELKKKLS-GKIFLLVLDDVWNE---NYNDWDRLRPPFEAGAPGSKIIVTARNQ 335 (350)
Q Consensus 281 ~~~~~~~l~~~l~-~kr~LlVlDdv~~~---~~~~~~~l~~~l~~~~~gs~iivTtr~~ 335 (350)
.....+..++.+. ++-=|||||++-.. .....+.+...|...+.+..||+|=|+.
T Consensus 100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~ 158 (191)
T PRK05986 100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA 158 (191)
T ss_pred HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence 1122333444443 44559999999321 2234556666665556678999999986
No 491
>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=94.41 E-value=0.067 Score=48.88 Aligned_cols=26 Identities=31% Similarity=0.426 Sum_probs=23.0
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
....+|+|.|++|+|||||+..+...
T Consensus 32 ~~~~~i~i~G~~G~GKttl~~~l~~~ 57 (300)
T TIGR00750 32 GNAHRVGITGTPGAGKSTLLEALGME 57 (300)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHH
Confidence 46789999999999999999998764
No 492
>PRK01184 hypothetical protein; Provisional
Probab=94.39 E-value=0.033 Score=46.85 Aligned_cols=18 Identities=33% Similarity=0.719 Sum_probs=16.7
Q ss_pred EEEEEeecCCCchHHHHH
Q 048163 216 SVIPIIGMGGLGKTTLAQ 233 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~ 233 (350)
.+|.|+|++|+||||+++
T Consensus 2 ~~i~l~G~~GsGKsT~a~ 19 (184)
T PRK01184 2 KIIGVVGMPGSGKGEFSK 19 (184)
T ss_pred cEEEEECCCCCCHHHHHH
Confidence 489999999999999987
No 493
>PRK07960 fliI flagellum-specific ATP synthase; Validated
Probab=94.38 E-value=0.13 Score=49.27 Aligned_cols=25 Identities=16% Similarity=0.224 Sum_probs=21.7
Q ss_pred CeEEEEEeecCCCchHHHHHHHHhc
Q 048163 214 EFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 214 ~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.-..++|.|..|+|||||.+.+...
T Consensus 174 ~Gqri~I~G~sG~GKTTLL~~Ia~~ 198 (455)
T PRK07960 174 RGQRMGLFAGSGVGKSVLLGMMARY 198 (455)
T ss_pred CCcEEEEECCCCCCccHHHHHHhCC
Confidence 3467899999999999999988874
No 494
>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=94.37 E-value=0.028 Score=49.82 Aligned_cols=22 Identities=27% Similarity=0.578 Sum_probs=19.5
Q ss_pred EEEEeecCCCchHHHHHHHHhc
Q 048163 217 VIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 217 vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.|.+.|++|+||||+|+.+...
T Consensus 1 LIvl~G~pGSGKST~a~~La~~ 22 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKK 22 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHH
Confidence 3789999999999999998765
No 495
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=94.37 E-value=0.076 Score=48.72 Aligned_cols=23 Identities=35% Similarity=0.505 Sum_probs=19.9
Q ss_pred eEEEEEeecCCCchHHHHHHHHh
Q 048163 215 FSVIPIIGMGGLGKTTLAQLVYN 237 (350)
Q Consensus 215 ~~vi~I~G~gGvGKTtLa~~v~~ 237 (350)
.+++...|.|||||||+|....-
T Consensus 2 ~riv~f~GKGGVGKTT~aaA~A~ 24 (322)
T COG0003 2 TRIVFFTGKGGVGKTTIAAATAV 24 (322)
T ss_pred cEEEEEecCCcccHHHHHHHHHH
Confidence 47899999999999999988543
No 496
>PLN02318 phosphoribulokinase/uridine kinase
Probab=94.37 E-value=0.041 Score=54.19 Aligned_cols=26 Identities=27% Similarity=0.402 Sum_probs=23.2
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
....+|+|.|+.|+|||||++.+...
T Consensus 63 ~~riIIGIaGpSGSGKTTLAk~Lagl 88 (656)
T PLN02318 63 DGIILVGVAGPSGAGKTVFTEKVLNF 88 (656)
T ss_pred CCeEEEEEECCCCCcHHHHHHHHHhh
Confidence 35789999999999999999999764
No 497
>PRK14531 adenylate kinase; Provisional
Probab=94.36 E-value=0.036 Score=46.65 Aligned_cols=23 Identities=26% Similarity=0.303 Sum_probs=20.3
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
..|.|.|++|+||||+++.+...
T Consensus 3 ~~i~i~G~pGsGKsT~~~~la~~ 25 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQAARLCAA 25 (183)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 35889999999999999999774
No 498
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=94.36 E-value=0.034 Score=45.42 Aligned_cols=21 Identities=19% Similarity=0.412 Sum_probs=19.2
Q ss_pred EEEeecCCCchHHHHHHHHhc
Q 048163 218 IPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 218 i~I~G~gGvGKTtLa~~v~~~ 238 (350)
|.++|.+|+|||||++.+...
T Consensus 3 i~~vG~~~vGKTsli~~l~~~ 23 (168)
T cd04119 3 VISMGNSGVGKSCIIKRYCEG 23 (168)
T ss_pred EEEECCCCCCHHHHHHHHHhC
Confidence 789999999999999998765
No 499
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=94.35 E-value=0.036 Score=50.56 Aligned_cols=23 Identities=30% Similarity=0.447 Sum_probs=20.5
Q ss_pred EEEEEeecCCCchHHHHHHHHhc
Q 048163 216 SVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 216 ~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
.+|.+.|++|+||||+|+.+...
T Consensus 3 ~liil~G~pGSGKSTla~~L~~~ 25 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAAK 25 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHH
Confidence 57889999999999999998764
No 500
>PLN02796 D-glycerate 3-kinase
Probab=94.35 E-value=0.04 Score=50.81 Aligned_cols=26 Identities=35% Similarity=0.126 Sum_probs=23.2
Q ss_pred CCeEEEEEeecCCCchHHHHHHHHhc
Q 048163 213 GEFSVIPIIGMGGLGKTTLAQLVYND 238 (350)
Q Consensus 213 ~~~~vi~I~G~gGvGKTtLa~~v~~~ 238 (350)
...-+|+|.|+.|+|||||++.+...
T Consensus 98 ~~pliIGI~G~sGSGKSTLa~~L~~l 123 (347)
T PLN02796 98 IPPLVIGISAPQGCGKTTLVFALVYL 123 (347)
T ss_pred CCCEEEEEECCCCCcHHHHHHHHHHH
Confidence 35688999999999999999999875
Done!