Query 038944
Match_columns 334
No_of_seqs 250 out of 2207
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 04:49:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038944.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038944hhsearch_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 3E-41 6.5E-46 344.2 24.1 313 1-333 1-350 (889)
2 PF00931 NB-ARC: NB-ARC domain 99.9 2.9E-28 6.4E-33 222.6 8.0 156 161-318 1-158 (287)
3 PLN03210 Resistant to P. syrin 99.9 4.7E-22 1E-26 212.0 17.7 171 154-333 182-383 (1153)
4 PRK00411 cdc6 cell division co 99.0 3E-09 6.6E-14 101.6 13.2 150 153-305 27-188 (394)
5 TIGR02928 orc1/cdc6 family rep 98.9 2.3E-08 5E-13 94.5 13.8 119 153-274 12-141 (365)
6 PF05729 NACHT: NACHT domain 98.8 2E-08 4.4E-13 83.4 9.6 139 180-330 1-161 (166)
7 cd01128 rho_factor Transcripti 98.8 1.1E-08 2.5E-13 91.1 7.5 89 180-272 17-113 (249)
8 PF13401 AAA_22: AAA domain; P 98.7 4.3E-08 9.4E-13 78.4 7.5 113 179-299 4-125 (131)
9 TIGR03015 pepcterm_ATPase puta 98.7 4.7E-07 1E-11 81.8 14.8 114 165-282 28-145 (269)
10 PRK09376 rho transcription ter 98.7 3.2E-08 6.9E-13 92.4 5.7 90 181-272 171-266 (416)
11 PF13173 AAA_14: AAA domain 98.6 6.8E-08 1.5E-12 77.4 6.6 103 179-305 2-104 (128)
12 cd00009 AAA The AAA+ (ATPases 98.6 7.6E-07 1.7E-11 71.7 12.0 122 160-301 2-131 (151)
13 PF01637 Arch_ATPase: Archaeal 98.5 4.5E-07 9.8E-12 79.5 8.5 43 158-202 1-43 (234)
14 TIGR00767 rho transcription te 98.5 5E-07 1.1E-11 84.8 8.5 92 180-272 169-265 (415)
15 PF13191 AAA_16: AAA ATPase do 98.5 2.5E-07 5.3E-12 78.5 5.5 79 157-235 1-83 (185)
16 PTZ00202 tuzin; Provisional 98.4 8.1E-06 1.7E-10 77.2 13.2 138 153-301 259-402 (550)
17 COG1474 CDC6 Cdc6-related prot 98.3 2.8E-06 6E-11 80.0 10.1 114 155-274 16-135 (366)
18 PTZ00112 origin recognition co 98.3 8.2E-06 1.8E-10 82.9 12.8 118 153-273 752-880 (1164)
19 PRK05564 DNA polymerase III su 98.3 1.6E-05 3.5E-10 73.6 13.7 125 156-301 4-134 (313)
20 PRK06893 DNA replication initi 98.3 1.3E-06 2.7E-11 77.3 5.7 109 179-318 39-162 (229)
21 TIGR02903 spore_lon_C ATP-depe 98.3 8.6E-06 1.9E-10 82.0 11.8 141 155-300 153-334 (615)
22 PRK13342 recombination factor 98.2 9.5E-06 2.1E-10 78.1 10.3 112 156-300 12-131 (413)
23 KOG2543 Origin recognition com 98.2 3.5E-05 7.5E-10 71.2 13.2 115 155-274 5-127 (438)
24 PRK04841 transcriptional regul 98.2 1.7E-05 3.7E-10 83.7 12.7 126 166-300 20-162 (903)
25 TIGR03420 DnaA_homol_Hda DnaA 98.2 9.5E-06 2.1E-10 71.2 9.1 40 161-202 22-61 (226)
26 PRK11331 5-methylcytosine-spec 98.1 2.9E-05 6.2E-10 74.3 12.2 119 155-284 174-297 (459)
27 COG2256 MGS1 ATPase related to 98.1 2.4E-05 5.2E-10 72.8 10.2 130 153-318 27-164 (436)
28 TIGR00635 ruvB Holliday juncti 98.1 7.3E-06 1.6E-10 75.5 6.7 135 156-304 4-144 (305)
29 PRK13341 recombination factor 98.1 3.9E-05 8.5E-10 78.3 12.2 50 156-209 28-80 (725)
30 PRK12402 replication factor C 98.0 2.9E-05 6.2E-10 72.5 10.0 45 156-202 15-59 (337)
31 CHL00181 cbbX CbbX; Provisiona 98.0 0.00011 2.5E-09 67.0 13.6 128 157-304 24-175 (287)
32 TIGR02880 cbbX_cfxQ probable R 98.0 9.9E-05 2.1E-09 67.4 12.6 125 158-302 24-172 (284)
33 KOG2028 ATPase related to the 98.0 3.1E-05 6.8E-10 71.1 8.5 118 153-301 141-262 (554)
34 PRK08116 hypothetical protein; 98.0 2.1E-05 4.4E-10 71.2 7.4 102 180-300 115-221 (268)
35 TIGR01242 26Sp45 26S proteasom 98.0 2.2E-05 4.7E-10 74.4 7.5 55 153-209 119-184 (364)
36 PRK04195 replication factor C 98.0 4.9E-05 1.1E-09 74.6 10.1 117 156-298 14-138 (482)
37 TIGR02881 spore_V_K stage V sp 97.9 0.00011 2.4E-09 66.2 10.8 45 157-201 7-64 (261)
38 PRK08118 topology modulation p 97.9 6.4E-06 1.4E-10 69.1 2.4 35 180-214 2-37 (167)
39 PHA02544 44 clamp loader, smal 97.9 0.0001 2.3E-09 68.2 10.7 47 155-202 20-66 (316)
40 smart00382 AAA ATPases associa 97.9 8.3E-05 1.8E-09 59.0 8.5 88 180-275 3-91 (148)
41 PRK14961 DNA polymerase III su 97.9 0.00026 5.5E-09 67.0 12.9 136 156-299 16-158 (363)
42 PRK07003 DNA polymerase III su 97.9 0.00016 3.5E-09 73.1 11.8 137 156-300 16-159 (830)
43 PRK00080 ruvB Holliday junctio 97.8 8.1E-05 1.7E-09 69.4 8.7 48 155-202 24-74 (328)
44 PRK14963 DNA polymerase III su 97.8 3.5E-05 7.6E-10 75.7 6.4 158 156-318 14-176 (504)
45 PRK00440 rfc replication facto 97.8 0.00034 7.5E-09 64.6 11.9 45 156-202 17-61 (319)
46 PRK14957 DNA polymerase III su 97.7 0.00026 5.6E-09 70.0 11.3 125 156-303 16-163 (546)
47 PRK06645 DNA polymerase III su 97.7 0.00078 1.7E-08 66.1 14.2 156 155-318 20-188 (507)
48 PF00004 AAA: ATPase family as 97.7 0.00014 3E-09 57.8 7.4 21 182-202 1-21 (132)
49 PRK14949 DNA polymerase III su 97.7 0.00033 7.1E-09 72.1 11.6 152 156-318 16-179 (944)
50 PRK14960 DNA polymerase III su 97.7 0.00042 9.1E-09 69.3 12.1 136 156-299 15-157 (702)
51 COG2909 MalT ATP-dependent tra 97.7 0.00058 1.3E-08 69.1 13.0 133 165-301 24-171 (894)
52 PF04665 Pox_A32: Poxvirus A32 97.7 0.00016 3.5E-09 63.9 8.1 36 180-217 14-49 (241)
53 PRK14962 DNA polymerase III su 97.7 0.00092 2E-08 65.2 13.7 46 156-202 14-59 (472)
54 PRK09087 hypothetical protein; 97.7 0.00031 6.7E-09 61.9 9.3 24 179-202 44-67 (226)
55 PLN03025 replication factor C 97.6 0.0004 8.6E-09 64.5 10.4 45 156-202 13-57 (319)
56 PRK08727 hypothetical protein; 97.6 0.00014 3.1E-09 64.3 6.7 36 179-216 41-76 (233)
57 PRK03992 proteasome-activating 97.6 0.00028 6E-09 67.4 9.0 50 153-202 128-188 (389)
58 PRK14958 DNA polymerase III su 97.6 0.0009 1.9E-08 66.0 12.5 45 156-201 16-60 (509)
59 PF05673 DUF815: Protein of un 97.6 0.00054 1.2E-08 60.3 9.7 104 153-285 24-132 (249)
60 TIGR02397 dnaX_nterm DNA polym 97.6 0.0016 3.4E-08 61.3 13.4 45 156-201 14-58 (355)
61 PRK14951 DNA polymerase III su 97.6 0.00089 1.9E-08 67.2 12.2 45 156-201 16-60 (618)
62 KOG2227 Pre-initiation complex 97.6 0.00049 1.1E-08 65.3 9.6 117 153-273 147-267 (529)
63 PRK12323 DNA polymerase III su 97.6 0.00097 2.1E-08 66.6 12.1 160 156-318 16-184 (700)
64 PRK05896 DNA polymerase III su 97.5 0.00055 1.2E-08 68.1 10.0 142 155-304 15-164 (605)
65 PF05496 RuvB_N: Holliday junc 97.5 0.00012 2.7E-09 63.5 4.8 55 154-210 22-79 (233)
66 TIGR02639 ClpA ATP-dependent C 97.5 0.00056 1.2E-08 70.6 10.1 118 155-286 453-579 (731)
67 PRK08084 DNA replication initi 97.5 0.00037 8E-09 61.8 7.7 24 179-202 45-68 (235)
68 PRK14955 DNA polymerase III su 97.5 0.0012 2.7E-08 63.2 11.7 149 155-304 15-172 (397)
69 PRK14969 DNA polymerase III su 97.5 0.0019 4.1E-08 64.0 13.0 45 156-201 16-60 (527)
70 PRK12377 putative replication 97.4 0.00055 1.2E-08 61.1 8.2 73 179-272 101-173 (248)
71 COG1373 Predicted ATPase (AAA+ 97.4 0.0012 2.6E-08 63.2 11.0 95 181-303 39-134 (398)
72 PRK07940 DNA polymerase III su 97.4 0.0019 4E-08 61.7 12.2 46 156-201 5-58 (394)
73 PF05621 TniB: Bacterial TniB 97.4 0.002 4.3E-08 58.5 11.7 116 154-273 32-156 (302)
74 PRK08181 transposase; Validate 97.4 0.00025 5.4E-09 64.1 5.8 98 180-300 107-209 (269)
75 PRK10536 hypothetical protein; 97.4 0.0014 3E-08 58.4 10.3 44 155-202 54-97 (262)
76 PRK14950 DNA polymerase III su 97.4 0.00092 2E-08 67.2 10.4 137 155-298 15-158 (585)
77 PRK12608 transcription termina 97.4 0.00065 1.4E-08 63.7 8.4 105 166-272 121-230 (380)
78 PRK08691 DNA polymerase III su 97.4 0.0019 4.2E-08 65.1 12.2 45 156-201 16-60 (709)
79 PRK07952 DNA replication prote 97.4 0.00091 2E-08 59.5 9.0 114 165-299 85-204 (244)
80 PRK07261 topology modulation p 97.4 0.00057 1.2E-08 57.5 7.3 54 181-234 2-56 (171)
81 PRK14964 DNA polymerase III su 97.4 0.0017 3.8E-08 63.3 11.5 45 156-201 13-57 (491)
82 PRK05642 DNA replication initi 97.4 0.00069 1.5E-08 60.0 8.1 23 179-201 45-67 (234)
83 PRK07994 DNA polymerase III su 97.4 0.0012 2.7E-08 66.4 10.6 153 155-318 15-179 (647)
84 PRK14088 dnaA chromosomal repl 97.4 0.00097 2.1E-08 64.7 9.3 99 179-298 130-235 (440)
85 TIGR03346 chaperone_ClpB ATP-d 97.4 0.00087 1.9E-08 70.3 9.6 134 155-299 564-717 (852)
86 TIGR03689 pup_AAA proteasome A 97.4 0.0009 2E-08 65.6 9.0 47 156-202 182-239 (512)
87 PTZ00454 26S protease regulato 97.3 0.001 2.3E-08 63.5 9.2 49 154-202 143-202 (398)
88 TIGR03345 VI_ClpV1 type VI sec 97.3 0.00057 1.2E-08 71.4 8.0 47 155-201 565-618 (852)
89 PRK06835 DNA replication prote 97.3 0.0011 2.3E-08 61.7 8.9 23 180-202 184-206 (329)
90 CHL00095 clpC Clp protease ATP 97.3 0.00084 1.8E-08 70.2 9.1 47 155-201 508-561 (821)
91 PRK07764 DNA polymerase III su 97.3 0.0026 5.6E-08 66.1 12.2 151 156-317 15-179 (824)
92 TIGR00362 DnaA chromosomal rep 97.3 0.00075 1.6E-08 64.8 7.7 99 179-299 136-241 (405)
93 PRK14956 DNA polymerase III su 97.3 0.0017 3.8E-08 62.9 10.1 157 155-318 17-181 (484)
94 PF00308 Bac_DnaA: Bacterial d 97.3 0.00041 9E-09 60.8 5.4 111 167-299 21-139 (219)
95 TIGR00763 lon ATP-dependent pr 97.3 0.0021 4.6E-08 66.8 11.5 53 155-209 319-375 (775)
96 PRK14970 DNA polymerase III su 97.3 0.003 6.5E-08 59.8 11.5 45 156-201 17-61 (367)
97 PHA00729 NTP-binding motif con 97.3 0.0016 3.4E-08 57.0 8.7 23 179-201 17-39 (226)
98 PRK09183 transposase/IS protei 97.3 0.00067 1.5E-08 61.1 6.6 22 180-201 103-124 (259)
99 PRK10865 protein disaggregatio 97.3 0.0023 4.9E-08 67.1 11.3 47 155-201 567-620 (857)
100 PRK06526 transposase; Provisio 97.2 0.00046 9.9E-09 61.9 5.3 24 179-202 98-121 (254)
101 PRK06921 hypothetical protein; 97.2 0.0011 2.4E-08 59.9 7.9 37 179-217 117-154 (266)
102 PF13207 AAA_17: AAA domain; P 97.2 0.00025 5.4E-09 55.7 3.1 22 181-202 1-22 (121)
103 PRK14952 DNA polymerase III su 97.2 0.0046 9.9E-08 61.8 12.6 152 156-318 13-178 (584)
104 PRK00149 dnaA chromosomal repl 97.2 0.0012 2.7E-08 64.2 8.5 120 158-299 125-253 (450)
105 PRK14087 dnaA chromosomal repl 97.2 0.0012 2.6E-08 64.1 8.4 102 178-299 140-248 (450)
106 PRK06620 hypothetical protein; 97.2 0.00072 1.6E-08 59.1 6.1 23 180-202 45-67 (214)
107 PF13671 AAA_33: AAA domain; P 97.2 0.00097 2.1E-08 53.9 6.5 21 181-201 1-21 (143)
108 TIGR00678 holB DNA polymerase 97.2 0.0091 2E-07 50.8 12.8 40 261-300 95-136 (188)
109 PRK09361 radB DNA repair and r 97.2 0.0015 3.2E-08 57.4 8.0 97 171-271 15-116 (225)
110 PRK05541 adenylylsulfate kinas 97.2 0.0023 5E-08 53.9 8.8 36 178-215 6-41 (176)
111 cd01123 Rad51_DMC1_radA Rad51_ 97.2 0.0025 5.3E-08 56.3 9.3 95 177-272 17-125 (235)
112 PRK09111 DNA polymerase III su 97.2 0.0048 1E-07 61.9 12.2 47 154-201 22-68 (598)
113 PRK14953 DNA polymerase III su 97.2 0.012 2.5E-07 57.9 14.5 45 156-201 16-60 (486)
114 PRK10865 protein disaggregatio 97.2 0.0023 5E-08 67.1 10.3 45 156-202 178-222 (857)
115 KOG2004 Mitochondrial ATP-depe 97.2 0.0024 5.3E-08 63.6 9.6 104 153-273 408-516 (906)
116 PRK12422 chromosomal replicati 97.2 0.0012 2.6E-08 64.0 7.5 99 179-299 141-244 (445)
117 COG0466 Lon ATP-dependent Lon 97.1 0.0023 5E-08 63.9 9.4 55 153-209 320-378 (782)
118 PRK08939 primosomal protein Dn 97.1 0.0013 2.8E-08 60.6 7.4 118 160-299 135-260 (306)
119 KOG0989 Replication factor C, 97.1 0.0022 4.7E-08 58.0 8.3 148 154-318 34-189 (346)
120 TIGR02639 ClpA ATP-dependent C 97.1 0.0028 6E-08 65.5 10.4 45 156-202 182-226 (731)
121 TIGR00602 rad24 checkpoint pro 97.1 0.0017 3.8E-08 65.3 8.6 50 153-202 81-133 (637)
122 TIGR02237 recomb_radB DNA repa 97.1 0.0019 4.1E-08 56.0 7.8 92 177-272 10-107 (209)
123 cd01133 F1-ATPase_beta F1 ATP 97.1 0.0016 3.5E-08 58.6 7.4 101 180-282 70-184 (274)
124 smart00763 AAA_PrkA PrkA AAA d 97.1 0.00054 1.2E-08 63.9 4.3 47 156-202 51-101 (361)
125 CHL00095 clpC Clp protease ATP 97.1 0.0017 3.6E-08 68.0 8.4 45 156-202 179-223 (821)
126 cd01131 PilT Pilus retraction 97.1 0.0017 3.6E-08 56.0 7.0 112 180-305 2-114 (198)
127 COG0593 DnaA ATPase involved i 97.1 0.0018 4E-08 61.4 7.5 120 156-298 88-216 (408)
128 PRK14086 dnaA chromosomal repl 97.1 0.0021 4.5E-08 64.1 8.2 99 179-299 314-419 (617)
129 PRK14954 DNA polymerase III su 97.1 0.0062 1.3E-07 61.3 11.6 46 155-201 15-60 (620)
130 PRK10787 DNA-binding ATP-depen 97.0 0.016 3.4E-07 60.2 14.8 55 153-209 319-377 (784)
131 PRK13695 putative NTPase; Prov 97.0 0.00069 1.5E-08 57.1 4.0 34 181-215 2-35 (174)
132 cd03238 ABC_UvrA The excision 97.0 0.0052 1.1E-07 52.0 9.3 116 179-305 21-154 (176)
133 TIGR02640 gas_vesic_GvpN gas v 97.0 0.0061 1.3E-07 54.9 10.4 54 165-227 11-64 (262)
134 COG1484 DnaC DNA replication p 97.0 0.0017 3.7E-08 58.3 6.6 75 178-273 104-178 (254)
135 PRK06696 uridine kinase; Valid 97.0 0.001 2.2E-08 58.5 5.1 41 161-201 3-44 (223)
136 cd01120 RecA-like_NTPases RecA 97.0 0.0044 9.6E-08 50.7 8.5 40 181-222 1-40 (165)
137 PRK11034 clpA ATP-dependent Cl 97.0 0.0046 9.9E-08 63.7 10.2 48 155-202 457-511 (758)
138 CHL00176 ftsH cell division pr 97.0 0.0023 4.9E-08 64.7 7.8 49 154-202 181-239 (638)
139 PRK14965 DNA polymerase III su 97.0 0.012 2.5E-07 59.2 12.8 46 155-201 15-60 (576)
140 PF01695 IstB_IS21: IstB-like 97.0 0.00037 8E-09 59.1 1.9 24 179-202 47-70 (178)
141 cd01393 recA_like RecA is a b 97.0 0.0081 1.8E-07 52.6 10.5 94 174-272 14-124 (226)
142 PRK07667 uridine kinase; Provi 96.9 0.0013 2.8E-08 56.4 5.1 37 165-201 3-39 (193)
143 COG0542 clpA ATP-binding subun 96.9 0.0062 1.3E-07 62.1 10.5 117 155-287 490-620 (786)
144 cd03247 ABCC_cytochrome_bd The 96.9 0.0044 9.4E-08 52.4 8.2 24 179-202 28-51 (178)
145 TIGR03345 VI_ClpV1 type VI sec 96.9 0.0031 6.6E-08 66.1 8.6 45 156-202 187-231 (852)
146 TIGR01817 nifA Nif-specific re 96.9 0.016 3.4E-07 57.8 13.3 50 153-202 193-242 (534)
147 PRK14971 DNA polymerase III su 96.9 0.021 4.7E-07 57.6 14.1 46 155-201 16-61 (614)
148 PRK11034 clpA ATP-dependent Cl 96.9 0.0044 9.4E-08 63.9 9.2 44 156-201 186-229 (758)
149 TIGR01241 FtsH_fam ATP-depende 96.9 0.0028 6.1E-08 62.5 7.3 48 155-202 54-111 (495)
150 PF02562 PhoH: PhoH-like prote 96.8 0.0032 7E-08 54.3 6.6 52 160-215 4-55 (205)
151 PRK14959 DNA polymerase III su 96.8 0.016 3.6E-07 58.0 12.3 46 156-202 16-61 (624)
152 COG2255 RuvB Holliday junction 96.8 0.0015 3.2E-08 58.5 4.4 47 156-202 26-75 (332)
153 PF07693 KAP_NTPase: KAP famil 96.8 0.022 4.8E-07 52.7 12.6 145 162-308 2-222 (325)
154 TIGR03346 chaperone_ClpB ATP-d 96.8 0.0024 5.3E-08 67.0 6.8 45 156-202 173-217 (852)
155 COG2607 Predicted ATPase (AAA+ 96.8 0.0091 2E-07 52.3 9.0 105 153-286 57-166 (287)
156 COG1618 Predicted nucleotide k 96.8 0.00097 2.1E-08 54.7 2.8 23 179-201 5-27 (179)
157 PRK04301 radA DNA repair and r 96.8 0.012 2.6E-07 54.6 10.6 102 170-272 93-208 (317)
158 PRK15455 PrkA family serine pr 96.8 0.0015 3.3E-08 64.3 4.6 45 157-201 77-125 (644)
159 TIGR01243 CDC48 AAA family ATP 96.8 0.0055 1.2E-07 63.4 9.0 48 155-202 177-235 (733)
160 PTZ00301 uridine kinase; Provi 96.7 0.0014 3E-08 57.1 3.3 24 178-201 2-25 (210)
161 PTZ00361 26 proteosome regulat 96.7 0.0028 6.1E-08 61.1 5.7 52 156-209 183-245 (438)
162 cd01394 radB RadB. The archaea 96.7 0.0092 2E-07 52.0 8.6 92 177-272 17-113 (218)
163 PRK06647 DNA polymerase III su 96.7 0.034 7.5E-07 55.6 13.5 46 156-202 16-61 (563)
164 PRK05022 anaerobic nitric oxid 96.7 0.038 8.2E-07 54.8 13.8 49 154-202 185-233 (509)
165 TIGR02238 recomb_DMC1 meiotic 96.7 0.012 2.5E-07 54.5 9.5 101 171-272 88-201 (313)
166 PRK07471 DNA polymerase III su 96.7 0.0024 5.1E-08 60.4 5.0 46 155-201 18-63 (365)
167 COG0470 HolB ATPase involved i 96.7 0.026 5.6E-07 52.1 11.9 46 157-202 2-47 (325)
168 PRK05703 flhF flagellar biosyn 96.7 0.31 6.7E-06 47.1 19.5 23 179-201 221-243 (424)
169 PRK14948 DNA polymerase III su 96.7 0.031 6.7E-07 56.5 13.1 137 156-298 16-159 (620)
170 KOG1514 Origin recognition com 96.7 0.026 5.6E-07 56.4 12.0 135 155-297 395-546 (767)
171 TIGR02239 recomb_RAD51 DNA rep 96.7 0.013 2.8E-07 54.3 9.7 105 167-272 84-201 (316)
172 TIGR01359 UMP_CMP_kin_fam UMP- 96.7 0.0079 1.7E-07 50.8 7.6 22 181-202 1-22 (183)
173 PF13177 DNA_pol3_delta2: DNA 96.6 0.039 8.5E-07 45.9 11.6 124 160-307 1-150 (162)
174 PRK06305 DNA polymerase III su 96.6 0.025 5.4E-07 55.1 11.8 46 155-201 16-61 (451)
175 TIGR02858 spore_III_AA stage I 96.6 0.018 4E-07 52.0 10.0 130 164-306 97-235 (270)
176 PRK15429 formate hydrogenlyase 96.6 0.011 2.4E-07 60.7 9.7 48 156-203 376-423 (686)
177 COG0572 Udk Uridine kinase [Nu 96.6 0.0055 1.2E-07 53.1 6.3 25 177-201 6-30 (218)
178 cd03222 ABC_RNaseL_inhibitor T 96.6 0.018 3.9E-07 48.7 9.3 24 179-202 25-48 (177)
179 cd03221 ABCF_EF-3 ABCF_EF-3 E 96.6 0.032 6.9E-07 45.4 10.4 97 179-305 26-132 (144)
180 PF12775 AAA_7: P-loop contain 96.6 0.0057 1.2E-07 55.4 6.5 89 165-272 22-110 (272)
181 cd03282 ABC_MSH4_euk MutS4 hom 96.6 0.0028 6E-08 54.9 4.2 123 179-310 29-161 (204)
182 COG3899 Predicted ATPase [Gene 96.6 0.0076 1.7E-07 63.1 8.2 45 157-201 1-46 (849)
183 PRK09112 DNA polymerase III su 96.6 0.023 4.9E-07 53.5 10.6 47 154-201 21-67 (351)
184 cd03214 ABC_Iron-Siderophores_ 96.5 0.016 3.5E-07 49.0 8.8 122 179-305 25-163 (180)
185 PLN03187 meiotic recombination 96.5 0.015 3.3E-07 54.3 9.3 100 172-272 119-231 (344)
186 PRK08233 hypothetical protein; 96.5 0.0022 4.7E-08 54.1 3.4 24 179-202 3-26 (182)
187 PF13238 AAA_18: AAA domain; P 96.5 0.0019 4.1E-08 50.9 2.9 21 182-202 1-21 (129)
188 PRK08451 DNA polymerase III su 96.5 0.049 1.1E-06 53.9 13.2 45 156-201 14-58 (535)
189 PRK07133 DNA polymerase III su 96.5 0.033 7.3E-07 56.8 12.3 45 156-201 18-62 (725)
190 PRK04296 thymidine kinase; Pro 96.5 0.0042 9E-08 53.2 5.1 113 180-301 3-117 (190)
191 PRK05480 uridine/cytidine kina 96.5 0.0023 4.9E-08 55.6 3.5 25 178-202 5-29 (209)
192 KOG0924 mRNA splicing factor A 96.5 0.032 6.9E-07 55.6 11.5 137 164-312 360-525 (1042)
193 PF00485 PRK: Phosphoribulokin 96.5 0.0021 4.6E-08 55.2 3.1 22 181-202 1-22 (194)
194 PRK09270 nucleoside triphospha 96.5 0.0047 1E-07 54.5 5.3 26 176-201 30-55 (229)
195 PRK11608 pspF phage shock prot 96.5 0.011 2.4E-07 55.0 8.0 47 156-202 6-52 (326)
196 KOG1532 GTPase XAB1, interacts 96.5 0.013 2.7E-07 52.3 7.6 62 177-240 17-89 (366)
197 TIGR00235 udk uridine kinase. 96.5 0.0028 6.2E-08 54.9 3.7 26 177-202 4-29 (207)
198 TIGR01069 mutS2 MutS2 family p 96.4 0.072 1.6E-06 55.3 14.4 121 179-307 322-452 (771)
199 cd03223 ABCD_peroxisomal_ALDP 96.4 0.041 8.9E-07 45.9 10.5 115 179-304 27-152 (166)
200 PF08423 Rad51: Rad51; InterP 96.4 0.013 2.9E-07 52.6 7.9 95 177-272 36-143 (256)
201 smart00534 MUTSac ATPase domai 96.4 0.04 8.6E-07 46.9 10.4 47 261-308 77-130 (185)
202 TIGR03499 FlhF flagellar biosy 96.4 0.012 2.7E-07 53.6 7.6 24 178-201 193-216 (282)
203 PRK00409 recombination and DNA 96.4 0.8 1.7E-05 47.8 21.5 124 178-309 326-459 (782)
204 TIGR00390 hslU ATP-dependent p 96.4 0.021 4.6E-07 54.4 9.1 75 158-234 14-104 (441)
205 PRK11889 flhF flagellar biosyn 96.3 0.05 1.1E-06 51.6 11.4 24 178-201 240-263 (436)
206 cd01135 V_A-ATPase_B V/A-type 96.3 0.016 3.5E-07 52.2 7.8 103 181-283 71-188 (276)
207 cd03217 ABC_FeS_Assembly ABC-t 96.3 0.033 7.1E-07 48.0 9.6 24 179-202 26-49 (200)
208 PRK13531 regulatory ATPase Rav 96.3 0.0097 2.1E-07 57.8 6.8 41 158-202 22-62 (498)
209 TIGR02236 recomb_radA DNA repa 96.3 0.03 6.5E-07 51.7 9.8 103 170-273 86-203 (310)
210 PF00448 SRP54: SRP54-type pro 96.3 0.008 1.7E-07 51.7 5.6 23 179-201 1-23 (196)
211 PRK05563 DNA polymerase III su 96.3 0.093 2E-06 52.5 13.8 46 155-201 15-60 (559)
212 TIGR00959 ffh signal recogniti 96.3 0.019 4.1E-07 55.3 8.5 24 178-201 98-121 (428)
213 PRK12724 flagellar biosynthesi 96.3 0.04 8.6E-07 52.7 10.5 24 178-201 222-245 (432)
214 PLN03186 DNA repair protein RA 96.3 0.033 7.2E-07 52.1 9.9 104 168-272 112-228 (342)
215 PRK06547 hypothetical protein; 96.3 0.007 1.5E-07 50.9 4.9 26 177-202 13-38 (172)
216 cd03246 ABCC_Protease_Secretio 96.2 0.02 4.4E-07 48.0 7.6 24 179-202 28-51 (173)
217 PF13604 AAA_30: AAA domain; P 96.2 0.014 3.1E-07 50.1 6.8 115 166-301 7-132 (196)
218 PRK06762 hypothetical protein; 96.2 0.0041 8.9E-08 51.7 3.2 23 180-202 3-25 (166)
219 COG4608 AppF ABC-type oligopep 96.2 0.021 4.5E-07 51.0 7.8 129 178-309 38-179 (268)
220 PRK00771 signal recognition pa 96.2 0.027 5.8E-07 54.5 9.1 25 178-202 94-118 (437)
221 PF12061 DUF3542: Protein of u 96.2 0.012 2.6E-07 53.2 6.2 103 5-127 298-401 (402)
222 COG0468 RecA RecA/RadA recombi 96.2 0.037 8E-07 50.1 9.4 97 172-273 53-152 (279)
223 PF00006 ATP-synt_ab: ATP synt 96.2 0.013 2.7E-07 51.2 6.2 96 181-282 17-126 (215)
224 COG1875 NYN ribonuclease and A 96.2 0.012 2.6E-07 54.5 6.3 37 161-199 229-265 (436)
225 PRK08972 fliI flagellum-specif 96.2 0.021 4.5E-07 54.9 8.0 97 180-280 163-271 (444)
226 PRK03839 putative kinase; Prov 96.2 0.0042 9.1E-08 52.5 3.1 22 181-202 2-23 (180)
227 cd02019 NK Nucleoside/nucleoti 96.1 0.0041 9E-08 43.8 2.5 22 181-202 1-22 (69)
228 cd02027 APSK Adenosine 5'-phos 96.1 0.051 1.1E-06 44.5 9.4 21 181-201 1-21 (149)
229 TIGR01360 aden_kin_iso1 adenyl 96.1 0.0047 1E-07 52.3 3.3 24 178-201 2-25 (188)
230 COG0194 Gmk Guanylate kinase [ 96.1 0.025 5.3E-07 47.7 7.3 25 179-203 4-28 (191)
231 TIGR01425 SRP54_euk signal rec 96.1 0.1 2.2E-06 50.2 12.5 24 178-201 99-122 (429)
232 cd03283 ABC_MutS-like MutS-lik 96.1 0.037 8.1E-07 47.7 8.8 22 180-201 26-47 (199)
233 TIGR02974 phageshock_pspF psp 96.1 0.028 6E-07 52.5 8.5 45 158-202 1-45 (329)
234 PRK10867 signal recognition pa 96.1 0.024 5.3E-07 54.6 8.3 23 178-200 99-121 (433)
235 cd02025 PanK Pantothenate kina 96.1 0.018 3.9E-07 50.5 6.8 21 181-201 1-21 (220)
236 cd03281 ABC_MSH5_euk MutS5 hom 96.1 0.007 1.5E-07 52.8 4.2 123 179-307 29-161 (213)
237 TIGR01243 CDC48 AAA family ATP 96.1 0.042 9.1E-07 57.0 10.6 48 155-202 452-510 (733)
238 cd02021 GntK Gluconate kinase 96.1 0.095 2.1E-06 42.6 10.8 22 181-202 1-22 (150)
239 TIGR02012 tigrfam_recA protein 96.1 0.018 3.9E-07 53.3 7.0 87 177-272 53-143 (321)
240 PRK01184 hypothetical protein; 96.1 0.097 2.1E-06 44.2 11.1 21 180-201 2-22 (184)
241 TIGR00150 HI0065_YjeE ATPase, 96.1 0.01 2.3E-07 47.6 4.7 41 163-203 6-46 (133)
242 cd03230 ABC_DR_subfamily_A Thi 96.1 0.044 9.6E-07 45.9 8.8 24 179-202 26-49 (173)
243 PRK04040 adenylate kinase; Pro 96.0 0.0055 1.2E-07 52.4 3.2 23 179-201 2-24 (188)
244 PRK05201 hslU ATP-dependent pr 96.0 0.016 3.5E-07 55.3 6.5 77 156-234 15-107 (443)
245 KOG0733 Nuclear AAA ATPase (VC 96.0 0.022 4.7E-07 56.2 7.4 94 156-273 190-293 (802)
246 COG1121 ZnuC ABC-type Mn/Zn tr 96.0 0.077 1.7E-06 47.3 10.3 122 180-305 31-204 (254)
247 cd02023 UMPK Uridine monophosp 96.0 0.0044 9.5E-08 53.2 2.5 21 181-201 1-21 (198)
248 PRK08927 fliI flagellum-specif 96.0 0.032 7E-07 53.7 8.5 99 179-281 158-268 (442)
249 PRK08149 ATP synthase SpaL; Va 96.0 0.03 6.6E-07 53.8 8.3 87 180-272 152-251 (428)
250 COG2884 FtsE Predicted ATPase 96.0 0.056 1.2E-06 45.8 8.8 58 251-308 144-205 (223)
251 PF00158 Sigma54_activat: Sigm 96.0 0.029 6.2E-07 47.0 7.2 46 158-203 1-46 (168)
252 PRK14738 gmk guanylate kinase; 96.0 0.0069 1.5E-07 52.5 3.5 32 171-202 5-36 (206)
253 cd03115 SRP The signal recogni 96.0 0.044 9.6E-07 45.8 8.4 21 181-201 2-22 (173)
254 PRK08903 DnaA regulatory inact 95.9 0.012 2.5E-07 51.8 5.0 25 178-202 41-65 (227)
255 PRK00131 aroK shikimate kinase 95.9 0.0068 1.5E-07 50.5 3.3 24 179-202 4-27 (175)
256 cd03228 ABCC_MRP_Like The MRP 95.9 0.038 8.2E-07 46.3 7.9 24 179-202 28-51 (171)
257 KOG0991 Replication factor C, 95.9 0.022 4.8E-07 49.7 6.4 45 155-201 26-70 (333)
258 cd01132 F1_ATPase_alpha F1 ATP 95.9 0.038 8.3E-07 49.8 8.2 97 180-284 70-184 (274)
259 PRK06002 fliI flagellum-specif 95.9 0.042 9.1E-07 53.0 8.9 89 179-272 165-264 (450)
260 cd00983 recA RecA is a bacter 95.9 0.021 4.5E-07 53.0 6.6 87 177-272 53-143 (325)
261 PRK09354 recA recombinase A; P 95.9 0.026 5.6E-07 52.7 7.3 87 177-272 58-148 (349)
262 PRK00625 shikimate kinase; Pro 95.9 0.0061 1.3E-07 51.4 2.9 21 181-201 2-22 (173)
263 PRK12597 F0F1 ATP synthase sub 95.9 0.022 4.7E-07 55.3 7.0 90 180-272 144-247 (461)
264 PLN00020 ribulose bisphosphate 95.9 0.036 7.7E-07 52.0 8.0 26 177-202 146-171 (413)
265 PRK10751 molybdopterin-guanine 95.9 0.0084 1.8E-07 50.4 3.6 25 178-202 5-29 (173)
266 PF07728 AAA_5: AAA domain (dy 95.9 0.012 2.6E-07 47.3 4.5 86 182-284 2-89 (139)
267 PTZ00185 ATPase alpha subunit; 95.9 0.058 1.3E-06 52.7 9.7 101 181-281 191-309 (574)
268 PF03205 MobB: Molybdopterin g 95.9 0.0071 1.5E-07 49.1 3.1 39 180-219 1-39 (140)
269 cd03285 ABC_MSH2_euk MutS2 hom 95.9 0.015 3.3E-07 51.0 5.5 122 178-308 29-161 (222)
270 CHL00195 ycf46 Ycf46; Provisio 95.9 0.047 1E-06 53.6 9.2 47 156-202 228-282 (489)
271 TIGR02322 phosphon_PhnN phosph 95.8 0.0074 1.6E-07 50.9 3.0 23 180-202 2-24 (179)
272 cd00561 CobA_CobO_BtuR ATP:cor 95.8 0.041 8.9E-07 45.6 7.3 120 180-301 3-139 (159)
273 PRK00889 adenylylsulfate kinas 95.8 0.0091 2E-07 50.2 3.5 25 178-202 3-27 (175)
274 COG1102 Cmk Cytidylate kinase 95.8 0.012 2.7E-07 48.3 4.0 44 181-237 2-45 (179)
275 PRK14974 cell division protein 95.8 0.12 2.6E-06 48.2 11.2 24 178-201 139-162 (336)
276 PRK06936 type III secretion sy 95.8 0.046 9.9E-07 52.7 8.5 90 179-272 162-262 (439)
277 KOG0741 AAA+-type ATPase [Post 95.8 0.059 1.3E-06 52.4 9.1 109 177-308 536-659 (744)
278 KOG0734 AAA+-type ATPase conta 95.8 0.06 1.3E-06 52.4 9.1 52 154-205 302-363 (752)
279 COG1703 ArgK Putative periplas 95.8 0.013 2.7E-07 53.0 4.4 63 165-227 37-99 (323)
280 TIGR03263 guanyl_kin guanylate 95.8 0.0078 1.7E-07 50.7 3.0 22 180-201 2-23 (180)
281 PTZ00035 Rad51 protein; Provis 95.8 0.12 2.5E-06 48.5 11.0 105 168-273 107-224 (337)
282 PRK14721 flhF flagellar biosyn 95.7 0.16 3.4E-06 48.8 12.1 45 251-296 287-334 (420)
283 PRK14722 flhF flagellar biosyn 95.7 0.033 7.1E-07 52.7 7.3 23 179-201 137-159 (374)
284 TIGR01420 pilT_fam pilus retra 95.7 0.026 5.6E-07 53.0 6.6 114 179-305 122-235 (343)
285 PRK12678 transcription termina 95.7 0.022 4.8E-07 56.2 6.2 89 181-272 418-513 (672)
286 COG0563 Adk Adenylate kinase a 95.7 0.021 4.6E-07 48.3 5.4 22 181-202 2-23 (178)
287 cd03243 ABC_MutS_homologs The 95.7 0.0071 1.5E-07 52.2 2.6 22 180-201 30-51 (202)
288 PF07726 AAA_3: ATPase family 95.7 0.013 2.9E-07 46.5 3.8 28 182-211 2-29 (131)
289 TIGR03305 alt_F1F0_F1_bet alte 95.7 0.023 5E-07 54.8 6.1 99 180-281 139-252 (449)
290 cd02024 NRK1 Nicotinamide ribo 95.7 0.0073 1.6E-07 51.5 2.5 22 181-202 1-22 (187)
291 PLN02318 phosphoribulokinase/u 95.7 0.014 3.1E-07 57.8 4.7 35 168-202 54-88 (656)
292 cd02028 UMPK_like Uridine mono 95.7 0.0077 1.7E-07 51.0 2.6 22 181-202 1-22 (179)
293 PRK13947 shikimate kinase; Pro 95.7 0.0088 1.9E-07 49.9 2.9 21 181-201 3-23 (171)
294 PRK09280 F0F1 ATP synthase sub 95.7 0.034 7.3E-07 53.9 7.1 92 180-272 145-248 (463)
295 PRK10820 DNA-binding transcrip 95.7 0.075 1.6E-06 52.8 9.9 48 155-202 203-250 (520)
296 PF00625 Guanylate_kin: Guanyl 95.6 0.017 3.7E-07 48.9 4.6 37 179-217 2-38 (183)
297 cd01878 HflX HflX subfamily. 95.6 0.044 9.4E-07 47.1 7.3 26 178-203 40-65 (204)
298 KOG2228 Origin recognition com 95.6 0.06 1.3E-06 49.6 8.2 112 156-272 24-147 (408)
299 COG1419 FlhF Flagellar GTP-bin 95.6 0.078 1.7E-06 50.2 9.3 24 178-201 202-226 (407)
300 cd02020 CMPK Cytidine monophos 95.6 0.0078 1.7E-07 48.7 2.4 21 181-201 1-21 (147)
301 KOG0735 AAA+-type ATPase [Post 95.6 0.076 1.6E-06 53.4 9.5 96 155-272 407-504 (952)
302 PF08477 Miro: Miro-like prote 95.6 0.011 2.3E-07 46.0 3.1 22 182-203 2-23 (119)
303 cd03284 ABC_MutS1 MutS1 homolo 95.6 0.16 3.5E-06 44.3 10.8 21 180-200 31-51 (216)
304 COG1428 Deoxynucleoside kinase 95.6 0.01 2.3E-07 50.9 3.2 26 179-204 4-29 (216)
305 PRK05439 pantothenate kinase; 95.6 0.076 1.7E-06 48.9 9.0 25 177-201 84-108 (311)
306 PRK06217 hypothetical protein; 95.6 0.01 2.3E-07 50.3 3.2 24 180-203 2-25 (183)
307 cd00267 ABC_ATPase ABC (ATP-bi 95.6 0.049 1.1E-06 44.8 7.2 115 180-306 26-146 (157)
308 PF03308 ArgK: ArgK protein; 95.6 0.013 2.8E-07 52.1 3.7 38 164-201 14-51 (266)
309 COG1222 RPT1 ATP-dependent 26S 95.6 0.082 1.8E-06 49.1 9.0 95 153-272 148-254 (406)
310 PRK13949 shikimate kinase; Pro 95.6 0.01 2.2E-07 49.8 3.0 22 181-202 3-24 (169)
311 PRK12723 flagellar biosynthesi 95.6 0.18 4E-06 48.0 11.7 24 178-201 173-196 (388)
312 COG3903 Predicted ATPase [Gene 95.6 0.011 2.4E-07 55.5 3.4 113 178-300 13-127 (414)
313 TIGR00764 lon_rel lon-related 95.6 0.031 6.8E-07 56.4 6.9 75 155-236 17-92 (608)
314 PRK03846 adenylylsulfate kinas 95.5 0.013 2.8E-07 50.5 3.5 25 177-201 22-46 (198)
315 TIGR02788 VirB11 P-type DNA tr 95.5 0.033 7.1E-07 51.5 6.4 115 179-305 144-258 (308)
316 PRK14723 flhF flagellar biosyn 95.5 0.16 3.5E-06 52.2 11.8 23 179-201 185-207 (767)
317 PRK00300 gmk guanylate kinase; 95.5 0.012 2.6E-07 50.8 3.3 24 179-202 5-28 (205)
318 TIGR00064 ftsY signal recognit 95.5 0.077 1.7E-06 48.1 8.7 25 177-201 70-94 (272)
319 PRK05688 fliI flagellum-specif 95.5 0.069 1.5E-06 51.6 8.6 90 180-273 169-269 (451)
320 PTZ00088 adenylate kinase 1; P 95.5 0.022 4.7E-07 50.3 4.7 22 181-202 8-29 (229)
321 PRK06793 fliI flagellum-specif 95.4 0.21 4.6E-06 48.1 11.8 124 179-308 156-294 (432)
322 cd03287 ABC_MSH3_euk MutS3 hom 95.4 0.12 2.5E-06 45.5 9.2 45 261-307 109-161 (222)
323 cd01121 Sms Sms (bacterial rad 95.4 0.066 1.4E-06 50.8 8.2 98 167-272 70-168 (372)
324 PRK05922 type III secretion sy 95.4 0.075 1.6E-06 51.1 8.6 89 180-272 158-257 (434)
325 PRK12727 flagellar biosynthesi 95.4 0.041 8.9E-07 54.1 6.8 24 178-201 349-372 (559)
326 PRK10078 ribose 1,5-bisphospho 95.4 0.013 2.8E-07 49.9 3.1 23 180-202 3-25 (186)
327 TIGR00554 panK_bact pantothena 95.4 0.014 3.1E-07 53.3 3.4 25 177-201 60-84 (290)
328 COG0396 sufC Cysteine desulfur 95.4 0.16 3.4E-06 44.4 9.5 60 253-312 153-216 (251)
329 PF00910 RNA_helicase: RNA hel 95.4 0.0098 2.1E-07 45.8 2.0 20 182-201 1-20 (107)
330 PRK14530 adenylate kinase; Pro 95.4 0.012 2.7E-07 51.2 2.9 22 181-202 5-26 (215)
331 cd00071 GMPK Guanosine monopho 95.4 0.015 3.3E-07 46.9 3.2 22 181-202 1-22 (137)
332 PRK07594 type III secretion sy 95.4 0.06 1.3E-06 51.8 7.7 90 179-272 155-255 (433)
333 cd00227 CPT Chloramphenicol (C 95.4 0.013 2.9E-07 49.3 2.9 23 180-202 3-25 (175)
334 TIGR00455 apsK adenylylsulfate 95.3 0.12 2.6E-06 43.7 8.9 24 178-201 17-40 (184)
335 cd01672 TMPK Thymidine monopho 95.3 0.026 5.6E-07 48.0 4.8 23 180-202 1-23 (200)
336 COG1936 Predicted nucleotide k 95.3 0.012 2.7E-07 48.9 2.6 20 181-200 2-21 (180)
337 PRK09099 type III secretion sy 95.3 0.078 1.7E-06 51.2 8.4 91 179-273 163-264 (441)
338 TIGR00073 hypB hydrogenase acc 95.3 0.015 3.3E-07 50.3 3.3 26 177-202 20-45 (207)
339 cd01136 ATPase_flagellum-secre 95.3 0.11 2.4E-06 48.2 9.1 87 180-272 70-169 (326)
340 cd01122 GP4d_helicase GP4d_hel 95.3 0.17 3.7E-06 45.6 10.3 54 179-235 30-83 (271)
341 COG1084 Predicted GTPase [Gene 95.3 0.25 5.4E-06 45.4 10.9 30 177-206 166-196 (346)
342 KOG1969 DNA replication checkp 95.3 0.057 1.2E-06 54.4 7.4 74 177-274 324-399 (877)
343 PRK10923 glnG nitrogen regulat 95.3 0.12 2.6E-06 50.5 9.9 47 156-202 138-184 (469)
344 PRK00279 adk adenylate kinase; 95.3 0.051 1.1E-06 47.4 6.4 21 181-201 2-22 (215)
345 PRK06995 flhF flagellar biosyn 95.3 0.22 4.9E-06 48.7 11.4 24 179-202 256-279 (484)
346 PRK13975 thymidylate kinase; P 95.3 0.016 3.4E-07 49.6 3.1 23 180-202 3-25 (196)
347 cd00464 SK Shikimate kinase (S 95.3 0.014 3.1E-07 47.6 2.8 20 182-201 2-21 (154)
348 PF01583 APS_kinase: Adenylyls 95.2 0.019 4.2E-07 47.3 3.4 23 179-201 2-24 (156)
349 cd01130 VirB11-like_ATPase Typ 95.2 0.032 6.9E-07 47.5 4.9 126 164-304 13-139 (186)
350 PRK05057 aroK shikimate kinase 95.2 0.018 4E-07 48.4 3.4 24 179-202 4-27 (172)
351 cd03280 ABC_MutS2 MutS2 homolo 95.2 0.16 3.6E-06 43.6 9.4 21 180-200 29-49 (200)
352 PRK14737 gmk guanylate kinase; 95.2 0.024 5.2E-07 48.4 4.0 25 178-202 3-27 (186)
353 COG1124 DppF ABC-type dipeptid 95.2 0.016 3.5E-07 50.9 2.9 55 255-311 152-213 (252)
354 COG0467 RAD55 RecA-superfamily 95.2 0.025 5.5E-07 50.8 4.4 52 176-231 20-71 (260)
355 cd01129 PulE-GspE PulE/GspE Th 95.2 0.058 1.2E-06 48.7 6.6 127 159-304 62-188 (264)
356 TIGR03497 FliI_clade2 flagella 95.2 0.15 3.4E-06 48.9 9.8 90 179-272 137-237 (413)
357 PRK08058 DNA polymerase III su 95.2 0.37 7.9E-06 45.0 12.2 43 158-201 7-50 (329)
358 PRK07399 DNA polymerase III su 95.1 0.29 6.3E-06 45.3 11.4 45 156-201 4-48 (314)
359 TIGR00750 lao LAO/AO transport 95.1 0.035 7.7E-07 51.0 5.3 36 166-201 21-56 (300)
360 COG1223 Predicted ATPase (AAA+ 95.1 0.027 5.9E-07 50.0 4.2 50 153-202 118-174 (368)
361 TIGR00176 mobB molybdopterin-g 95.1 0.015 3.3E-07 48.0 2.5 36 181-217 1-36 (155)
362 PF06309 Torsin: Torsin; Inte 95.1 0.042 9.1E-07 43.5 4.8 46 157-202 26-76 (127)
363 CHL00059 atpA ATP synthase CF1 95.1 0.13 2.8E-06 50.1 9.1 94 181-282 143-254 (485)
364 PRK13946 shikimate kinase; Pro 95.1 0.019 4.1E-07 48.8 3.0 23 179-201 10-32 (184)
365 PRK13948 shikimate kinase; Pro 95.0 0.023 5E-07 48.3 3.5 24 178-201 9-32 (182)
366 PF00005 ABC_tran: ABC transpo 95.0 0.02 4.3E-07 45.8 2.9 22 180-201 12-33 (137)
367 COG4088 Predicted nucleotide k 95.0 0.02 4.2E-07 49.1 2.9 22 180-201 2-23 (261)
368 PF03266 NTPase_1: NTPase; In 95.0 0.019 4E-07 48.2 2.8 21 182-202 2-22 (168)
369 cd00820 PEPCK_HprK Phosphoenol 95.0 0.023 4.9E-07 43.8 3.0 22 179-200 15-36 (107)
370 TIGR01039 atpD ATP synthase, F 95.0 0.087 1.9E-06 51.0 7.6 92 180-272 144-247 (461)
371 TIGR01041 ATP_syn_B_arch ATP s 95.0 0.09 2E-06 51.1 7.8 101 181-282 143-259 (458)
372 COG2019 AdkA Archaeal adenylat 95.0 0.021 4.6E-07 47.2 3.0 23 179-201 4-26 (189)
373 COG0237 CoaE Dephospho-CoA kin 95.0 0.02 4.4E-07 49.3 3.1 23 179-201 2-24 (201)
374 TIGR01313 therm_gnt_kin carboh 95.0 0.015 3.3E-07 48.2 2.2 21 182-202 1-21 (163)
375 cd01134 V_A-ATPase_A V/A-type 95.0 0.18 4E-06 47.0 9.4 101 180-284 158-277 (369)
376 TIGR01040 V-ATPase_V1_B V-type 95.0 0.12 2.5E-06 50.0 8.3 100 181-281 143-267 (466)
377 PF00154 RecA: recA bacterial 95.0 0.096 2.1E-06 48.5 7.5 88 177-273 51-142 (322)
378 PRK10733 hflB ATP-dependent me 94.9 0.074 1.6E-06 54.2 7.4 27 181-209 187-213 (644)
379 TIGR03498 FliI_clade3 flagella 94.9 0.098 2.1E-06 50.3 7.8 97 180-280 141-249 (418)
380 PRK12339 2-phosphoglycerate ki 94.9 0.025 5.3E-07 48.7 3.4 24 179-202 3-26 (197)
381 PF03193 DUF258: Protein of un 94.9 0.049 1.1E-06 45.2 5.0 37 162-203 23-59 (161)
382 PRK11388 DNA-binding transcrip 94.9 0.23 5E-06 50.7 11.0 47 156-202 325-371 (638)
383 TIGR03574 selen_PSTK L-seryl-t 94.9 0.11 2.3E-06 46.4 7.6 20 182-201 2-21 (249)
384 cd03116 MobB Molybdenum is an 94.9 0.025 5.4E-07 47.0 3.2 23 180-202 2-24 (159)
385 PRK09435 membrane ATPase/prote 94.9 0.064 1.4E-06 49.9 6.3 37 165-201 42-78 (332)
386 PRK14527 adenylate kinase; Pro 94.9 0.024 5.2E-07 48.4 3.2 25 178-202 5-29 (191)
387 COG1763 MobB Molybdopterin-gua 94.9 0.021 4.4E-07 47.4 2.7 23 179-201 2-24 (161)
388 PF03969 AFG1_ATPase: AFG1-lik 94.9 0.049 1.1E-06 51.4 5.5 100 177-301 60-168 (362)
389 PRK14493 putative bifunctional 94.9 0.023 5E-07 51.5 3.2 23 180-202 2-24 (274)
390 PRK04182 cytidylate kinase; Pr 94.9 0.026 5.6E-07 47.3 3.3 22 181-202 2-23 (180)
391 cd04159 Arl10_like Arl10-like 94.8 0.21 4.5E-06 40.2 8.6 21 182-202 2-22 (159)
392 TIGR01818 ntrC nitrogen regula 94.8 0.24 5.2E-06 48.3 10.5 47 156-202 134-180 (463)
393 cd04101 RabL4 RabL4 (Rab-like4 94.8 0.23 4.9E-06 40.7 8.9 20 182-201 3-22 (164)
394 PF01926 MMR_HSR1: 50S ribosom 94.8 0.025 5.4E-07 43.9 3.0 21 182-202 2-22 (116)
395 COG3640 CooC CO dehydrogenase 94.8 0.04 8.7E-07 48.2 4.3 21 181-201 2-22 (255)
396 PF08298 AAA_PrkA: PrkA AAA do 94.8 0.047 1E-06 50.8 5.0 47 155-201 60-110 (358)
397 COG1126 GlnQ ABC-type polar am 94.8 0.025 5.4E-07 48.9 3.0 56 253-308 145-204 (240)
398 PLN02200 adenylate kinase fami 94.8 0.027 5.8E-07 49.9 3.4 24 178-201 42-65 (234)
399 PHA02774 E1; Provisional 94.8 0.11 2.4E-06 51.4 7.9 37 164-201 420-456 (613)
400 COG0464 SpoVK ATPases of the A 94.8 0.057 1.2E-06 53.3 6.0 94 156-273 242-346 (494)
401 PRK15115 response regulator Gl 94.8 0.15 3.2E-06 49.5 8.8 47 157-203 135-181 (444)
402 PRK05342 clpX ATP-dependent pr 94.8 0.065 1.4E-06 51.5 6.2 45 157-201 72-130 (412)
403 PRK06761 hypothetical protein; 94.8 0.056 1.2E-06 49.1 5.4 24 180-203 4-27 (282)
404 KOG0729 26S proteasome regulat 94.8 0.21 4.6E-06 44.6 8.7 95 153-272 174-280 (435)
405 COG1100 GTPase SAR1 and relate 94.8 0.023 5E-07 49.3 2.8 23 180-202 6-28 (219)
406 PLN02924 thymidylate kinase 94.7 0.11 2.3E-06 45.6 7.0 55 178-233 15-69 (220)
407 TIGR00708 cobA cob(I)alamin ad 94.7 0.15 3.3E-06 42.8 7.5 120 180-300 6-140 (173)
408 PF13521 AAA_28: AAA domain; P 94.7 0.022 4.7E-07 47.3 2.5 21 182-202 2-22 (163)
409 PF13481 AAA_25: AAA domain; P 94.7 0.068 1.5E-06 45.4 5.7 52 180-233 33-92 (193)
410 PRK07196 fliI flagellum-specif 94.7 0.13 2.9E-06 49.5 8.1 97 179-281 155-265 (434)
411 cd04139 RalA_RalB RalA/RalB su 94.7 0.031 6.7E-07 45.7 3.4 22 181-202 2-23 (164)
412 PRK06820 type III secretion sy 94.7 0.18 3.9E-06 48.7 9.0 23 180-202 164-186 (440)
413 PRK07721 fliI flagellum-specif 94.7 0.16 3.5E-06 49.2 8.6 24 179-202 158-181 (438)
414 PRK05707 DNA polymerase III su 94.7 0.62 1.3E-05 43.4 12.3 47 261-307 105-154 (328)
415 TIGR00041 DTMP_kinase thymidyl 94.7 0.057 1.2E-06 46.0 5.1 23 180-202 4-26 (195)
416 TIGR03496 FliI_clade1 flagella 94.7 0.2 4.4E-06 48.1 9.2 89 180-272 138-237 (411)
417 PRK08356 hypothetical protein; 94.7 0.028 6.1E-07 48.2 3.1 22 179-200 5-26 (195)
418 PRK13765 ATP-dependent proteas 94.7 0.059 1.3E-06 54.6 5.8 75 156-236 31-105 (637)
419 PLN02348 phosphoribulokinase 94.7 0.047 1E-06 51.7 4.8 27 175-201 45-71 (395)
420 PRK09825 idnK D-gluconate kina 94.7 0.028 6E-07 47.5 3.0 23 180-202 4-26 (176)
421 TIGR02915 PEP_resp_reg putativ 94.7 0.25 5.5E-06 47.9 10.1 45 157-202 140-185 (445)
422 PRK03731 aroL shikimate kinase 94.6 0.027 5.8E-07 47.0 2.8 22 180-201 3-24 (171)
423 PF14532 Sigma54_activ_2: Sigm 94.6 0.018 3.9E-07 46.4 1.7 45 159-203 1-45 (138)
424 PRK12726 flagellar biosynthesi 94.6 0.14 3.1E-06 48.4 7.7 24 178-201 205-228 (407)
425 PRK08472 fliI flagellum-specif 94.6 0.14 2.9E-06 49.5 7.8 96 179-281 157-266 (434)
426 PRK05537 bifunctional sulfate 94.6 0.053 1.1E-06 54.3 5.2 49 153-201 366-414 (568)
427 TIGR01287 nifH nitrogenase iro 94.6 0.025 5.3E-07 51.3 2.7 22 180-201 1-22 (275)
428 COG1120 FepC ABC-type cobalami 94.6 0.029 6.2E-07 50.1 3.0 24 178-201 27-50 (258)
429 PF10662 PduV-EutP: Ethanolami 94.6 0.03 6.6E-07 45.4 2.9 23 180-202 2-24 (143)
430 PRK13230 nitrogenase reductase 94.6 0.028 6E-07 51.1 2.9 22 180-201 2-23 (279)
431 cd03255 ABC_MJ0796_Lo1CDE_FtsE 94.5 0.03 6.5E-07 48.7 3.0 24 179-202 30-53 (218)
432 PF00488 MutS_V: MutS domain V 94.5 0.27 6E-06 43.5 9.1 113 180-310 44-176 (235)
433 PRK05800 cobU adenosylcobinami 94.5 0.18 4E-06 42.2 7.6 83 180-271 2-85 (170)
434 CHL00081 chlI Mg-protoporyphyr 94.5 0.035 7.5E-07 52.0 3.5 47 153-201 14-60 (350)
435 cd03227 ABC_Class2 ABC-type Cl 94.5 0.22 4.8E-06 41.3 8.1 46 261-306 98-147 (162)
436 cd03225 ABC_cobalt_CbiO_domain 94.5 0.031 6.8E-07 48.4 3.0 24 179-202 27-50 (211)
437 TIGR02173 cyt_kin_arch cytidyl 94.5 0.033 7.1E-07 46.3 3.0 21 181-201 2-22 (171)
438 COG0714 MoxR-like ATPases [Gen 94.5 0.11 2.3E-06 48.5 6.7 63 156-227 24-86 (329)
439 PF06414 Zeta_toxin: Zeta toxi 94.5 0.047 1E-06 46.9 4.0 118 177-304 13-135 (199)
440 cd04124 RabL2 RabL2 subfamily. 94.5 0.26 5.6E-06 40.5 8.4 21 182-202 3-23 (161)
441 PLN02796 D-glycerate 3-kinase 94.4 0.037 8.1E-07 51.5 3.5 25 178-202 99-123 (347)
442 PF03029 ATP_bind_1: Conserved 94.4 0.028 6.2E-07 49.9 2.6 20 184-203 1-20 (238)
443 COG1116 TauB ABC-type nitrate/ 94.4 0.033 7E-07 49.2 2.9 126 179-307 29-198 (248)
444 TIGR03324 alt_F1F0_F1_al alter 94.4 0.22 4.7E-06 48.8 8.8 99 180-282 163-275 (497)
445 TIGR03375 type_I_sec_LssB type 94.4 0.43 9.3E-06 49.2 11.6 23 179-201 491-513 (694)
446 PRK13232 nifH nitrogenase redu 94.4 0.03 6.5E-07 50.7 2.8 22 180-201 2-23 (273)
447 cd02040 NifH NifH gene encodes 94.4 0.031 6.6E-07 50.3 2.9 22 180-201 2-23 (270)
448 cd01862 Rab7 Rab7 subfamily. 94.4 0.034 7.3E-07 46.0 2.9 22 181-202 2-23 (172)
449 PRK09281 F0F1 ATP synthase sub 94.4 0.18 4E-06 49.5 8.4 99 180-282 163-275 (502)
450 TIGR00960 3a0501s02 Type II (G 94.4 0.033 7.2E-07 48.4 3.0 24 179-202 29-52 (216)
451 cd04163 Era Era subfamily. Er 94.4 0.038 8.2E-07 44.9 3.2 24 179-202 3-26 (168)
452 COG0542 clpA ATP-binding subun 94.4 0.052 1.1E-06 55.6 4.7 44 156-201 170-213 (786)
453 cd00544 CobU Adenosylcobinamid 94.4 0.099 2.1E-06 43.8 5.7 45 182-232 2-46 (169)
454 COG1643 HrpA HrpA-like helicas 94.4 0.33 7.3E-06 50.5 10.5 136 161-305 51-210 (845)
455 cd03297 ABC_ModC_molybdenum_tr 94.4 0.037 8.1E-07 48.0 3.3 25 177-202 22-46 (214)
456 TIGR02546 III_secr_ATP type II 94.4 0.29 6.3E-06 47.2 9.6 90 179-272 145-245 (422)
457 TIGR01166 cbiO cobalt transpor 94.4 0.035 7.5E-07 47.3 3.0 23 179-201 18-40 (190)
458 cd01428 ADK Adenylate kinase ( 94.4 0.032 6.8E-07 47.5 2.8 21 182-202 2-22 (194)
459 cd00879 Sar1 Sar1 subfamily. 94.4 0.065 1.4E-06 45.3 4.6 24 179-202 19-42 (190)
460 KOG0744 AAA+-type ATPase [Post 94.4 0.067 1.5E-06 49.0 4.8 81 179-273 177-261 (423)
461 PF14516 AAA_35: AAA-like doma 94.4 0.36 7.8E-06 45.1 10.0 112 155-273 10-138 (331)
462 PRK09519 recA DNA recombinatio 94.4 0.16 3.5E-06 52.4 8.1 97 167-272 47-148 (790)
463 cd04176 Rap2 Rap2 subgroup. T 94.4 0.19 4.2E-06 41.0 7.4 22 181-202 3-24 (163)
464 PRK08154 anaerobic benzoate ca 94.3 0.065 1.4E-06 49.5 4.9 24 178-201 132-155 (309)
465 cd04155 Arl3 Arl3 subfamily. 94.3 0.033 7.2E-07 46.2 2.8 24 179-202 14-37 (173)
466 cd03229 ABC_Class3 This class 94.3 0.037 8E-07 46.7 3.1 24 179-202 26-49 (178)
467 PRK14532 adenylate kinase; Pro 94.3 0.033 7.2E-07 47.3 2.8 20 182-201 3-22 (188)
468 TIGR02902 spore_lonB ATP-depen 94.3 0.055 1.2E-06 53.8 4.7 45 156-202 65-109 (531)
469 TIGR00231 small_GTP small GTP- 94.3 0.038 8.3E-07 44.2 3.0 23 181-203 3-25 (161)
470 COG1136 SalX ABC-type antimicr 94.3 0.038 8.2E-07 48.4 3.0 57 252-308 150-211 (226)
471 cd02022 DPCK Dephospho-coenzym 94.3 0.031 6.7E-07 47.2 2.5 21 181-201 1-21 (179)
472 PRK10463 hydrogenase nickel in 94.3 0.097 2.1E-06 47.7 5.8 25 177-201 102-126 (290)
473 KOG0738 AAA+-type ATPase [Post 94.3 0.087 1.9E-06 49.4 5.5 46 157-202 213-268 (491)
474 TIGR00962 atpA proton transloc 94.3 0.21 4.5E-06 49.2 8.4 99 180-282 162-274 (501)
475 TIGR01663 PNK-3'Pase polynucle 94.3 0.18 3.8E-06 50.0 8.0 93 177-305 367-463 (526)
476 PRK07960 fliI flagellum-specif 94.3 0.15 3.3E-06 49.3 7.3 24 179-202 175-198 (455)
477 cd04127 Rab27A Rab27a subfamil 94.3 0.37 7.9E-06 40.2 9.0 22 181-202 6-27 (180)
478 smart00173 RAS Ras subfamily o 94.2 0.047 1E-06 44.8 3.4 22 181-202 2-23 (164)
479 PRK13343 F0F1 ATP synthase sub 94.2 0.19 4.2E-06 49.2 8.1 99 180-282 163-275 (502)
480 cd03261 ABC_Org_Solvent_Resist 94.2 0.038 8.2E-07 48.8 3.0 24 179-202 26-49 (235)
481 cd02117 NifH_like This family 94.2 0.035 7.6E-07 48.2 2.8 22 180-201 1-22 (212)
482 TIGR02030 BchI-ChlI magnesium 94.2 0.069 1.5E-06 49.9 4.9 44 156-201 4-47 (337)
483 cd04119 RJL RJL (RabJ-Like) su 94.2 0.042 9E-07 45.0 3.0 21 182-202 3-23 (168)
484 cd03293 ABC_NrtD_SsuB_transpor 94.2 0.04 8.6E-07 48.1 3.0 24 179-202 30-53 (220)
485 TIGR01026 fliI_yscN ATPase Fli 94.2 0.22 4.9E-06 48.2 8.4 23 180-202 164-186 (440)
486 cd03269 ABC_putative_ATPase Th 94.2 0.041 8.8E-07 47.6 3.0 24 179-202 26-49 (210)
487 PRK08099 bifunctional DNA-bind 94.2 0.037 8.1E-07 53.0 3.0 25 178-202 218-242 (399)
488 PF01078 Mg_chelatase: Magnesi 94.2 0.082 1.8E-06 45.6 4.8 42 156-201 3-44 (206)
489 cd04113 Rab4 Rab4 subfamily. 94.2 0.043 9.2E-07 45.0 3.0 21 182-202 3-23 (161)
490 cd03263 ABC_subfamily_A The AB 94.2 0.04 8.8E-07 48.0 3.0 24 179-202 28-51 (220)
491 PRK14490 putative bifunctional 94.2 0.069 1.5E-06 50.7 4.8 32 178-211 4-35 (369)
492 cd01983 Fer4_NifH The Fer4_Nif 94.2 0.037 8E-07 40.8 2.4 21 181-201 1-21 (99)
493 PF11868 DUF3388: Protein of u 94.1 0.24 5.3E-06 40.6 7.1 88 163-284 36-132 (192)
494 cd03259 ABC_Carb_Solutes_like 94.1 0.041 9E-07 47.7 3.0 23 179-201 26-48 (213)
495 cd04106 Rab23_lke Rab23-like s 94.1 0.43 9.3E-06 38.8 9.0 21 182-202 3-23 (162)
496 smart00175 RAB Rab subfamily o 94.1 0.044 9.5E-07 44.8 3.0 21 182-202 3-23 (164)
497 cd00876 Ras Ras family. The R 94.1 0.052 1.1E-06 44.1 3.4 21 182-202 2-22 (160)
498 TIGR02673 FtsE cell division A 94.1 0.042 9.1E-07 47.7 3.0 24 179-202 28-51 (214)
499 PRK00698 tmk thymidylate kinas 94.1 0.044 9.6E-07 47.0 3.1 23 180-202 4-26 (205)
500 TIGR02315 ABC_phnC phosphonate 94.1 0.041 9E-07 48.7 3.0 23 179-201 28-50 (243)
No 1
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=100.00 E-value=3e-41 Score=344.20 Aligned_cols=313 Identities=19% Similarity=0.209 Sum_probs=260.1
Q ss_pred CcchHHHHHHHHHHHHhhhhhccccccchhHhhhHHhHHHhhhccccchHHHHHHHHHHhcccccCCchHHHHHHHHHHH
Q 038944 1 MDISFRLFSERLRRVLAGEEVTLPDAAKLPIQNLHAETEIVTSWLSEFQDDISCLLLQKMGHREIKNPDLTTVMDEINCF 80 (334)
Q Consensus 1 m~~~~~~~~~kl~~~l~~~e~~l~~~~~~~i~~L~~~l~~l~~~~~~~~~~~~~~~l~~a~~~~~~~~~v~~Wl~~lr~~ 80 (334)
|++.++..++|+.+++ .+++..+.+.++.+..|+++|. .++.++++++.++.....+..|...++++
T Consensus 1 ~~~~~s~~~~~~~~~l-~~~~~~~~~~~~~i~~Lk~~L~------------~l~~~l~d~~a~~~~~~~~~~~~e~~~~~ 67 (889)
T KOG4658|consen 1 MGACVSFGVEKLDQLL-NRESECLDGKDNYILELKENLK------------ALQSALEDLDAKRDDLERRVNWEEDVGDL 67 (889)
T ss_pred CCeEEEEehhhHHHHH-HHHHHHHhchHHHHHHHHHHHH------------HHHHHHHHHHhhcchHHHHHHHHHHHHHH
Confidence 5667777888999977 6888888899999999999999 99999999999988889999999999999
Q ss_pred HHhHHHHHHHHHhhhhcccccCC-----cccchh---hhHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCC----CC
Q 038944 81 TYESEKVIDTFINSISEQKSQSS-----CSEDIF---DALQGLQSRITDIKQRMQQLKHMDSEIIDRIKTFEAE----AG 148 (334)
Q Consensus 81 ayd~ED~lD~~~~~~~~~~~~~~-----~~~~~~---~~~~~~~~~i~~i~~~l~~i~~~~~~~~~~~~~~~~~----~~ 148 (334)
+|++||.++.|..........+. ...+.. .+.+..+..+..+.+++..+.+..+.+ +....-.. ..
T Consensus 68 ~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l--~~~~~~~~~~~~~~ 145 (889)
T KOG4658|consen 68 VYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESL--GSKGVFEVVGESLD 145 (889)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHh--ccccceeccccccc
Confidence 99999999999887755432210 011111 334455777888888888888888888 64442211 11
Q ss_pred cC---C-C--CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCC-CCCceeeEEEEEcCCCC
Q 038944 149 IS---S-S--SKSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSY-VKHYFDCHAWVPGTYPY 221 (334)
Q Consensus 149 ~~---~-r--~~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~-~~~~F~~~~wv~vs~~~ 221 (334)
.. + + .+... ||.+..++++.+.|..++. .+++|+||||+||||||+.++|+.. ++.+|+..+||+||++|
T Consensus 146 ~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f 222 (889)
T KOG4658|consen 146 PREKVETRPIQSESD-VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEF 222 (889)
T ss_pred chhhcccCCCCcccc-ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccc
Confidence 11 1 1 33333 9999999999999999875 8999999999999999999999987 99999999999999999
Q ss_pred CHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChH
Q 038944 222 DADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIK 301 (334)
Q Consensus 222 ~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~ 301 (334)
+...++++|+..++............ +++..|.+.|++|||||||||||+..+|+.|..++|...+||||++|||++.
T Consensus 223 ~~~~iq~~Il~~l~~~~~~~~~~~~~--~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~ 300 (889)
T KOG4658|consen 223 TTRKIQQTILERLGLLDEEWEDKEED--ELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEE 300 (889)
T ss_pred cHHhHHHHHHHHhccCCcccchhhHH--HHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHh
Confidence 99999999999998855432222334 8999999999999999999999999999999999999999999999999999
Q ss_pred HHhh-ccccCcccccccCC-----------------CChhHHHHHHHhcc
Q 038944 302 MFTF-LLETLFSLLICVSR-----------------TPRDIQQAVISVVD 333 (334)
Q Consensus 302 va~~-~~~~~~~~l~~l~~-----------------~~~~l~~i~~~Iv~ 333 (334)
||.. |++...+++.||+. .+|.+.++|++||+
T Consensus 301 V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~ 350 (889)
T KOG4658|consen 301 VCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAE 350 (889)
T ss_pred hhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHHHHHH
Confidence 9999 88888899999992 55669999999986
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=99.95 E-value=2.9e-28 Score=222.56 Aligned_cols=156 Identities=26% Similarity=0.330 Sum_probs=126.8
Q ss_pred chhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCc
Q 038944 161 LDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRL 240 (334)
Q Consensus 161 r~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~ 240 (334)
||.++++|.++|.....+.++|+|+||||+||||||..+|++..++.+|+.++|+.+++.++...++..|+.+++.....
T Consensus 1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~ 80 (287)
T PF00931_consen 1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS 80 (287)
T ss_dssp -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence 68899999999999768899999999999999999999999766889999999999999999999999999999987542
Q ss_pred c-ccchhhHHHHHHHHHHHcCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHHhhccc-cCcccccccC
Q 038944 241 S-EIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMFTFLLE-TLFSLLICVS 318 (334)
Q Consensus 241 ~-~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~~~~~-~~~~~l~~l~ 318 (334)
. ...+.. .+...+++.|.+++|||||||||+...|+.+...++....||+||||||+..++..++. ...+.+.+|+
T Consensus 81 ~~~~~~~~--~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~ 158 (287)
T PF00931_consen 81 ISDPKDIE--ELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLS 158 (287)
T ss_dssp SSCCSSHH--HHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--
T ss_pred cccccccc--cccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 1 233445 89999999999999999999999999999999999887789999999999999988775 5677888877
No 3
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.88 E-value=4.7e-22 Score=212.02 Aligned_cols=171 Identities=16% Similarity=0.197 Sum_probs=132.1
Q ss_pred CCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEc---CCC----------
Q 038944 154 KSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPG---TYP---------- 220 (334)
Q Consensus 154 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~v---s~~---------- 220 (334)
+..++||++..++++..+|..+....++++||||||+||||||+.+|+ ++..+|+..+|+.. +..
T Consensus 182 ~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~ 259 (1153)
T PLN03210 182 DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIYSSANPD 259 (1153)
T ss_pred ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhccccccc
Confidence 345699999999999999977667899999999999999999999999 77788988877642 111
Q ss_pred -CC-HHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecC
Q 038944 221 -YD-ADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLT 298 (334)
Q Consensus 221 -~~-~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr 298 (334)
++ ...++..++.++...... ... . ...+++.|++||+||||||||+...|+.+.......+.||+||||||
T Consensus 260 ~~~~~~~l~~~~l~~il~~~~~----~~~--~-~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTr 332 (1153)
T PLN03210 260 DYNMKLHLQRAFLSEILDKKDI----KIY--H-LGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITK 332 (1153)
T ss_pred ccchhHHHHHHHHHHHhCCCCc----ccC--C-HHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeC
Confidence 11 123455555555433211 111 1 14567889999999999999999999999887666678999999999
Q ss_pred ChHHHhhccccCcccccccCC----------------CChhHHHHHHHhcc
Q 038944 299 EIKMFTFLLETLFSLLICVSR----------------TPRDIQQAVISVVD 333 (334)
Q Consensus 299 ~~~va~~~~~~~~~~l~~l~~----------------~~~~l~~i~~~Iv~ 333 (334)
+.+++..++....|.+..++. .++++.+++++||+
T Consensus 333 d~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~ 383 (1153)
T PLN03210 333 DKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVAL 383 (1153)
T ss_pred cHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence 999999887777787777762 45578999999885
No 4
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=99.03 E-value=3e-09 Score=101.57 Aligned_cols=150 Identities=12% Similarity=0.078 Sum_probs=98.3
Q ss_pred CCCCCeeechhhHHHHHHHHhcC--CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEG--PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIV 230 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~i 230 (334)
..+..++||+++.++|...|... ......+.|+|++|+|||++++.++++.......-..++++.....+...++..|
T Consensus 27 ~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i 106 (394)
T PRK00411 27 YVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEI 106 (394)
T ss_pred CcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHH
Confidence 45667999999999999998542 2334557899999999999999999853222212345667666667888999999
Q ss_pred HHHhCCCCCccccchhhHHHHHHHHHHHcC--CCeEEEEEeCCCCh------hHHHHHHhhCCCCCCCeE--EEEecCCh
Q 038944 231 IKFLMPSSRLSEIMDKNYEMKKIILHEYLM--TKRYLNVIDDVWNI------EVCDIIREILPDNQNRSR--VLITLTEI 300 (334)
Q Consensus 231 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~--~kr~LlVlDdvw~~------~~w~~l~~~l~~~~~gsr--IivTTr~~ 300 (334)
+.++..........+.. .+...+.+.+. ++..+||||+++.. +.+..+...+.. ..+++ +|.++...
T Consensus 107 ~~~l~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~ 183 (394)
T PRK00411 107 ARQLFGHPPPSSGLSFD--ELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDL 183 (394)
T ss_pred HHHhcCCCCCCCCCCHH--HHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCc
Confidence 99997632211122223 66677777764 56689999999763 234444333322 22334 56666665
Q ss_pred HHHhh
Q 038944 301 KMFTF 305 (334)
Q Consensus 301 ~va~~ 305 (334)
++...
T Consensus 184 ~~~~~ 188 (394)
T PRK00411 184 TFLYI 188 (394)
T ss_pred chhhh
Confidence 54443
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=98.91 E-value=2.3e-08 Score=94.51 Aligned_cols=119 Identities=17% Similarity=0.039 Sum_probs=82.4
Q ss_pred CCCCCeeechhhHHHHHHHHhc--CCCCceEEEEEccCCccHHHHHHHHHccCCC-CCce---eeEEEEEcCCCCCHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIE--GPPQLSVVVILDSIGLDKAAFAGEAYNSSYV-KHYF---DCHAWVPGTYPYDADQM 226 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~--~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~-~~~F---~~~~wv~vs~~~~~~~i 226 (334)
..+..++||+++.++|..+|.. .......+.|+|++|+|||++++.++++..- .... -..+|+......+...+
T Consensus 12 ~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~ 91 (365)
T TIGR02928 12 YVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQV 91 (365)
T ss_pred CCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHH
Confidence 3455799999999999999874 2233457899999999999999999974210 0010 23567777777778899
Q ss_pred HHHHHHHhC---CCCCccccchhhHHHHHHHHHHHc--CCCeEEEEEeCCCCh
Q 038944 227 LDIVIKFLM---PSSRLSEIMDKNYEMKKIILHEYL--MTKRYLNVIDDVWNI 274 (334)
Q Consensus 227 l~~il~~~~---~~~~~~~~~~~~~~~l~~~l~~~L--~~kr~LlVlDdvw~~ 274 (334)
+..|++++. ...+. ...+.. ++...+.+.+ .++.++||||+++.-
T Consensus 92 ~~~i~~~l~~~~~~~~~-~~~~~~--~~~~~l~~~l~~~~~~~vlvIDE~d~L 141 (365)
T TIGR02928 92 LVELANQLRGSGEEVPT-TGLSTS--EVFRRLYKELNERGDSLIIVLDEIDYL 141 (365)
T ss_pred HHHHHHHHhhcCCCCCC-CCCCHH--HHHHHHHHHHHhcCCeEEEEECchhhh
Confidence 999999994 22111 112222 5555666665 366889999999765
No 6
>PF05729 NACHT: NACHT domain
Probab=98.84 E-value=2e-08 Score=83.40 Aligned_cols=139 Identities=19% Similarity=0.130 Sum_probs=78.2
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCc----eeeEEEEEcCCCCCHH---HHHHHHHHHhCCCCCccccchhhHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHY----FDCHAWVPGTYPYDAD---QMLDIVIKFLMPSSRLSEIMDKNYEMKK 252 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~---~il~~il~~~~~~~~~~~~~~~~~~~l~ 252 (334)
+++.|+|.+|+||||+++.++..-..... |...+|.+.....+.. .+...|..+...... ...
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~----------~~~ 70 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIA----------PIE 70 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchh----------hhH
Confidence 47899999999999999999874322221 4566677665433222 333333333332211 111
Q ss_pred HHHHHH-cCCCeEEEEEeCCCChh---------HHHHHH-hhCCC-CCCCeEEEEecCChHHHh---hccccCccccccc
Q 038944 253 IILHEY-LMTKRYLNVIDDVWNIE---------VCDIIR-EILPD-NQNRSRVLITLTEIKMFT---FLLETLFSLLICV 317 (334)
Q Consensus 253 ~~l~~~-L~~kr~LlVlDdvw~~~---------~w~~l~-~~l~~-~~~gsrIivTTr~~~va~---~~~~~~~~~l~~l 317 (334)
..+... -+.++++||||++.... .+..+. ..++. ...++++|||||...... .......+.+.++
T Consensus 71 ~~~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~ 150 (166)
T PF05729_consen 71 ELLQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPF 150 (166)
T ss_pred HHHHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCC
Confidence 112222 26789999999986431 133333 33333 356899999999887733 3333344566555
Q ss_pred CCCChhHHHHHHH
Q 038944 318 SRTPRDIQQAVIS 330 (334)
Q Consensus 318 ~~~~~~l~~i~~~ 330 (334)
++ ++.+.+.++
T Consensus 151 ~~--~~~~~~~~~ 161 (166)
T PF05729_consen 151 SE--EDIKQYLRK 161 (166)
T ss_pred CH--HHHHHHHHH
Confidence 53 445554443
No 7
>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=98.81 E-value=1.1e-08 Score=91.05 Aligned_cols=89 Identities=11% Similarity=-0.041 Sum_probs=62.5
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCC--CCHHHHHHHH-----HHHhCCCCCccccchhhHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYP--YDADQMLDIV-----IKFLMPSSRLSEIMDKNYEMKK 252 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~il~~i-----l~~~~~~~~~~~~~~~~~~~l~ 252 (334)
..+.|+|++|+|||||++.+|++.... +|++.+|++++++ +++.++++.+ +.++..... ...... ....
T Consensus 17 qr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~--~~~~~~-~~~~ 92 (249)
T cd01128 17 QRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPE--RHVQVA-EMVL 92 (249)
T ss_pred CEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHH--HHHHHH-HHHH
Confidence 478999999999999999999975544 8999999998876 8999999999 333332110 001000 0222
Q ss_pred HHHHHH-cCCCeEEEEEeCCC
Q 038944 253 IILHEY-LMTKRYLNVIDDVW 272 (334)
Q Consensus 253 ~~l~~~-L~~kr~LlVlDdvw 272 (334)
.....+ -.|++.++++|++-
T Consensus 93 ~~a~~~~~~G~~vll~iDei~ 113 (249)
T cd01128 93 EKAKRLVEHGKDVVILLDSIT 113 (249)
T ss_pred HHHHHHHHCCCCEEEEEECHH
Confidence 333322 35899999999995
No 8
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.71 E-value=4.3e-08 Score=78.43 Aligned_cols=113 Identities=15% Similarity=0.138 Sum_probs=77.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCc-----eeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHY-----FDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKI 253 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~-----F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~ 253 (334)
-+++.|+|.+|+|||++++.+.+. .... -...+|+..+...+...+...|+.+++..... ..+.. .+..
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~--~l~~ 77 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQ--LNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSD--ELRS 77 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHH--HHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HH--HHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHH--hHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHH--HHHH
Confidence 468999999999999999999873 2111 23456999988889999999999999987652 12333 6667
Q ss_pred HHHHHcCC-CeEEEEEeCCCC---hhHHHHHHhhCCCCCCCeEEEEecCC
Q 038944 254 ILHEYLMT-KRYLNVIDDVWN---IEVCDIIREILPDNQNRSRVLITLTE 299 (334)
Q Consensus 254 ~l~~~L~~-kr~LlVlDdvw~---~~~w~~l~~~l~~~~~gsrIivTTr~ 299 (334)
.+.+.+.. +..+||+|++.. ...++.|..... ..+.+||+..+.
T Consensus 78 ~~~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~ 125 (131)
T PF13401_consen 78 LLIDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP 125 (131)
T ss_dssp HHHHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred HHHHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence 77777744 446999999954 345666655543 556777776543
No 9
>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=98.70 E-value=4.7e-07 Score=81.79 Aligned_cols=114 Identities=18% Similarity=0.141 Sum_probs=69.8
Q ss_pred HHHHHHHHhcC-CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcccc
Q 038944 165 MEELLDLLIEG-PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEI 243 (334)
Q Consensus 165 ~~~l~~~L~~~-~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~ 243 (334)
..++...|... ..+..++.|+|++|+|||||++.+++..... .+ ..+|+. +...+..+++..|+..++..... ..
T Consensus 28 ~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~~-~~~~~~~~~l~~i~~~lG~~~~~-~~ 103 (269)
T TIGR03015 28 HKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKLV-NTRVDAEDLLRMVAADFGLETEG-RD 103 (269)
T ss_pred HHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeeee-CCCCCHHHHHHHHHHHcCCCCCC-CC
Confidence 34444444321 2234588999999999999999999853322 22 223433 33567889999999988765432 11
Q ss_pred chhhHHHHHHHHHHH-cCCCeEEEEEeCCCCh--hHHHHHHh
Q 038944 244 MDKNYEMKKIILHEY-LMTKRYLNVIDDVWNI--EVCDIIRE 282 (334)
Q Consensus 244 ~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw~~--~~w~~l~~ 282 (334)
....+..+...+... ..++++++|+||+|.. ..++.+..
T Consensus 104 ~~~~~~~l~~~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~ 145 (269)
T TIGR03015 104 KAALLRELEDFLIEQFAAGKRALLVVDEAQNLTPELLEELRM 145 (269)
T ss_pred HHHHHHHHHHHHHHHHhCCCCeEEEEECcccCCHHHHHHHHH
Confidence 111111333333333 3788899999999874 46666654
No 10
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=98.66 E-value=3.2e-08 Score=92.40 Aligned_cols=90 Identities=16% Similarity=0.016 Sum_probs=60.8
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC--CHHHHHHHHHHHhCCCCCccccchhhH---HHHHHHH
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY--DADQMLDIVIKFLMPSSRLSEIMDKNY---EMKKIIL 255 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~il~~il~~~~~~~~~~~~~~~~~---~~l~~~l 255 (334)
-..|+|++|+|||||++.||++.... ||++++||.+++++ ++.+++++|+..+-..... ....... ......-
T Consensus 171 R~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d-~~~~~~~~~a~~~ie~A 248 (416)
T PRK09376 171 RGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFD-EPAERHVQVAEMVIEKA 248 (416)
T ss_pred eEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCC-CCHHHHHHHHHHHHHHH
Confidence 57899999999999999999975544 89999999999998 8888888887322211111 0000000 0111111
Q ss_pred HHH-cCCCeEEEEEeCCC
Q 038944 256 HEY-LMTKRYLNVIDDVW 272 (334)
Q Consensus 256 ~~~-L~~kr~LlVlDdvw 272 (334)
..+ -.|+..||++|++-
T Consensus 249 e~~~e~G~dVlL~iDsIt 266 (416)
T PRK09376 249 KRLVEHGKDVVILLDSIT 266 (416)
T ss_pred HHHHHcCCCEEEEEEChH
Confidence 122 37899999999994
No 11
>PF13173 AAA_14: AAA domain
Probab=98.64 E-value=6.8e-08 Score=77.39 Aligned_cols=103 Identities=11% Similarity=0.103 Sum_probs=67.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY 258 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~ 258 (334)
-+++.|.|+.|+|||||++.++.+.. .....++++......... ... ++...+.+.
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~-------------------~~~--~~~~~~~~~ 57 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRL-------------------ADP--DLLEYFLEL 57 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHH-------------------hhh--hhHHHHHHh
Confidence 36899999999999999999997432 223445554443221000 000 122333333
Q ss_pred cCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHHhh
Q 038944 259 LMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMFTF 305 (334)
Q Consensus 259 L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~~ 305 (334)
...+..+|+||++-....|......+-+.....+||+|+.+......
T Consensus 58 ~~~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~ 104 (128)
T PF13173_consen 58 IKPGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSK 104 (128)
T ss_pred hccCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhh
Confidence 43467889999998888888888777665566899999998776643
No 12
>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=98.61 E-value=7.6e-07 Score=71.69 Aligned_cols=122 Identities=14% Similarity=0.129 Sum_probs=69.4
Q ss_pred echhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCC
Q 038944 160 GLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSR 239 (334)
Q Consensus 160 Gr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~ 239 (334)
|++...+.+...+... ....+.|+|.+|+|||||++.+++... ..-...+++..+...........+...
T Consensus 2 ~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~~------ 71 (151)
T cd00009 2 GQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFGHF------ 71 (151)
T ss_pred chHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhHHHHHhhhh------
Confidence 6777788888887664 345788999999999999999998432 111234555544433211111100000
Q ss_pred ccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh--h---HHHHHHhhCCCC---CCCeEEEEecCChH
Q 038944 240 LSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI--E---VCDIIREILPDN---QNRSRVLITLTEIK 301 (334)
Q Consensus 240 ~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~--~---~w~~l~~~l~~~---~~gsrIivTTr~~~ 301 (334)
............+..++++||++.. . .+..+...+... ..+..||+||....
T Consensus 72 ----------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~ 131 (151)
T cd00009 72 ----------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL 131 (151)
T ss_pred ----------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence 0011111223456789999999853 2 233333333221 35788888888654
No 13
>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=98.50 E-value=4.5e-07 Score=79.51 Aligned_cols=43 Identities=26% Similarity=0.416 Sum_probs=35.5
Q ss_pred eeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 158 TVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 158 ~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++||+.+.+.|.+++..+. ...+.|+|+.|+|||+|++.+.+.
T Consensus 1 F~gR~~el~~l~~~l~~~~--~~~~~l~G~rg~GKTsLl~~~~~~ 43 (234)
T PF01637_consen 1 FFGREKELEKLKELLESGP--SQHILLYGPRGSGKTSLLKEFINE 43 (234)
T ss_dssp S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHhhc--CcEEEEEcCCcCCHHHHHHHHHHH
Confidence 5899999999999998753 568899999999999999999984
No 14
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=98.48 E-value=5e-07 Score=84.83 Aligned_cols=92 Identities=11% Similarity=-0.067 Sum_probs=62.7
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCC--CCHHHHHHHHHHHhCCCCCccccchhh--HHHHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYP--YDADQMLDIVIKFLMPSSRLSEIMDKN--YEMKKIIL 255 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~il~~il~~~~~~~~~~~~~~~~--~~~l~~~l 255 (334)
..++|+|.+|+|||||++.+++.... +||+..+||.++++ .++.++++.++..+-............ ...+.+..
T Consensus 169 q~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~A 247 (415)
T TIGR00767 169 QRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEKA 247 (415)
T ss_pred CEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHHH
Confidence 47899999999999999999996433 37999999999866 799999999955443222210010100 01222222
Q ss_pred HHH-cCCCeEEEEEeCCC
Q 038944 256 HEY-LMTKRYLNVIDDVW 272 (334)
Q Consensus 256 ~~~-L~~kr~LlVlDdvw 272 (334)
..+ -.|++.+|++|++-
T Consensus 248 e~~~~~GkdVVLlIDEit 265 (415)
T TIGR00767 248 KRLVEHKKDVVILLDSIT 265 (415)
T ss_pred HHHHHcCCCeEEEEEChh
Confidence 222 36899999999995
No 15
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=98.46 E-value=2.5e-07 Score=78.46 Aligned_cols=79 Identities=15% Similarity=0.120 Sum_probs=41.4
Q ss_pred CeeechhhHHHHHHHHhc-CCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCC---CCHHHHHHHHHH
Q 038944 157 DTVGLDDRMEELLDLLIE-GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYP---YDADQMLDIVIK 232 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~~-~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~---~~~~~il~~il~ 232 (334)
.++||+++.+++...|.. .....+++.|+|.+|+|||+|.+.++........+-+..+..-... .....++++++.
T Consensus 1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 80 (185)
T PF13191_consen 1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDSERNPYSPFRSALRQLID 80 (185)
T ss_dssp --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETTTS-HHHHHHHHHHHHS-
T ss_pred CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEeccccchhhHHHHHHHHHHH
Confidence 378999999999999942 3345689999999999999999999874322222323333322211 112555555555
Q ss_pred HhC
Q 038944 233 FLM 235 (334)
Q Consensus 233 ~~~ 235 (334)
++.
T Consensus 81 ~~~ 83 (185)
T PF13191_consen 81 QLL 83 (185)
T ss_dssp ---
T ss_pred Hhh
Confidence 543
No 16
>PTZ00202 tuzin; Provisional
Probab=98.35 E-value=8.1e-06 Score=77.24 Aligned_cols=138 Identities=15% Similarity=0.073 Sum_probs=85.2
Q ss_pred CCCCCeeechhhHHHHHHHHhcCC-CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEGP-PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVI 231 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~~-~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il 231 (334)
.+..+++||+.+...|...|.+.+ ....++.|.|++|+|||||++.+... .. |. +++.-+. +..++++.|+
T Consensus 259 a~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~--l~--~~--qL~vNpr--g~eElLr~LL 330 (550)
T PTZ00202 259 AVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRK--EG--MP--AVFVDVR--GTEDTLRSVV 330 (550)
T ss_pred CCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhc--CC--ce--EEEECCC--CHHHHHHHHH
Confidence 567789999999999999997533 34569999999999999999999973 32 21 3333333 7799999999
Q ss_pred HHhCCCCCccccchhhHHHHHHHHHHHc-C-CCeEEEEEeCCC--Ch-hHHHHHHhhCCCCCCCeEEEEecCChH
Q 038944 232 KFLMPSSRLSEIMDKNYEMKKIILHEYL-M-TKRYLNVIDDVW--NI-EVCDIIREILPDNQNRSRVLITLTEIK 301 (334)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~~l~~~l~~~L-~-~kr~LlVlDdvw--~~-~~w~~l~~~l~~~~~gsrIivTTr~~~ 301 (334)
.+++.... .....-++.+.+.+.+.- . |++-+||+-==. +- -.+++. .+|.+...-|-|++---.+.
T Consensus 331 ~ALGV~p~--~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~-v~la~drr~ch~v~evples 402 (550)
T PTZ00202 331 KALGVPNV--EACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEV-VALACDRRLCHVVIEVPLES 402 (550)
T ss_pred HHcCCCCc--ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHH-HHHHccchhheeeeeehHhh
Confidence 99997432 111111224444444432 3 677777764221 11 123322 23333334455666554444
No 17
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=2.8e-06 Score=80.01 Aligned_cols=114 Identities=13% Similarity=0.067 Sum_probs=82.5
Q ss_pred CCCeeechhhHHHHHHHHhc--CCCCceEEEEEccCCccHHHHHHHHHccCCCCCcee-e-EEEEEcCCCCCHHHHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIE--GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFD-C-HAWVPGTYPYDADQMLDIV 230 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~--~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~-~-~~wv~vs~~~~~~~il~~i 230 (334)
+..+.+|+.+.+++...|.. .+....-+.|+|.+|+|||+.++.|.+ ++.+... . .++|+.-...++.+++..|
T Consensus 16 P~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~--~l~~~~~~~~~~yINc~~~~t~~~i~~~i 93 (366)
T COG1474 16 PEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVME--ELEESSANVEVVYINCLELRTPYQVLSKI 93 (366)
T ss_pred cccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHH--HHHhhhccCceEEEeeeeCCCHHHHHHHH
Confidence 44489999999999988864 122222389999999999999999998 3333321 1 6777777788899999999
Q ss_pred HHHhCCCCCccccchhhHHHHHHHHHHHc--CCCeEEEEEeCCCCh
Q 038944 231 IKFLMPSSRLSEIMDKNYEMKKIILHEYL--MTKRYLNVIDDVWNI 274 (334)
Q Consensus 231 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L--~~kr~LlVlDdvw~~ 274 (334)
+.+++.... ..+... +....+.+.+ .++.+++|||++..-
T Consensus 94 ~~~~~~~p~--~g~~~~--~~~~~l~~~~~~~~~~~IvvLDEid~L 135 (366)
T COG1474 94 LNKLGKVPL--TGDSSL--EILKRLYDNLSKKGKTVIVILDEVDAL 135 (366)
T ss_pred HHHcCCCCC--CCCchH--HHHHHHHHHHHhcCCeEEEEEcchhhh
Confidence 999973222 123333 5666666666 568999999999653
No 18
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=98.31 E-value=8.2e-06 Score=82.88 Aligned_cols=118 Identities=10% Similarity=0.015 Sum_probs=78.9
Q ss_pred CCCCCeeechhhHHHHHHHHhc---CCCCceEEEEEccCCccHHHHHHHHHccCC--C-CCcee--eEEEEEcCCCCCHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIE---GPPQLSVVVILDSIGLDKAAFAGEAYNSSY--V-KHYFD--CHAWVPGTYPYDAD 224 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~---~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~--~-~~~F~--~~~wv~vs~~~~~~ 224 (334)
..+..+.||+++.++|...|.. +...-.++.|+|++|+|||+.++.|.+... . ...++ ..++|....-.+..
T Consensus 752 YVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~ 831 (1164)
T PTZ00112 752 VVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPN 831 (1164)
T ss_pred cCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHH
Confidence 3456789999999999998864 233446889999999999999999986321 0 11122 24566666666788
Q ss_pred HHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcC---CCeEEEEEeCCCC
Q 038944 225 QMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLM---TKRYLNVIDDVWN 273 (334)
Q Consensus 225 ~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~---~kr~LlVlDdvw~ 273 (334)
.++..|.+++....+. ...... .....+...+. +...+||||++..
T Consensus 832 sIYqvI~qqL~g~~P~-~GlsS~--evLerLF~~L~k~~r~v~IIILDEID~ 880 (1164)
T PTZ00112 832 AAYQVLYKQLFNKKPP-NALNSF--KILDRLFNQNKKDNRNVSILIIDEIDY 880 (1164)
T ss_pred HHHHHHHHHHcCCCCC-ccccHH--HHHHHHHhhhhcccccceEEEeehHhh
Confidence 9999999999654432 122222 44445555442 2245899999963
No 19
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=98.29 E-value=1.6e-05 Score=73.65 Aligned_cols=125 Identities=12% Similarity=0.197 Sum_probs=82.3
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc----CCCCCceeeEEEEEc-CCCCCHHHHHHHH
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS----SYVKHYFDCHAWVPG-TYPYDADQMLDIV 230 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~----~~~~~~F~~~~wv~v-s~~~~~~~il~~i 230 (334)
.+++|.+..++.+.+++..+. -....-++|+.|+||||+|+.++.. .....|+|...|... +....+.. .+++
T Consensus 4 ~~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~ 81 (313)
T PRK05564 4 HTIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNI 81 (313)
T ss_pred hhccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHH
Confidence 457899999999999987653 3356788999999999999988862 123456777666542 23333333 2223
Q ss_pred HHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEe-CCCChhHHHHHHhhCCCCCCCeEEEEecCChH
Q 038944 231 IKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVID-DVWNIEVCDIIREILPDNQNRSRVLITLTEIK 301 (334)
Q Consensus 231 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlD-dvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~ 301 (334)
.+.+.... +..++|++||-| |.++...|+.+...+..-..++.+|++|.+.+
T Consensus 82 ~~~~~~~p-------------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~ 134 (313)
T PRK05564 82 IEEVNKKP-------------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLE 134 (313)
T ss_pred HHHHhcCc-------------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence 33222110 113455555544 55677899999999987777899998887654
No 20
>PRK06893 DNA replication initiation factor; Validated
Probab=98.27 E-value=1.3e-06 Score=77.30 Aligned_cols=109 Identities=13% Similarity=0.088 Sum_probs=61.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY 258 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~ 258 (334)
.+.+.++|.+|+|||+|++.+.+. .........|++++... .....+.+.
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~~~~----------------------------~~~~~~~~~ 88 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLSKSQ----------------------------YFSPAVLEN 88 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHHHhh----------------------------hhhHHHHhh
Confidence 357899999999999999999984 22222344566543100 000011112
Q ss_pred cCCCeEEEEEeCCCCh---hHHHH-HHhhCCC-CCCCeEEEEecCC----------hHHHhhccccCcccccccC
Q 038944 259 LMTKRYLNVIDDVWNI---EVCDI-IREILPD-NQNRSRVLITLTE----------IKMFTFLLETLFSLLICVS 318 (334)
Q Consensus 259 L~~kr~LlVlDdvw~~---~~w~~-l~~~l~~-~~~gsrIivTTr~----------~~va~~~~~~~~~~l~~l~ 318 (334)
+. +.-+|+|||+|.. ..|+. +...+.. ...|+.+||+|.+ .+++..+.....+.+..++
T Consensus 89 ~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd 162 (229)
T PRK06893 89 LE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLT 162 (229)
T ss_pred cc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCC
Confidence 22 2348999999963 46653 3333332 1246666555443 4666666655555565555
No 21
>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=98.25 E-value=8.6e-06 Score=81.96 Aligned_cols=141 Identities=15% Similarity=0.067 Sum_probs=88.1
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCcee---eEEEEEcCC---CCCHHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFD---CHAWVPGTY---PYDADQMLD 228 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~---~~~wv~vs~---~~~~~~il~ 228 (334)
-++++|.+..+..+...+.... ...+.|+|++|+||||||+.+++.......+. ...|+.+.. ..+...+..
T Consensus 153 ~~~iiGqs~~~~~l~~~ia~~~--~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~ 230 (615)
T TIGR02903 153 FSEIVGQERAIKALLAKVASPF--PQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTN 230 (615)
T ss_pred HHhceeCcHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhH
Confidence 3468999999999888775433 45799999999999999999987543333331 234555542 123333222
Q ss_pred HH---------------HHHhCCCCC---------c-c------ccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh--h
Q 038944 229 IV---------------IKFLMPSSR---------L-S------EIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI--E 275 (334)
Q Consensus 229 ~i---------------l~~~~~~~~---------~-~------~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~--~ 275 (334)
.+ +...+.... . . +..+ . ..+..|.+.+.+++++++.|+.|.. .
T Consensus 231 ~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld-~--~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~ 307 (615)
T TIGR02903 231 PLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELD-P--LLQNKLLKVLEDKRVEFSSSYYDPDDPN 307 (615)
T ss_pred HhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCC-H--HHHHHHHHHHhhCeEEeecceeccCCcc
Confidence 11 111111000 0 0 1111 2 4678899999999999998877764 4
Q ss_pred HHHHHHhhCCCCCCCeEEEE--ecCCh
Q 038944 276 VCDIIREILPDNQNRSRVLI--TLTEI 300 (334)
Q Consensus 276 ~w~~l~~~l~~~~~gsrIiv--TTr~~ 300 (334)
.|+.+...+....+...|++ ||++.
T Consensus 308 ~~~~ik~~~~~~~~~~~VLI~aTt~~~ 334 (615)
T TIGR02903 308 VPKYIKKLFEEGAPADFVLIGATTRDP 334 (615)
T ss_pred cchhhhhhcccCccceEEEEEeccccc
Confidence 78888887777665555555 56644
No 22
>PRK13342 recombination factor protein RarA; Reviewed
Probab=98.19 E-value=9.5e-06 Score=78.07 Aligned_cols=112 Identities=17% Similarity=0.150 Sum_probs=64.7
Q ss_pred CCeeechhhHHH---HHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHH
Q 038944 156 RDTVGLDDRMEE---LLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIK 232 (334)
Q Consensus 156 ~~~vGr~~~~~~---l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~ 232 (334)
.+++|.+..+.. +..++..+. ...+.++|++|+||||||+.+.+. ....| +.++....-..-++
T Consensus 12 ~d~vGq~~~v~~~~~L~~~i~~~~--~~~ilL~GppGtGKTtLA~~ia~~--~~~~~-----~~l~a~~~~~~~ir---- 78 (413)
T PRK13342 12 DEVVGQEHLLGPGKPLRRMIEAGR--LSSMILWGPPGTGKTTLARIIAGA--TDAPF-----EALSAVTSGVKDLR---- 78 (413)
T ss_pred HHhcCcHHHhCcchHHHHHHHcCC--CceEEEECCCCCCHHHHHHHHHHH--hCCCE-----EEEecccccHHHHH----
Confidence 357787766554 666665543 456788999999999999999983 33333 22222111111111
Q ss_pred HhCCCCCccccchhhHHHHHHHHHHH-cCCCeEEEEEeCCCCh--hHHHHHHhhCCCCCCCeEEEE--ecCCh
Q 038944 233 FLMPSSRLSEIMDKNYEMKKIILHEY-LMTKRYLNVIDDVWNI--EVCDIIREILPDNQNRSRVLI--TLTEI 300 (334)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw~~--~~w~~l~~~l~~~~~gsrIiv--TTr~~ 300 (334)
.+....... ..+++.+|+||+++.- ...+.+...+.. |+.+++ ||.+.
T Consensus 79 -----------------~ii~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~ 131 (413)
T PRK13342 79 -----------------EVIEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENP 131 (413)
T ss_pred -----------------HHHHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCCh
Confidence 222222211 2467889999999854 456666665533 444444 34443
No 23
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=98.19 E-value=3.5e-05 Score=71.20 Aligned_cols=115 Identities=11% Similarity=0.185 Sum_probs=82.3
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCc-eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQL-SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF 233 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~-~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~ 233 (334)
++.+.+|+.+...+..++..++... ..+-|+|..|.|||.+.+.+++.... ..+|+++-..|+..-++..|+.+
T Consensus 5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~IL~~ 79 (438)
T KOG2543|consen 5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNK 79 (438)
T ss_pred ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHH
Confidence 4567899999999999998876533 45589999999999999999995522 35899999999999999999999
Q ss_pred hCCCCCccccchh---hHHHHHHHHHHH--c--CCCeEEEEEeCCCCh
Q 038944 234 LMPSSRLSEIMDK---NYEMKKIILHEY--L--MTKRYLNVIDDVWNI 274 (334)
Q Consensus 234 ~~~~~~~~~~~~~---~~~~l~~~l~~~--L--~~kr~LlVlDdvw~~ 274 (334)
.+.....+..... .+......+..+ . .++.++||||++..-
T Consensus 80 ~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~l 127 (438)
T KOG2543|consen 80 SQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADAL 127 (438)
T ss_pred hccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhh
Confidence 9632221111111 111333333331 1 256899999999654
No 24
>PRK04841 transcriptional regulator MalT; Provisional
Probab=98.17 E-value=1.7e-05 Score=83.73 Aligned_cols=126 Identities=15% Similarity=0.150 Sum_probs=78.7
Q ss_pred HHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC-CCCHHHHHHHHHHHhCCCCCcc---
Q 038944 166 EELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY-PYDADQMLDIVIKFLMPSSRLS--- 241 (334)
Q Consensus 166 ~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~il~~il~~~~~~~~~~--- 241 (334)
.+|.+.|... ...+++.|.|++|.||||++...... +...+|+++.. +-++..++..++..+.......
T Consensus 20 ~rl~~~l~~~-~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~ 92 (903)
T PRK04841 20 ERLLAKLSGA-NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQQATNGHCSK 92 (903)
T ss_pred hHHHHHHhcc-cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHHHhcCcccch
Confidence 3566666432 45789999999999999999988752 23689999964 4567777788877774221110
Q ss_pred --------ccchhhHHHHHHHHHHHcC--CCeEEEEEeCCCCh--hH-HHHHHhhCCCCCCCeEEEEecCCh
Q 038944 242 --------EIMDKNYEMKKIILHEYLM--TKRYLNVIDDVWNI--EV-CDIIREILPDNQNRSRVLITLTEI 300 (334)
Q Consensus 242 --------~~~~~~~~~l~~~l~~~L~--~kr~LlVlDdvw~~--~~-w~~l~~~l~~~~~gsrIivTTr~~ 300 (334)
...+.. .+...+...+. +.+++|||||+-.. .. .+.+...++....+.++|||||..
T Consensus 93 ~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~ 162 (903)
T PRK04841 93 SEALAQKRQYASLS--SLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNL 162 (903)
T ss_pred hhhhhccCCcCCHH--HHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCC
Confidence 001111 33333333332 67899999999542 22 233433333334567788999973
No 25
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=98.17 E-value=9.5e-06 Score=71.24 Aligned_cols=40 Identities=13% Similarity=0.086 Sum_probs=30.1
Q ss_pred chhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 161 LDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 161 r~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
....++.+..++.. .....+.++|.+|+|||+||+.+++.
T Consensus 22 ~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~ 61 (226)
T TIGR03420 22 NAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAA 61 (226)
T ss_pred cHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 34456666666543 23568899999999999999999984
No 26
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=98.14 E-value=2.9e-05 Score=74.28 Aligned_cols=119 Identities=13% Similarity=0.062 Sum_probs=77.7
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHh
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFL 234 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~ 234 (334)
..++++.+...+.+...|... +.+.++|++|+|||++|+.+.+......+|....||++++.++..+++....
T Consensus 174 l~d~~i~e~~le~l~~~L~~~----~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~r--- 246 (459)
T PRK11331 174 LNDLFIPETTIETILKRLTIK----KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYR--- 246 (459)
T ss_pred hhcccCCHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccC---
Confidence 456888899999999999863 4678899999999999999998654456788899999999988776654221
Q ss_pred CCCCCccccchhhHHHHHHHHHHHc--CCCeEEEEEeCCCChh---HHHHHHhhC
Q 038944 235 MPSSRLSEIMDKNYEMKKIILHEYL--MTKRYLNVIDDVWNIE---VCDIIREIL 284 (334)
Q Consensus 235 ~~~~~~~~~~~~~~~~l~~~l~~~L--~~kr~LlVlDdvw~~~---~w~~l~~~l 284 (334)
..... ...... -....+...- .++.|++|+|++...+ .+..+...+
T Consensus 247 -P~~vg-y~~~~G--~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~lL 297 (459)
T PRK11331 247 -PNGVG-FRRKDG--IFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLM 297 (459)
T ss_pred -CCCCC-eEecCc--hHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhhhc
Confidence 11000 011111 2222222222 2478999999996542 344444433
No 27
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=98.09 E-value=2.4e-05 Score=72.76 Aligned_cols=130 Identities=15% Similarity=0.146 Sum_probs=75.0
Q ss_pred CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIK 232 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~ 232 (334)
+...+++|-+..+.++++ . .++.-.-.||++|+||||||+.+.. .....|.. +|-.++-.+=++
T Consensus 27 vGQ~HLlg~~~~lrr~v~---~--~~l~SmIl~GPPG~GKTTlA~liA~--~~~~~f~~-----~sAv~~gvkdlr---- 90 (436)
T COG2256 27 VGQEHLLGEGKPLRRAVE---A--GHLHSMILWGPPGTGKTTLARLIAG--TTNAAFEA-----LSAVTSGVKDLR---- 90 (436)
T ss_pred cChHhhhCCCchHHHHHh---c--CCCceeEEECCCCCCHHHHHHHHHH--hhCCceEE-----eccccccHHHHH----
Confidence 445556666655555443 3 3466777899999999999999998 55555533 332222122122
Q ss_pred HhCCCCCccccchhhHHHHHHHH-HHHcCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEE--ecCChHH---Hh
Q 038944 233 FLMPSSRLSEIMDKNYEMKKIIL-HEYLMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLI--TLTEIKM---FT 304 (334)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~l~~~l-~~~L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIiv--TTr~~~v---a~ 304 (334)
...+.- +....|+|.+|.+|.|-. ..+-+. .||.-.+|.-|+| ||-|..- ..
T Consensus 91 -----------------~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~---lLp~vE~G~iilIGATTENPsF~ln~A 150 (436)
T COG2256 91 -----------------EIIEEARKNRLLGRRTILFLDEIHRFNKAQQDA---LLPHVENGTIILIGATTENPSFELNPA 150 (436)
T ss_pred -----------------HHHHHHHHHHhcCCceEEEEehhhhcChhhhhh---hhhhhcCCeEEEEeccCCCCCeeecHH
Confidence 222222 222358999999999953 233333 3454566887777 6766552 22
Q ss_pred hccccCcccccccC
Q 038944 305 FLLETLFSLLICVS 318 (334)
Q Consensus 305 ~~~~~~~~~l~~l~ 318 (334)
..+....+.|.+|+
T Consensus 151 LlSR~~vf~lk~L~ 164 (436)
T COG2256 151 LLSRARVFELKPLS 164 (436)
T ss_pred HhhhhheeeeecCC
Confidence 23334445566665
No 28
>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=98.08 E-value=7.3e-06 Score=75.50 Aligned_cols=135 Identities=16% Similarity=0.088 Sum_probs=73.7
Q ss_pred CCeeechhhHHHHHHHHhcC---CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHH
Q 038944 156 RDTVGLDDRMEELLDLLIEG---PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIK 232 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~ 232 (334)
.+++|++..++.|..++... ......+.++|++|+|||+||+.+.+. ....|. .+..+..... ..+...+.
T Consensus 4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~--~~~~~~---~~~~~~~~~~-~~l~~~l~ 77 (305)
T TIGR00635 4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANE--MGVNLK---ITSGPALEKP-GDLAAILT 77 (305)
T ss_pred HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH--hCCCEE---EeccchhcCc-hhHHHHHH
Confidence 35899999999998888642 234556789999999999999999984 332332 1121111111 22223333
Q ss_pred HhCCCCCc-cccch--hhHHHHHHHHHHHcCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHHh
Q 038944 233 FLMPSSRL-SEIMD--KNYEMKKIILHEYLMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMFT 304 (334)
Q Consensus 233 ~~~~~~~~-~~~~~--~~~~~l~~~l~~~L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~ 304 (334)
.+....-- .+..+ .. ...+.+...+.+.+..+|+++.++...|.. .+| +.+-|..||+...+..
T Consensus 78 ~~~~~~vl~iDEi~~l~~--~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~ 144 (305)
T TIGR00635 78 NLEEGDVLFIDEIHRLSP--AVEELLYPAMEDFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTS 144 (305)
T ss_pred hcccCCEEEEehHhhhCH--HHHHHhhHHHhhhheeeeeccCccccceee---cCC---CeEEEEecCCccccCH
Confidence 33321100 00000 01 233445666666667777777665544321 222 2455666777654443
No 29
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=98.07 E-value=3.9e-05 Score=78.28 Aligned_cols=50 Identities=18% Similarity=0.265 Sum_probs=35.6
Q ss_pred CCeeechhhHH---HHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCce
Q 038944 156 RDTVGLDDRME---ELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF 209 (334)
Q Consensus 156 ~~~vGr~~~~~---~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F 209 (334)
.+++|.+..+. .+...+..+ ...-+.++|++|+||||||+.+++ ....+|
T Consensus 28 dd~vGQe~ii~~~~~L~~~i~~~--~~~slLL~GPpGtGKTTLA~aIA~--~~~~~f 80 (725)
T PRK13341 28 EEFVGQDHILGEGRLLRRAIKAD--RVGSLILYGPPGVGKTTLARIIAN--HTRAHF 80 (725)
T ss_pred HHhcCcHHHhhhhHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHH--HhcCcc
Confidence 35788877664 455555443 355678999999999999999998 344444
No 30
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=98.04 E-value=2.9e-05 Score=72.46 Aligned_cols=45 Identities=20% Similarity=0.213 Sum_probs=37.5
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|++..++.+..++..+. .+.+.++|++|+||||+|+.+.+.
T Consensus 15 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~GtGKT~la~~~~~~ 59 (337)
T PRK12402 15 EDILGQDEVVERLSRAVDSPN--LPHLLVQGPPGSGKTAAVRALARE 59 (337)
T ss_pred HHhcCCHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence 467899999999988887653 345789999999999999998873
No 31
>CHL00181 cbbX CbbX; Provisional
Probab=98.04 E-value=0.00011 Score=67.03 Aligned_cols=128 Identities=16% Similarity=0.166 Sum_probs=66.5
Q ss_pred CeeechhhHHHHHHHH---hcC----------CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCH
Q 038944 157 DTVGLDDRMEELLDLL---IEG----------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDA 223 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L---~~~----------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~ 223 (334)
+++|.+..+++|.++. .-. ...-..+.++|.+|+||||+|+.+.+.......-....|+.++.
T Consensus 24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~---- 99 (287)
T CHL00181 24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR---- 99 (287)
T ss_pred hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----
Confidence 4678777666554442 210 11233578899999999999999966211001111122454441
Q ss_pred HHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC-----------hhHHHHHHhhCCCCCCCeE
Q 038944 224 DQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN-----------IEVCDIIREILPDNQNRSR 292 (334)
Q Consensus 224 ~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~-----------~~~w~~l~~~l~~~~~gsr 292 (334)
..+ .....+... . .....+.+. .+ -+|+||++.. .+.-+.|...+.+...+.+
T Consensus 100 ~~l----~~~~~g~~~-------~--~~~~~l~~a-~g--gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~ 163 (287)
T CHL00181 100 DDL----VGQYIGHTA-------P--KTKEVLKKA-MG--GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLV 163 (287)
T ss_pred HHH----HHHHhccch-------H--HHHHHHHHc-cC--CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEE
Confidence 222 222222111 1 222222222 23 4889999853 2344555555555555677
Q ss_pred EEEecCChHHHh
Q 038944 293 VLITLTEIKMFT 304 (334)
Q Consensus 293 IivTTr~~~va~ 304 (334)
||+++....+..
T Consensus 164 vI~ag~~~~~~~ 175 (287)
T CHL00181 164 VIFAGYKDRMDK 175 (287)
T ss_pred EEEeCCcHHHHH
Confidence 888887665543
No 32
>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=98.01 E-value=9.9e-05 Score=67.38 Aligned_cols=125 Identities=15% Similarity=0.148 Sum_probs=63.8
Q ss_pred eeechhhHHHHHHHHh---cC----------CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHH
Q 038944 158 TVGLDDRMEELLDLLI---EG----------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDAD 224 (334)
Q Consensus 158 ~vGr~~~~~~l~~~L~---~~----------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~ 224 (334)
++|.++.+++|.++.. .. ..+..-+.++|.+|+||||+|+.+..............|+.++. .
T Consensus 24 l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~ 99 (284)
T TIGR02880 24 LIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----D 99 (284)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----H
Confidence 6777766666544322 11 11223578899999999999976654211011111123444442 1
Q ss_pred HHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC-----------hhHHHHHHhhCCCCCCCeEE
Q 038944 225 QMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN-----------IEVCDIIREILPDNQNRSRV 293 (334)
Q Consensus 225 ~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~-----------~~~w~~l~~~l~~~~~gsrI 293 (334)
++ +..+.+... . .....+.+ .. .-+|+||++.. .+.++.+...+.....+-+|
T Consensus 100 ~l----~~~~~g~~~-------~--~~~~~~~~-a~--~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~v 163 (284)
T TIGR02880 100 DL----VGQYIGHTA-------P--KTKEILKR-AM--GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVV 163 (284)
T ss_pred HH----hHhhcccch-------H--HHHHHHHH-cc--CcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEE
Confidence 22 222222111 1 22222222 22 25889999852 23456666666555556677
Q ss_pred EEecCChHH
Q 038944 294 LITLTEIKM 302 (334)
Q Consensus 294 ivTTr~~~v 302 (334)
|.+|.....
T Consensus 164 I~a~~~~~~ 172 (284)
T TIGR02880 164 ILAGYKDRM 172 (284)
T ss_pred EEeCCcHHH
Confidence 777765543
No 33
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=97.98 E-value=3.1e-05 Score=71.09 Aligned_cols=118 Identities=15% Similarity=0.185 Sum_probs=68.8
Q ss_pred CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIK 232 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~ 232 (334)
+....++|.+.-+. +++..+ .++-+-.||++|+||||||+.+.+..+-.. ..||..|-.-.-..=.+.|++
T Consensus 141 vGQ~hlv~q~gllr---s~ieq~--~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife 211 (554)
T KOG2028|consen 141 VGQSHLVGQDGLLR---SLIEQN--RIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFE 211 (554)
T ss_pred cchhhhcCcchHHH---HHHHcC--CCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHH
Confidence 44445555533332 333333 467788999999999999999998654444 345555544322233344443
Q ss_pred HhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh--hHHHHHHhhCCCCCCCeEEEE--ecCChH
Q 038944 233 FLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI--EVCDIIREILPDNQNRSRVLI--TLTEIK 301 (334)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~--~~w~~l~~~l~~~~~gsrIiv--TTr~~~ 301 (334)
+.... ..+.++|-+|.+|.|-.- .+- -..||.-.+|+-++| ||-+..
T Consensus 212 ~aq~~-------------------~~l~krkTilFiDEiHRFNksQQ---D~fLP~VE~G~I~lIGATTENPS 262 (554)
T KOG2028|consen 212 QAQNE-------------------KSLTKRKTILFIDEIHRFNKSQQ---DTFLPHVENGDITLIGATTENPS 262 (554)
T ss_pred HHHHH-------------------HhhhcceeEEEeHHhhhhhhhhh---hcccceeccCceEEEecccCCCc
Confidence 32110 124567889999999432 121 135676677886666 676655
No 34
>PRK08116 hypothetical protein; Validated
Probab=97.97 E-value=2.1e-05 Score=71.20 Aligned_cols=102 Identities=17% Similarity=0.133 Sum_probs=57.7
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYL 259 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L 259 (334)
.-+.++|..|+|||+||..+++. +..+-...++++ ..+++..+......... .+.. . +.+.+
T Consensus 115 ~gl~l~G~~GtGKThLa~aia~~--l~~~~~~v~~~~------~~~ll~~i~~~~~~~~~----~~~~--~----~~~~l 176 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAACIANE--LIEKGVPVIFVN------FPQLLNRIKSTYKSSGK----EDEN--E----IIRSL 176 (268)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEE------HHHHHHHHHHHHhcccc----ccHH--H----HHHHh
Confidence 35889999999999999999994 322223345554 45566666655433211 1111 2 22333
Q ss_pred CCCeEEEEEeCCC--ChhHHHH--HHhhCCC-CCCCeEEEEecCCh
Q 038944 260 MTKRYLNVIDDVW--NIEVCDI--IREILPD-NQNRSRVLITLTEI 300 (334)
Q Consensus 260 ~~kr~LlVlDdvw--~~~~w~~--l~~~l~~-~~~gsrIivTTr~~ 300 (334)
.+-. ||||||+- ....|.. +...+.. -.+|..+|+||...
T Consensus 177 ~~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~ 221 (268)
T PRK08116 177 VNAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS 221 (268)
T ss_pred cCCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 3333 89999993 2234432 2222221 12456688888754
No 35
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=97.95 E-value=2.2e-05 Score=74.35 Aligned_cols=55 Identities=16% Similarity=0.178 Sum_probs=41.5
Q ss_pred CCCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEccCCccHHHHHHHHHccCCCCCce
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEG-----------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF 209 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F 209 (334)
....++.|+++.+++|.+.+... -...+-+.++|++|+|||+||+.+++ ....+|
T Consensus 119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~--~l~~~~ 184 (364)
T TIGR01242 119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH--ETNATF 184 (364)
T ss_pred CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH--hCCCCE
Confidence 34456899999999998877421 02345688999999999999999998 444444
No 36
>PRK04195 replication factor C large subunit; Provisional
Probab=97.95 E-value=4.9e-05 Score=74.64 Aligned_cols=117 Identities=16% Similarity=0.209 Sum_probs=70.2
Q ss_pred CCeeechhhHHHHHHHHhcC--CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH
Q 038944 156 RDTVGLDDRMEELLDLLIEG--PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF 233 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~--~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~ 233 (334)
.+++|.+..++.+.+|+..- ....+.+.|+|++|+||||+|+.+.++. . |+. +-++.|...+ ...+..++..
T Consensus 14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el--~--~~~-ielnasd~r~-~~~i~~~i~~ 87 (482)
T PRK04195 14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY--G--WEV-IELNASDQRT-ADVIERVAGE 87 (482)
T ss_pred HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc--C--CCE-EEEccccccc-HHHHHHHHHH
Confidence 45899999999999998752 2236789999999999999999999843 2 222 2233333222 2233333322
Q ss_pred hCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh------hHHHHHHhhCCCCCCCeEEEEecC
Q 038944 234 LMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI------EVCDIIREILPDNQNRSRVLITLT 298 (334)
Q Consensus 234 ~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~------~~w~~l~~~l~~~~~gsrIivTTr 298 (334)
..... . ....++-+||||++... ..+..+...+.. .+..||+|+.
T Consensus 88 ~~~~~-----------s-------l~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n 138 (482)
T PRK04195 88 AATSG-----------S-------LFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTAN 138 (482)
T ss_pred hhccC-----------c-------ccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEecc
Confidence 21110 0 01136779999999753 235566555542 2344666654
No 37
>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=97.90 E-value=0.00011 Score=66.17 Aligned_cols=45 Identities=18% Similarity=0.180 Sum_probs=32.1
Q ss_pred CeeechhhHHHHHHH---Hhc----------CCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 157 DTVGLDDRMEELLDL---LIE----------GPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~---L~~----------~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.++|.++.++.|.+. +.. ..+...-+.++|++|+||||+|+.+.+
T Consensus 7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~ 64 (261)
T TIGR02881 7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGK 64 (261)
T ss_pred HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHH
Confidence 478887777666443 311 123456678899999999999999976
No 38
>PRK08118 topology modulation protein; Reviewed
Probab=97.89 E-value=6.4e-06 Score=69.10 Aligned_cols=35 Identities=20% Similarity=0.367 Sum_probs=28.2
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCC-CceeeEEE
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVK-HYFDCHAW 214 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~-~~F~~~~w 214 (334)
+-|.|+|++|+||||||+.+++..... -+|+...|
T Consensus 2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~ 37 (167)
T PRK08118 2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW 37 (167)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence 358999999999999999999965544 45777774
No 39
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=97.89 E-value=0.0001 Score=68.17 Aligned_cols=47 Identities=15% Similarity=0.126 Sum_probs=39.4
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|.+...+.+..++..+. -..++.++|++|+||||+|+.+++.
T Consensus 20 ~~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~ 66 (316)
T PHA02544 20 IDECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNE 66 (316)
T ss_pred HHHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHH
Confidence 3568999999999999987643 3467788999999999999999883
No 40
>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=97.86 E-value=8.3e-05 Score=58.99 Aligned_cols=88 Identities=8% Similarity=0.025 Sum_probs=45.7
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYL 259 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L 259 (334)
..+.|+|.+|+||||+++.+... .........++..+........... ......... ..... .....+.+..
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~---~~~~~--~~~~~~~~~~ 74 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARE--LGPPGGGVIYIDGEDILEEVLDQLL-LIIVGGKKA---SGSGE--LRLRLALALA 74 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhc--cCCCCCCEEEECCEEccccCHHHHH-hhhhhccCC---CCCHH--HHHHHHHHHH
Confidence 57899999999999999999884 3222222344444333221111111 001111111 11111 2333444444
Q ss_pred CCC-eEEEEEeCCCChh
Q 038944 260 MTK-RYLNVIDDVWNIE 275 (334)
Q Consensus 260 ~~k-r~LlVlDdvw~~~ 275 (334)
... ..+|++|++....
T Consensus 75 ~~~~~~viiiDei~~~~ 91 (148)
T smart00382 75 RKLKPDVLILDEITSLL 91 (148)
T ss_pred HhcCCCEEEEECCcccC
Confidence 433 3899999998763
No 41
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.86 E-value=0.00026 Score=67.02 Aligned_cols=136 Identities=13% Similarity=0.077 Sum_probs=72.0
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
.+++|.+.-++.+.+.+..+. -...+-++|+.|+||||+|+.+.+.-.-..... +.++.....-+.+.....
T Consensus 16 ~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~-------~~pc~~c~~c~~~~~~~~ 87 (363)
T PRK14961 16 RDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT-------SNPCRKCIICKEIEKGLC 87 (363)
T ss_pred hhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCCCHHHHHHhcCCC
Confidence 468999999999988887653 235678999999999999999987321110000 011110011111111100
Q ss_pred CCCC---ccccchhh-HHHHHHHHHHH-cCCCeEEEEEeCCCCh--hHHHHHHhhCCCCCCCeEEEEecCC
Q 038944 236 PSSR---LSEIMDKN-YEMKKIILHEY-LMTKRYLNVIDDVWNI--EVCDIIREILPDNQNRSRVLITLTE 299 (334)
Q Consensus 236 ~~~~---~~~~~~~~-~~~l~~~l~~~-L~~kr~LlVlDdvw~~--~~w~~l~~~l~~~~~gsrIivTTr~ 299 (334)
.... .......+ ..++...+... ..+++-++|+|++..- ..++.+...+.......++|++|.+
T Consensus 88 ~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~ 158 (363)
T PRK14961 88 LDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTD 158 (363)
T ss_pred CceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCC
Confidence 0000 00000001 01222222111 1345569999999754 4688888777655556777776654
No 42
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=97.85 E-value=0.00016 Score=73.06 Aligned_cols=137 Identities=9% Similarity=0.022 Sum_probs=72.9
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
.+++|.+..++.|.+++..+. -...+-++|..|+||||+|+.+.+...-...+ .+..|.....-+.|...-.
T Consensus 16 dEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~-------~~~PCG~C~sCr~I~~G~h 87 (830)
T PRK07003 16 ASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGV-------TSQPCGVCRACREIDEGRF 87 (830)
T ss_pred HHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCC-------CCCCCcccHHHHHHhcCCC
Confidence 468999999999999987654 23355699999999999999877632111111 0111221122222211100
Q ss_pred CCCCcc---ccchhh-HHHHHHHHHHH-cCCCeEEEEEeCCCCh--hHHHHHHhhCCCCCCCeEEEEecCCh
Q 038944 236 PSSRLS---EIMDKN-YEMKKIILHEY-LMTKRYLNVIDDVWNI--EVCDIIREILPDNQNRSRVLITLTEI 300 (334)
Q Consensus 236 ~~~~~~---~~~~~~-~~~l~~~l~~~-L~~kr~LlVlDdvw~~--~~w~~l~~~l~~~~~gsrIivTTr~~ 300 (334)
...... .....+ ...+.+.+... ..++.-++|||++... ..|+.|+..+-.-....++|+||.+.
T Consensus 88 ~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~ 159 (830)
T PRK07003 88 VDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDP 159 (830)
T ss_pred ceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECCh
Confidence 000000 001111 00222222211 2345568889999753 57888888775544567766666553
No 43
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=97.82 E-value=8.1e-05 Score=69.42 Aligned_cols=48 Identities=21% Similarity=0.238 Sum_probs=39.5
Q ss_pred CCCeeechhhHHHHHHHHhc---CCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 155 SRDTVGLDDRMEELLDLLIE---GPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~---~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|++..++.+..++.. .......+.++|++|+||||||+.+.+.
T Consensus 24 ~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~ 74 (328)
T PRK00080 24 LDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANE 74 (328)
T ss_pred HHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHH
Confidence 45689999999998887764 2344667889999999999999999984
No 44
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.81 E-value=3.5e-05 Score=75.67 Aligned_cols=158 Identities=13% Similarity=0.015 Sum_probs=81.0
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
.+++|.+..++.|.+++..+. -...+-++|++|+||||+|+.+.+...-...+...+|.|.+-.. +.......+..+.
T Consensus 14 ~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~-i~~~~h~dv~el~ 91 (504)
T PRK14963 14 DEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA-VRRGAHPDVLEID 91 (504)
T ss_pred HHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH-HhcCCCCceEEec
Confidence 458999988888888887654 23466899999999999999998743222222223333321100 0000000000001
Q ss_pred CCCCccccchhhHHHHHHHHHHH-cCCCeEEEEEeCCCCh--hHHHHHHhhCCCCCCCeEEEEec-CChHHHhhccc-cC
Q 038944 236 PSSRLSEIMDKNYEMKKIILHEY-LMTKRYLNVIDDVWNI--EVCDIIREILPDNQNRSRVLITL-TEIKMFTFLLE-TL 310 (334)
Q Consensus 236 ~~~~~~~~~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw~~--~~w~~l~~~l~~~~~gsrIivTT-r~~~va~~~~~-~~ 310 (334)
..... ...+.. ++...+... +.+++-++|||+++.. ..++.+...+......+.+|++| ....+...+.. ..
T Consensus 92 ~~~~~-~vd~iR--~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~ 168 (504)
T PRK14963 92 AASNN-SVEDVR--DLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQ 168 (504)
T ss_pred ccccC-CHHHHH--HHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceE
Confidence 00000 011111 222222221 2356679999999754 57888888876544455555554 44444333332 22
Q ss_pred cccccccC
Q 038944 311 FSLLICVS 318 (334)
Q Consensus 311 ~~~l~~l~ 318 (334)
.+.+..++
T Consensus 169 ~~~f~~ls 176 (504)
T PRK14963 169 HFRFRRLT 176 (504)
T ss_pred EEEecCCC
Confidence 34444444
No 45
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=97.76 E-value=0.00034 Score=64.60 Aligned_cols=45 Identities=18% Similarity=0.206 Sum_probs=37.9
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|++..++.+..++..+. .+.+.++|.+|+||||+++.+.+.
T Consensus 17 ~~~~g~~~~~~~l~~~i~~~~--~~~~ll~G~~G~GKt~~~~~l~~~ 61 (319)
T PRK00440 17 DEIVGQEEIVERLKSYVKEKN--MPHLLFAGPPGTGKTTAALALARE 61 (319)
T ss_pred HHhcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHH
Confidence 458899999999999987643 345799999999999999999874
No 46
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.75 E-value=0.00026 Score=69.98 Aligned_cols=125 Identities=10% Similarity=0.055 Sum_probs=72.9
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCC-------------------ceeeEEEEE
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKH-------------------YFDCHAWVP 216 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~-------------------~F~~~~wv~ 216 (334)
.+++|.+..+..|...+..+. -...+-++|+.|+||||+|+.+.+.-.-.. .|...+++.
T Consensus 16 ~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieid 94 (546)
T PRK14957 16 AEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEID 94 (546)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEee
Confidence 468899999999998887643 234567899999999999999976211000 011111111
Q ss_pred cCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH-cCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEE
Q 038944 217 GTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY-LMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRV 293 (334)
Q Consensus 217 vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrI 293 (334)
......+ .+.. .+...+... ..+++-++++|++.. ...++.+...+-.....+.+
T Consensus 95 aas~~gv--------------------d~ir--~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~f 152 (546)
T PRK14957 95 AASRTGV--------------------EETK--EILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKF 152 (546)
T ss_pred cccccCH--------------------HHHH--HHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceE
Confidence 1111111 1111 333333322 246677999999863 46788888887665455665
Q ss_pred EE-ecCChHHH
Q 038944 294 LI-TLTEIKMF 303 (334)
Q Consensus 294 iv-TTr~~~va 303 (334)
|+ ||....+.
T Consensus 153 IL~Ttd~~kil 163 (546)
T PRK14957 153 ILATTDYHKIP 163 (546)
T ss_pred EEEECChhhhh
Confidence 54 55444444
No 47
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=97.72 E-value=0.00078 Score=66.13 Aligned_cols=156 Identities=11% Similarity=-0.018 Sum_probs=81.8
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceee-EEEEEcCCCCCHHHHHHHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDC-HAWVPGTYPYDADQMLDIVIKF 233 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~il~~il~~ 233 (334)
-.+++|.+.-+..|...+..+. -..-+-++|+.|+||||+|+.+.+.-.-...+.. ..+ ..+....--..|...
T Consensus 20 f~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~----~~C~~C~~C~~i~~~ 94 (507)
T PRK06645 20 FAELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTI----KTCEQCTNCISFNNH 94 (507)
T ss_pred HHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCc----CCCCCChHHHHHhcC
Confidence 3467899988888887776543 2356788999999999999999873211110000 000 000000000111100
Q ss_pred -------hCCCCCccccchhhHHHHHHHHHHH-cCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEE-EecCChHH
Q 038944 234 -------LMPSSRLSEIMDKNYEMKKIILHEY-LMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVL-ITLTEIKM 302 (334)
Q Consensus 234 -------~~~~~~~~~~~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIi-vTTr~~~v 302 (334)
+...... ...+.. .+.+..... +.+++-++|+|+++. ...|+.+...+......+.+| .||....+
T Consensus 95 ~h~Dv~eidaas~~-~vd~Ir--~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI 171 (507)
T PRK06645 95 NHPDIIEIDAASKT-SVDDIR--RIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKI 171 (507)
T ss_pred CCCcEEEeeccCCC-CHHHHH--HHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHh
Confidence 0000000 011111 222222211 356778999999986 467888888876555566655 46666666
Q ss_pred HhhccccC-cccccccC
Q 038944 303 FTFLLETL-FSLLICVS 318 (334)
Q Consensus 303 a~~~~~~~-~~~l~~l~ 318 (334)
...+...+ .+.+..++
T Consensus 172 ~~tI~SRc~~~ef~~ls 188 (507)
T PRK06645 172 PATIISRCQRYDLRRLS 188 (507)
T ss_pred hHHHHhcceEEEccCCC
Confidence 65544333 24444444
No 48
>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=97.71 E-value=0.00014 Score=57.78 Aligned_cols=21 Identities=14% Similarity=0.197 Sum_probs=19.3
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|-|+|.+|+||||+|+.+.++
T Consensus 1 ill~G~~G~GKT~l~~~la~~ 21 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQY 21 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHhh
Confidence 568999999999999999994
No 49
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.71 E-value=0.00033 Score=72.13 Aligned_cols=152 Identities=14% Similarity=0.094 Sum_probs=80.0
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH--
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF-- 233 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~-- 233 (334)
.+++|.+.-++.|.+++..+. -...+-++|..|+||||+|+.+.+...-..... .+ .|....--..|...
T Consensus 16 ddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~------~~-pCg~C~sC~~i~~g~~ 87 (944)
T PRK14949 16 EQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVT------AT-PCGVCSSCVEIAQGRF 87 (944)
T ss_pred HHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhccCccCCC------CC-CCCCchHHHHHhcCCC
Confidence 468999999999998887653 223457899999999999999987321111000 00 00000000000000
Q ss_pred -----hCCCCCccccchhhHHHHHHHHHHH-cCCCeEEEEEeCCC--ChhHHHHHHhhCCCCCCCeEEEEe-cCChHHHh
Q 038944 234 -----LMPSSRLSEIMDKNYEMKKIILHEY-LMTKRYLNVIDDVW--NIEVCDIIREILPDNQNRSRVLIT-LTEIKMFT 304 (334)
Q Consensus 234 -----~~~~~~~~~~~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw--~~~~w~~l~~~l~~~~~gsrIivT-Tr~~~va~ 304 (334)
+...... ...+.. .+...+... ..+++-++|||++. +...++.|+..+-.-....++|++ |....+..
T Consensus 88 ~DviEidAas~~-kVDdIR--eLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~ 164 (944)
T PRK14949 88 VDLIEVDAASRT-KVDDTR--ELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPV 164 (944)
T ss_pred ceEEEecccccc-CHHHHH--HHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchH
Confidence 0000000 011111 333333221 24677899999985 457888888877554445665554 44455543
Q ss_pred hccc-cCcccccccC
Q 038944 305 FLLE-TLFSLLICVS 318 (334)
Q Consensus 305 ~~~~-~~~~~l~~l~ 318 (334)
.+-. ...+++..++
T Consensus 165 TIlSRCq~f~fkpLs 179 (944)
T PRK14949 165 TVLSRCLQFNLKSLT 179 (944)
T ss_pred HHHHhheEEeCCCCC
Confidence 3222 2344555554
No 50
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.71 E-value=0.00042 Score=69.27 Aligned_cols=136 Identities=13% Similarity=0.089 Sum_probs=73.1
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
.+++|.+...+.|.+++..+. -...+-++|+.|+||||+|+.+.+.. .|.-|+.. ..|+....-+.|...-.
T Consensus 15 ddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~L------nC~~~~~~-~pCg~C~sC~~I~~g~h 86 (702)
T PRK14960 15 NELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCL------NCETGVTS-TPCEVCATCKAVNEGRF 86 (702)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh------CCCcCCCC-CCCccCHHHHHHhcCCC
Confidence 468999999999999998654 23577899999999999999887631 11112111 11111111111111000
Q ss_pred CCC---Cccccchhh-HHHHHHHHHHH-cCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEEecCC
Q 038944 236 PSS---RLSEIMDKN-YEMKKIILHEY-LMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLITLTE 299 (334)
Q Consensus 236 ~~~---~~~~~~~~~-~~~l~~~l~~~-L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIivTTr~ 299 (334)
... ...+....+ ...+...+... ..+++-++|+|++.. ...++.|...+-.-..+.++|++|.+
T Consensus 87 pDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd 157 (702)
T PRK14960 87 IDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTD 157 (702)
T ss_pred CceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECC
Confidence 000 000000111 00222222111 246667899999964 46777787777554456677776654
No 51
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=97.70 E-value=0.00058 Score=69.13 Aligned_cols=133 Identities=17% Similarity=0.158 Sum_probs=85.6
Q ss_pred HHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCC-CCHHHHHHHHHHHhCCCCCcc--
Q 038944 165 MEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYP-YDADQMLDIVIKFLMPSSRLS-- 241 (334)
Q Consensus 165 ~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~il~~il~~~~~~~~~~-- 241 (334)
..+|++.|... .+.+.+-|..+.|.|||||+-.... .. ..=.-++|.+.+.+ -++..++.-++..++.-.+.-
T Consensus 24 R~rL~~~L~~~-~~~RL~li~APAGfGKttl~aq~~~--~~-~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~ 99 (894)
T COG2909 24 RPRLLDRLRRA-NDYRLILISAPAGFGKTTLLAQWRE--LA-ADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGD 99 (894)
T ss_pred cHHHHHHHhcC-CCceEEEEeCCCCCcHHHHHHHHHH--hc-CcccceeEeecCCccCCHHHHHHHHHHHHHHhCccccH
Confidence 45777777665 3589999999999999999988865 11 12245799998754 588899999999887544321
Q ss_pred -------ccchhhHHHHHHHHHHHcC--CCeEEEEEeCCC---ChhHHHHHHhhCCCCCCCeEEEEecCChH
Q 038944 242 -------EIMDKNYEMKKIILHEYLM--TKRYLNVIDDVW---NIEVCDIIREILPDNQNRSRVLITLTEIK 301 (334)
Q Consensus 242 -------~~~~~~~~~l~~~l~~~L~--~kr~LlVlDdvw---~~~~w~~l~~~l~~~~~gsrIivTTr~~~ 301 (334)
......+..+...+..-+. .+...+||||.- ++.--..+...+.....+-..|||||+.-
T Consensus 100 ~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP 171 (894)
T COG2909 100 EAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRP 171 (894)
T ss_pred HHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCC
Confidence 0011111134444444342 457899999964 33333333333334445678999999753
No 52
>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=97.70 E-value=0.00016 Score=63.86 Aligned_cols=36 Identities=22% Similarity=0.326 Sum_probs=29.0
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPG 217 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~v 217 (334)
-.+.|+|..|+|||||...+.. .....|.+..+++-
T Consensus 14 fr~viIG~sGSGKT~li~~lL~--~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTTLIKSLLY--YLRHKFDHIFLITP 49 (241)
T ss_pred ceEEEECCCCCCHHHHHHHHHH--hhcccCCEEEEEec
Confidence 3688999999999999999987 56678876666543
No 53
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.67 E-value=0.00092 Score=65.22 Aligned_cols=46 Identities=17% Similarity=0.187 Sum_probs=36.2
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|.+.....|...+..+. -...+-++|++|+||||+|+.+.+.
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 468999888777777776543 2346789999999999999999773
No 54
>PRK09087 hypothetical protein; Validated
Probab=97.65 E-value=0.00031 Score=61.90 Aligned_cols=24 Identities=25% Similarity=0.266 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-+.+.|+|..|+|||+|++.+.+.
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~~~ 67 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWREK 67 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHh
Confidence 467899999999999999998874
No 55
>PLN03025 replication factor C subunit; Provisional
Probab=97.64 E-value=0.0004 Score=64.53 Aligned_cols=45 Identities=18% Similarity=0.233 Sum_probs=35.4
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|.++.++.|..++..+. .+-+-++|++|+||||+|+.+.+.
T Consensus 13 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~G~GKTtla~~la~~ 57 (319)
T PLN03025 13 DDIVGNEDAVSRLQVIARDGN--MPNLILSGPPGTGKTTSILALAHE 57 (319)
T ss_pred HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence 357888888888887776543 344678999999999999998873
No 56
>PRK08727 hypothetical protein; Validated
Probab=97.62 E-value=0.00014 Score=64.35 Aligned_cols=36 Identities=14% Similarity=0.141 Sum_probs=26.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEE
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVP 216 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~ 216 (334)
...+.|+|..|+|||+|++.+.+. ..++.....|++
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~ 76 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLP 76 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEe
Confidence 345999999999999999999873 323333445654
No 57
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=97.60 E-value=0.00028 Score=67.36 Aligned_cols=50 Identities=16% Similarity=0.175 Sum_probs=39.0
Q ss_pred CCCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEG-----------PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
....++.|+++.++++.+.+... -...+-+.++|++|+|||++|+.+.+.
T Consensus 128 ~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 128 VTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred CCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence 33456889999999998876421 134566889999999999999999983
No 58
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.59 E-value=0.0009 Score=65.98 Aligned_cols=45 Identities=11% Similarity=0.126 Sum_probs=37.3
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.++||-+.-++.|.+++..+. -...+-++|+.|+||||+|+.+.+
T Consensus 16 ~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk 60 (509)
T PRK14958 16 QEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAK 60 (509)
T ss_pred HHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHH
Confidence 468999999999999997653 223567899999999999998876
No 59
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=97.58 E-value=0.00054 Score=60.30 Aligned_cols=104 Identities=13% Similarity=0.157 Sum_probs=65.1
Q ss_pred CCCCCeeechhhHHHHHHHHhc--CCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIE--GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIV 230 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~--~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~i 230 (334)
+.-.+++|.+.+++.|++--.. ...+..-+-++|..|.|||+|++.+.+...-+. ++ -|.|++.
T Consensus 24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G---LR-lIev~k~---------- 89 (249)
T PF05673_consen 24 IRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG---LR-LIEVSKE---------- 89 (249)
T ss_pred CCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC---ce-EEEECHH----------
Confidence 5566799999999988765432 122345667799999999999999987322111 11 1222221
Q ss_pred HHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCC---ChhHHHHHHhhCC
Q 038944 231 IKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVW---NIEVCDIIREILP 285 (334)
Q Consensus 231 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw---~~~~w~~l~~~l~ 285 (334)
+..+.. .+...|+. ...||+|.+||+- ++..+..++..|.
T Consensus 90 -----------~L~~l~--~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~Le 132 (249)
T PF05673_consen 90 -----------DLGDLP--ELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLE 132 (249)
T ss_pred -----------HhccHH--HHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhc
Confidence 111112 44444442 3579999999995 3457888887775
No 60
>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=97.56 E-value=0.0016 Score=61.29 Aligned_cols=45 Identities=16% Similarity=0.210 Sum_probs=37.3
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+..++.+.+++..+. -...+-++|++|+||||+|+.+..
T Consensus 14 ~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~ 58 (355)
T TIGR02397 14 EDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAK 58 (355)
T ss_pred hhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence 467999999999999887643 235678899999999999988875
No 61
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.56 E-value=0.00089 Score=67.15 Aligned_cols=45 Identities=13% Similarity=0.190 Sum_probs=36.6
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|-+.-++.|.+++..+. -...+-++|..|+||||+|+.+.+
T Consensus 16 ~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk 60 (618)
T PRK14951 16 SEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAK 60 (618)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence 468898888888888887754 235678899999999999998854
No 62
>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=97.55 E-value=0.00049 Score=65.29 Aligned_cols=117 Identities=10% Similarity=0.039 Sum_probs=80.0
Q ss_pred CCCCCeeechhhHHHHHHHHhcC--CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEG--PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIV 230 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~i 230 (334)
..+..++||+.+++.+.+|+... .....-+.|.|.+|.|||.+...|+.+..-...=.+.+++....--....++..|
T Consensus 147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI 226 (529)
T KOG2227|consen 147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKI 226 (529)
T ss_pred CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHH
Confidence 56778999999999999998753 2445678899999999999999999863221111234555544434567888888
Q ss_pred HHHhCCCCCccccchhhHHHHHHHHHHHcCCCe--EEEEEeCCCC
Q 038944 231 IKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKR--YLNVIDDVWN 273 (334)
Q Consensus 231 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr--~LlVlDdvw~ 273 (334)
...+-..... ..... +.+..+.++.++.+ ||+|||.+..
T Consensus 227 ~~~~~q~~~s--~~~~~--~~~~~~~~h~~q~k~~~llVlDEmD~ 267 (529)
T KOG2227|consen 227 FSSLLQDLVS--PGTGM--QHLEKFEKHTKQSKFMLLLVLDEMDH 267 (529)
T ss_pred HHHHHHHhcC--CchhH--HHHHHHHHHHhcccceEEEEechhhH
Confidence 8777222211 11113 66777777775544 8999999854
No 63
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.55 E-value=0.00097 Score=66.63 Aligned_cols=160 Identities=11% Similarity=-0.027 Sum_probs=80.9
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
.++||.+.-++.|.+++..+. -...+-++|..|+||||+|+.+.+...-...-. ..-+ .+..|+....-+.|...-.
T Consensus 16 ddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~-~~g~-~~~PCG~C~sC~~I~aG~h 92 (700)
T PRK12323 16 TTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADG-EGGI-TAQPCGQCRACTEIDAGRF 92 (700)
T ss_pred HHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCccc-cccC-CCCCCcccHHHHHHHcCCC
Confidence 468999999999999987654 234567899999999999998876321100000 0000 0011111111111110000
Q ss_pred CCCCcc---ccchhh-HHHHHHHHHHH-cCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeE-EEEecCChHHHhhcc
Q 038944 236 PSSRLS---EIMDKN-YEMKKIILHEY-LMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSR-VLITLTEIKMFTFLL 307 (334)
Q Consensus 236 ~~~~~~---~~~~~~-~~~l~~~l~~~-L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsr-IivTTr~~~va~~~~ 307 (334)
...... .....+ ..++.+.+... ..++.-++|||++.. ...++.|+..+-.-..+.+ |++||....+...+-
T Consensus 93 pDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIr 172 (700)
T PRK12323 93 VDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVL 172 (700)
T ss_pred CcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHH
Confidence 000000 001111 00222222211 246667999999964 4688888887754334455 555666666665544
Q ss_pred ccC-cccccccC
Q 038944 308 ETL-FSLLICVS 318 (334)
Q Consensus 308 ~~~-~~~l~~l~ 318 (334)
+.+ .+.+..++
T Consensus 173 SRCq~f~f~~ls 184 (700)
T PRK12323 173 SRCLQFNLKQMP 184 (700)
T ss_pred HHHHhcccCCCC
Confidence 433 34444444
No 64
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=97.53 E-value=0.00055 Score=68.06 Aligned_cols=142 Identities=9% Similarity=0.023 Sum_probs=75.2
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHh
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFL 234 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~ 234 (334)
-.+++|.+..++.+.+++..+. -...+-++|+.|+||||+|+.+.+.- .|.-|.... .|+....-+.+....
T Consensus 15 F~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L------~C~~~~~~~-~Cg~C~sCr~i~~~~ 86 (605)
T PRK05896 15 FKQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAI------NCLNPKDGD-CCNSCSVCESINTNQ 86 (605)
T ss_pred HHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHh------cCCCCCCCC-CCcccHHHHHHHcCC
Confidence 3468899999999999886653 23567899999999999999987631 222232211 222222222222111
Q ss_pred CCCCCcc---ccchhh-HHHHHHHHHHH-cCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEE-ecCChHHHh
Q 038944 235 MPSSRLS---EIMDKN-YEMKKIILHEY-LMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLI-TLTEIKMFT 304 (334)
Q Consensus 235 ~~~~~~~---~~~~~~-~~~l~~~l~~~-L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIiv-TTr~~~va~ 304 (334)
....... .....+ ...+...+... ..+++-++|+|++.. ...++.|...+..-...+.+|+ ||....+-.
T Consensus 87 h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~ 164 (605)
T PRK05896 87 SVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPL 164 (605)
T ss_pred CCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhH
Confidence 1000000 000111 11222222221 223445799999854 4678888877755444565554 444444443
No 65
>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=97.52 E-value=0.00012 Score=63.53 Aligned_cols=55 Identities=18% Similarity=0.183 Sum_probs=36.7
Q ss_pred CCCCeeechhhHHHHHHHHh---cCCCCceEEEEEccCCccHHHHHHHHHccCCCCCcee
Q 038944 154 KSRDTVGLDDRMEELLDLLI---EGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFD 210 (334)
Q Consensus 154 ~~~~~vGr~~~~~~l~~~L~---~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~ 210 (334)
.-.+++|.+.-+..+.-++. .....+.-+-.||++|+||||||..+.+ .....|.
T Consensus 22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~--e~~~~~~ 79 (233)
T PF05496_consen 22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIAN--ELGVNFK 79 (233)
T ss_dssp SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHH--HCT--EE
T ss_pred CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHh--ccCCCeE
Confidence 45678999888877654443 3345678889999999999999999999 5555563
No 66
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.50 E-value=0.00056 Score=70.60 Aligned_cols=118 Identities=8% Similarity=0.152 Sum_probs=66.6
Q ss_pred CCCeeechhhHHHHHHHHhcC-------CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEG-------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQML 227 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il 227 (334)
...++|.+..++.+.+.+... +....++.++|+.|+|||+||+.+... .... .+.+..|.-.+..
T Consensus 453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~--l~~~---~~~~d~se~~~~~--- 524 (731)
T TIGR02639 453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA--LGVH---LERFDMSEYMEKH--- 524 (731)
T ss_pred hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH--hcCC---eEEEeCchhhhcc---
Confidence 446889999999988887631 234557889999999999999999883 3222 2344433311111
Q ss_pred HHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC--hhHHHHHHhhCCC
Q 038944 228 DIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN--IEVCDIIREILPD 286 (334)
Q Consensus 228 ~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~--~~~w~~l~~~l~~ 286 (334)
.+...++......+..... .+...++. ...-+++||++.. .+.++.+...+..
T Consensus 525 -~~~~lig~~~gyvg~~~~~--~l~~~~~~---~p~~VvllDEieka~~~~~~~Ll~~ld~ 579 (731)
T TIGR02639 525 -TVSRLIGAPPGYVGFEQGG--LLTEAVRK---HPHCVLLLDEIEKAHPDIYNILLQVMDY 579 (731)
T ss_pred -cHHHHhcCCCCCcccchhh--HHHHHHHh---CCCeEEEEechhhcCHHHHHHHHHhhcc
Confidence 1111122111000011111 23333321 2345999999975 4677777776653
No 67
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.49 E-value=0.00037 Score=61.83 Aligned_cols=24 Identities=8% Similarity=0.122 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
...+.|+|+.|+|||+|++.+.+.
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~ 68 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAE 68 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 457899999999999999999873
No 68
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.49 E-value=0.0012 Score=63.17 Aligned_cols=149 Identities=10% Similarity=-0.008 Sum_probs=74.5
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEE-cCCCCCHHHHHHHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVP-GTYPYDADQMLDIVIKF 233 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~-vs~~~~~~~il~~il~~ 233 (334)
-.+++|.+..++.|..++..+. -...+-++|+.|+||||+|..+.+.-.-...+....|.. +..+++.-..-+.+...
T Consensus 15 ~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~ 93 (397)
T PRK14955 15 FADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAG 93 (397)
T ss_pred HhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcC
Confidence 3468899988888888887653 234577899999999999998876321111111111111 01111111111111110
Q ss_pred hCCCC---Cccccchhh-HHHHHHHHHHH-cCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEEec-CChHHHh
Q 038944 234 LMPSS---RLSEIMDKN-YEMKKIILHEY-LMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLITL-TEIKMFT 304 (334)
Q Consensus 234 ~~~~~---~~~~~~~~~-~~~l~~~l~~~-L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIivTT-r~~~va~ 304 (334)
..... ........+ ..++...+... ..+++-++|+|++.. ...|+.+...+.+-...+.+|++| +...+..
T Consensus 94 ~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~ 172 (397)
T PRK14955 94 TSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPA 172 (397)
T ss_pred CCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHH
Confidence 00000 000000011 00222222111 235566889999863 467888888876655567766554 4444443
No 69
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.46 E-value=0.0019 Score=64.03 Aligned_cols=45 Identities=16% Similarity=0.183 Sum_probs=36.7
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+..++.|.+++..+. -...+-++|..|+||||+|+.+.+
T Consensus 16 ~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk 60 (527)
T PRK14969 16 SELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAK 60 (527)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHH
Confidence 468899999999998887654 224567899999999999999876
No 70
>PRK12377 putative replication protein; Provisional
Probab=97.45 E-value=0.00055 Score=61.08 Aligned_cols=73 Identities=15% Similarity=0.007 Sum_probs=44.3
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY 258 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~ 258 (334)
...+.++|.+|+|||+||..+.+. +......+.++++ .+++..|-....... ... .+ .+.
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~--l~~~g~~v~~i~~------~~l~~~l~~~~~~~~------~~~--~~----l~~ 160 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNR--LLAKGRSVIVVTV------PDVMSRLHESYDNGQ------SGE--KF----LQE 160 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEEEH------HHHHHHHHHHHhccc------hHH--HH----HHH
Confidence 457899999999999999999984 3333334466644 345555544332110 111 22 222
Q ss_pred cCCCeEEEEEeCCC
Q 038944 259 LMTKRYLNVIDDVW 272 (334)
Q Consensus 259 L~~kr~LlVlDdvw 272 (334)
+ .+-=||||||+-
T Consensus 161 l-~~~dLLiIDDlg 173 (248)
T PRK12377 161 L-CKVDLLVLDEIG 173 (248)
T ss_pred h-cCCCEEEEcCCC
Confidence 2 355699999993
No 71
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=97.45 E-value=0.0012 Score=63.19 Aligned_cols=95 Identities=15% Similarity=0.081 Sum_probs=61.3
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYL 259 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L 259 (334)
++.|+|+.++|||||++.+... ..+. .+++..-... +-.++ . +....+.+.-
T Consensus 39 i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l-~---------------------d~~~~~~~~~ 91 (398)
T COG1373 39 IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIEL-L---------------------DLLRAYIELK 91 (398)
T ss_pred EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhH-H---------------------HHHHHHHHhh
Confidence 9999999999999999777663 2222 3444322211 10000 0 1111121111
Q ss_pred CCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHH
Q 038944 260 MTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMF 303 (334)
Q Consensus 260 ~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va 303 (334)
..++.+|+||.|-....|......+.+..+. +|++|+.+..+-
T Consensus 92 ~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll 134 (398)
T COG1373 92 EREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLL 134 (398)
T ss_pred ccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhh
Confidence 2278899999999999999999988876666 899998876543
No 72
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=97.45 E-value=0.0019 Score=61.66 Aligned_cols=46 Identities=15% Similarity=0.081 Sum_probs=36.9
Q ss_pred CCeeechhhHHHHHHHHhcCCC--------CceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPP--------QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~--------~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++++|.+..++.|.+++..+.. -..-+-++|+.|+||||+|..+..
T Consensus 5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~ 58 (394)
T PRK07940 5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAA 58 (394)
T ss_pred hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHH
Confidence 3578999999999999876531 245677999999999999998865
No 73
>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=97.44 E-value=0.002 Score=58.54 Aligned_cols=116 Identities=15% Similarity=0.136 Sum_probs=74.5
Q ss_pred CCCCeeechh---hHHHHHHHHhcCC-CCceEEEEEccCCccHHHHHHHHHccCCC-----CCceeeEEEEEcCCCCCHH
Q 038944 154 KSRDTVGLDD---RMEELLDLLIEGP-PQLSVVVILDSIGLDKAAFAGEAYNSSYV-----KHYFDCHAWVPGTYPYDAD 224 (334)
Q Consensus 154 ~~~~~vGr~~---~~~~l~~~L~~~~-~~~~vi~IvG~gGvGKTtLa~~v~~~~~~-----~~~F~~~~wv~vs~~~~~~ 224 (334)
..+..+|... ..+.|.++|..+. ...+-+.|||.+|.|||++++......-. ...+ ++..|.....++..
T Consensus 32 ~~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~ 110 (302)
T PF05621_consen 32 RADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDER 110 (302)
T ss_pred hcCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChH
Confidence 3445667543 3345555555443 46678999999999999999998853111 1122 56677888899999
Q ss_pred HHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC
Q 038944 225 QMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN 273 (334)
Q Consensus 225 ~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~ 273 (334)
.++..|+.+++........... +......+.+.+ +--+||+|.+-+
T Consensus 111 ~~Y~~IL~~lgaP~~~~~~~~~-~~~~~~~llr~~--~vrmLIIDE~H~ 156 (302)
T PF05621_consen 111 RFYSAILEALGAPYRPRDRVAK-LEQQVLRLLRRL--GVRMLIIDEFHN 156 (302)
T ss_pred HHHHHHHHHhCcccCCCCCHHH-HHHHHHHHHHHc--CCcEEEeechHH
Confidence 9999999999987653222111 112222333333 334899999965
No 74
>PRK08181 transposase; Validated
Probab=97.43 E-value=0.00025 Score=64.06 Aligned_cols=98 Identities=13% Similarity=0.112 Sum_probs=51.9
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYL 259 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L 259 (334)
.-+.++|.+|+|||.||..+.+. .......+.|++ ..+++..+...... .... .....+
T Consensus 107 ~nlll~Gp~GtGKTHLa~Aia~~--a~~~g~~v~f~~------~~~L~~~l~~a~~~-------~~~~--~~l~~l---- 165 (269)
T PRK08181 107 ANLLLFGPPGGGKSHLAAAIGLA--LIENGWRVLFTR------TTDLVQKLQVARRE-------LQLE--SAIAKL---- 165 (269)
T ss_pred ceEEEEecCCCcHHHHHHHHHHH--HHHcCCceeeee------HHHHHHHHHHHHhC-------CcHH--HHHHHH----
Confidence 35899999999999999999873 222222344543 44566655433211 0111 222222
Q ss_pred CCCeEEEEEeCCCCh---hHHH-HHHhhCCC-CCCCeEEEEecCCh
Q 038944 260 MTKRYLNVIDDVWNI---EVCD-IIREILPD-NQNRSRVLITLTEI 300 (334)
Q Consensus 260 ~~kr~LlVlDdvw~~---~~w~-~l~~~l~~-~~~gsrIivTTr~~ 300 (334)
.+-=||||||+-.. ..|. .+...+.. ...+ .+||||...
T Consensus 166 -~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~-s~IiTSN~~ 209 (269)
T PRK08181 166 -DKFDLLILDDLAYVTKDQAETSVLFELISARYERR-SILITANQP 209 (269)
T ss_pred -hcCCEEEEeccccccCCHHHHHHHHHHHHHHHhCC-CEEEEcCCC
Confidence 13349999999532 2222 22222221 1124 488887754
No 75
>PRK10536 hypothetical protein; Provisional
Probab=97.43 E-value=0.0014 Score=58.41 Aligned_cols=44 Identities=7% Similarity=0.110 Sum_probs=35.7
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
...+.++......++.+|.+. .++.+.|..|+|||+||..+..+
T Consensus 54 ~~~i~p~n~~Q~~~l~al~~~----~lV~i~G~aGTGKT~La~a~a~~ 97 (262)
T PRK10536 54 TSPILARNEAQAHYLKAIESK----QLIFATGEAGCGKTWISAAKAAE 97 (262)
T ss_pred CccccCCCHHHHHHHHHHhcC----CeEEEECCCCCCHHHHHHHHHHH
Confidence 344667888888888888663 48999999999999999887764
No 76
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.43 E-value=0.00092 Score=67.21 Aligned_cols=137 Identities=12% Similarity=0.120 Sum_probs=74.6
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHh
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFL 234 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~ 234 (334)
-.+++|.+..++.|..++..+. -...+-++|..|+||||+|+.+.+.-. |..+-.....|+.....+.|....
T Consensus 15 ~~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~------c~~~~~~~~~c~~c~~c~~i~~~~ 87 (585)
T PRK14950 15 FAELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVN------CTTNDPKGRPCGTCEMCRAIAEGS 87 (585)
T ss_pred HHHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhc------CCCCCCCCCCCccCHHHHHHhcCC
Confidence 3468999999999988887653 234567899999999999999986321 111100111223233334443322
Q ss_pred CCCCC---ccccchhh-HHHHHHHHHHH-cCCCeEEEEEeCCC--ChhHHHHHHhhCCCCCCCeEEEEecC
Q 038944 235 MPSSR---LSEIMDKN-YEMKKIILHEY-LMTKRYLNVIDDVW--NIEVCDIIREILPDNQNRSRVLITLT 298 (334)
Q Consensus 235 ~~~~~---~~~~~~~~-~~~l~~~l~~~-L~~kr~LlVlDdvw--~~~~w~~l~~~l~~~~~gsrIivTTr 298 (334)
..... .......+ ..++...+... ..+++-++|+|++. +....+.|...+......+.+|++|.
T Consensus 88 ~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~ 158 (585)
T PRK14950 88 AVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATT 158 (585)
T ss_pred CCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence 11100 00001111 11222222221 23567789999985 44667778777655445566666554
No 77
>PRK12608 transcription termination factor Rho; Provisional
Probab=97.41 E-value=0.00065 Score=63.67 Aligned_cols=105 Identities=10% Similarity=-0.075 Sum_probs=63.9
Q ss_pred HHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceee-EEEEEcCCC-CCHHHHHHHHHHHhCCCCCcccc
Q 038944 166 EELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDC-HAWVPGTYP-YDADQMLDIVIKFLMPSSRLSEI 243 (334)
Q Consensus 166 ~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~-~~wv~vs~~-~~~~~il~~il~~~~~~~~~~~~ 243 (334)
.++++.+..=..+ .-..|+|.+|+|||||++.+.+... .++=+. ++|+.+.+. .++.++++.+...+.........
T Consensus 121 ~RvID~l~PiGkG-QR~LIvG~pGtGKTTLl~~la~~i~-~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~ 198 (380)
T PRK12608 121 MRVVDLVAPIGKG-QRGLIVAPPRAGKTVLLQQIAAAVA-ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPP 198 (380)
T ss_pred HhhhhheeecCCC-ceEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCH
Confidence 4577777642222 2459999999999999999877321 112233 477777754 57889999998877654421111
Q ss_pred chhh-HHHHHHHHHHHc--CCCeEEEEEeCCC
Q 038944 244 MDKN-YEMKKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 244 ~~~~-~~~l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
.... .-.....+-+++ +|++.+||+|++-
T Consensus 199 ~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt 230 (380)
T PRK12608 199 DEHIRVAELVLERAKRLVEQGKDVVILLDSLT 230 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence 1100 001222222333 6999999999994
No 78
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=97.40 E-value=0.0019 Score=65.05 Aligned_cols=45 Identities=22% Similarity=0.267 Sum_probs=37.7
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+..+..|.+++..+. -..-+-++|..|+||||+|+.+.+
T Consensus 16 ddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk 60 (709)
T PRK08691 16 ADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAK 60 (709)
T ss_pred HHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHH
Confidence 468999999999999988653 234678999999999999998876
No 79
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.40 E-value=0.00091 Score=59.51 Aligned_cols=114 Identities=12% Similarity=0.064 Sum_probs=59.8
Q ss_pred HHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccc
Q 038944 165 MEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIM 244 (334)
Q Consensus 165 ~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~ 244 (334)
+..+.++..........+.++|.+|+|||+|+..+.+.. ...-...+++ +..+++..+-...... ..
T Consensus 85 l~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l--~~~g~~v~~i------t~~~l~~~l~~~~~~~-----~~ 151 (244)
T PRK07952 85 LSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNEL--LLRGKSVLII------TVADIMSAMKDTFSNS-----ET 151 (244)
T ss_pred HHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEE------EHHHHHHHHHHHHhhc-----cc
Confidence 334444443322334578899999999999999999842 2222234455 3455665555443211 11
Q ss_pred hhhHHHHHHHHHHHcCCCeEEEEEeCCCCh--hHHHH--HHhhCC--CCCCCeEEEEecCC
Q 038944 245 DKNYEMKKIILHEYLMTKRYLNVIDDVWNI--EVCDI--IREILP--DNQNRSRVLITLTE 299 (334)
Q Consensus 245 ~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~--~~w~~--l~~~l~--~~~~gsrIivTTr~ 299 (334)
... .+. +.+. +.=||||||+-.. ..|.. +...+. .....+ +||||..
T Consensus 152 ~~~--~~l----~~l~-~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~-tiitSNl 204 (244)
T PRK07952 152 SEE--QLL----NDLS-NVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRP-TGMLTNS 204 (244)
T ss_pred cHH--HHH----HHhc-cCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCC-EEEeCCC
Confidence 111 222 2343 3448899999543 44542 222332 122333 6667664
No 80
>PRK07261 topology modulation protein; Provisional
Probab=97.39 E-value=0.00057 Score=57.49 Aligned_cols=54 Identities=20% Similarity=0.251 Sum_probs=32.0
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCC-CceeeEEEEEcCCCCCHHHHHHHHHHHh
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVK-HYFDCHAWVPGTYPYDADQMLDIVIKFL 234 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~-~~F~~~~wv~vs~~~~~~~il~~il~~~ 234 (334)
.|.|+|++|+||||||+.+....... -+.|...|-......+..++...+..-+
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~ 56 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFL 56 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHH
Confidence 48999999999999999997643221 1344455533222333344444443333
No 81
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.39 E-value=0.0017 Score=63.34 Aligned_cols=45 Identities=18% Similarity=0.177 Sum_probs=35.8
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+.-++.|.+.+..+. -..-+-++|+.|+||||+|+.+..
T Consensus 13 ~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk 57 (491)
T PRK14964 13 KDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISL 57 (491)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHH
Confidence 468999888888887776553 234688999999999999988865
No 82
>PRK05642 DNA replication initiation factor; Validated
Probab=97.39 E-value=0.00069 Score=60.04 Aligned_cols=23 Identities=13% Similarity=0.174 Sum_probs=20.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...+.|+|..|+|||+|++.+.+
T Consensus 45 ~~~l~l~G~~G~GKTHLl~a~~~ 67 (234)
T PRK05642 45 ESLIYLWGKDGVGRSHLLQAACL 67 (234)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 46789999999999999999987
No 83
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=97.39 E-value=0.0012 Score=66.40 Aligned_cols=153 Identities=15% Similarity=0.130 Sum_probs=81.5
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH-
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF- 233 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~- 233 (334)
-.+++|.+..+..|.+.+..+. -...+-++|..|+||||+|+.+.+.. .|..++ .+.+|.....-+.|...
T Consensus 15 f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L------~c~~~~-~~~pCg~C~~C~~i~~g~ 86 (647)
T PRK07994 15 FAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGL------NCETGI-TATPCGECDNCREIEQGR 86 (647)
T ss_pred HHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhh------hhccCC-CCCCCCCCHHHHHHHcCC
Confidence 3468999999999988887654 22346789999999999999987631 111110 01112111222222110
Q ss_pred ------hCCCCCccccchhhHHHHHHHHHHH-cCCCeEEEEEeCCC--ChhHHHHHHhhCCCCCCCeEEEE-ecCChHHH
Q 038944 234 ------LMPSSRLSEIMDKNYEMKKIILHEY-LMTKRYLNVIDDVW--NIEVCDIIREILPDNQNRSRVLI-TLTEIKMF 303 (334)
Q Consensus 234 ------~~~~~~~~~~~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw--~~~~w~~l~~~l~~~~~gsrIiv-TTr~~~va 303 (334)
+...... ...+.. ++...+... ..+++-++|||++. +...++.|+..+-.-....++|+ ||....+.
T Consensus 87 ~~D~ieidaas~~-~VddiR--~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl 163 (647)
T PRK07994 87 FVDLIEIDAASRT-KVEDTR--ELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP 163 (647)
T ss_pred CCCceeecccccC-CHHHHH--HHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccc
Confidence 0000000 011111 333333222 35677799999996 44678888777755444555554 55555554
Q ss_pred hhccc-cCcccccccC
Q 038944 304 TFLLE-TLFSLLICVS 318 (334)
Q Consensus 304 ~~~~~-~~~~~l~~l~ 318 (334)
..+-+ ...+++..++
T Consensus 164 ~TI~SRC~~~~f~~Ls 179 (647)
T PRK07994 164 VTILSRCLQFHLKALD 179 (647)
T ss_pred hHHHhhheEeeCCCCC
Confidence 33332 2344555554
No 84
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=97.36 E-value=0.00097 Score=64.67 Aligned_cols=99 Identities=16% Similarity=0.218 Sum_probs=55.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCce-e-eEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYF-D-CHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILH 256 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F-~-~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~ 256 (334)
..-+.|+|.+|+|||+|++.+.+. +...+ . ...|++ ..+++..+...+.... . . . +.
T Consensus 130 ~n~l~lyG~~G~GKTHLl~ai~~~--l~~~~~~~~v~yi~------~~~f~~~~~~~~~~~~-----~--~--~----f~ 188 (440)
T PRK14088 130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYIT------SEKFLNDLVDSMKEGK-----L--N--E----FR 188 (440)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEE------HHHHHHHHHHHHhccc-----H--H--H----HH
Confidence 456999999999999999999984 33322 2 244553 3456666666554221 0 1 2 22
Q ss_pred HHcCCCeEEEEEeCCCCh---hHH-HHHHhhCCC-CCCCeEEEEecC
Q 038944 257 EYLMTKRYLNVIDDVWNI---EVC-DIIREILPD-NQNRSRVLITLT 298 (334)
Q Consensus 257 ~~L~~kr~LlVlDdvw~~---~~w-~~l~~~l~~-~~~gsrIivTTr 298 (334)
+.+..+.-+|+|||+... ..+ +.+...+.. ...|..||+||.
T Consensus 189 ~~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd 235 (440)
T PRK14088 189 EKYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSD 235 (440)
T ss_pred HHHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECC
Confidence 222234558999999632 111 122222211 123456888774
No 85
>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=97.35 E-value=0.00087 Score=70.34 Aligned_cols=134 Identities=12% Similarity=0.160 Sum_probs=73.3
Q ss_pred CCCeeechhhHHHHHHHHhcC-------CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEG-------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQML 227 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il 227 (334)
...++|.+..++.+.+.+... +.+..++.++|+.|+|||++|+.+... ....-...+.+..|.-.+ ....
T Consensus 564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~--l~~~~~~~i~~d~s~~~~-~~~~ 640 (852)
T TIGR03346 564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF--LFDDEDAMVRIDMSEYME-KHSV 640 (852)
T ss_pred hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhhcc-cchH
Confidence 346899999999999888642 123567889999999999999999873 211111222233332111 1111
Q ss_pred HHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC--hhHHHHHHhhCCCCC-----------CCeEEE
Q 038944 228 DIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN--IEVCDIIREILPDNQ-----------NRSRVL 294 (334)
Q Consensus 228 ~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~-----------~gsrIi 294 (334)
..+ ++....-.+..... .+...++. ....+|+||++.. .+.++.+...|..+. ..+-||
T Consensus 641 ~~l---~g~~~g~~g~~~~g--~l~~~v~~---~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI 712 (852)
T TIGR03346 641 ARL---IGAPPGYVGYEEGG--QLTEAVRR---KPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVII 712 (852)
T ss_pred HHh---cCCCCCccCccccc--HHHHHHHc---CCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEE
Confidence 111 11110000011111 33333332 2234899999974 468888887775431 223377
Q ss_pred EecCC
Q 038944 295 ITLTE 299 (334)
Q Consensus 295 vTTr~ 299 (334)
+||..
T Consensus 713 ~TSn~ 717 (852)
T TIGR03346 713 MTSNL 717 (852)
T ss_pred EeCCc
Confidence 77765
No 86
>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=97.35 E-value=0.0009 Score=65.59 Aligned_cols=47 Identities=26% Similarity=0.253 Sum_probs=36.8
Q ss_pred CCeeechhhHHHHHHHHhcC-----------CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEG-----------PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++.|.+..++++.+.+.-. -...+-+.++|++|+|||++|+.+++.
T Consensus 182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e 239 (512)
T TIGR03689 182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS 239 (512)
T ss_pred HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence 45778999999888876421 123456889999999999999999994
No 87
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=97.35 E-value=0.001 Score=63.47 Aligned_cols=49 Identities=18% Similarity=0.137 Sum_probs=37.6
Q ss_pred CCCCeeechhhHHHHHHHHhc----C-------CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 154 KSRDTVGLDDRMEELLDLLIE----G-------PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 154 ~~~~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.-.++.|.+..+++|.+.+.- . -...+-+.++|++|+|||+||+.+.+.
T Consensus 143 ~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 143 TYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred CHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 344688999888888776631 1 124567889999999999999999983
No 88
>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=97.34 E-value=0.00057 Score=71.41 Aligned_cols=47 Identities=17% Similarity=0.270 Sum_probs=38.2
Q ss_pred CCCeeechhhHHHHHHHHhc-------CCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIE-------GPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++|.+..++.+.+.+.. +..+..++.++|+.|+|||.||+.+..
T Consensus 565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~ 618 (852)
T TIGR03345 565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAE 618 (852)
T ss_pred cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence 35689999999999888853 234566899999999999999987765
No 89
>PRK06835 DNA replication protein DnaC; Validated
Probab=97.33 E-value=0.0011 Score=61.74 Aligned_cols=23 Identities=9% Similarity=0.124 Sum_probs=21.1
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.-+.++|..|+|||+||..+.+.
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~ 206 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKE 206 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHH
Confidence 67999999999999999999884
No 90
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.33 E-value=0.00084 Score=70.17 Aligned_cols=47 Identities=9% Similarity=0.196 Sum_probs=37.2
Q ss_pred CCCeeechhhHHHHHHHHhc-------CCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIE-------GPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++|.+..++.+.+.+.. .+.+...+.++|+.|+|||+||+.+.+
T Consensus 508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~ 561 (821)
T CHL00095 508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALAS 561 (821)
T ss_pred cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHH
Confidence 35689999999999888753 223345677899999999999998876
No 91
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=97.31 E-value=0.0026 Score=66.07 Aligned_cols=151 Identities=11% Similarity=0.003 Sum_probs=78.7
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH--
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF-- 233 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~-- 233 (334)
.+++|.+..++.|..++..+. -...+-++|..|+||||+|+.+.+...-.+.+. ...|+...--+.|...
T Consensus 15 ~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~-------~~pCg~C~sC~~~~~g~~ 86 (824)
T PRK07764 15 AEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLNCVEGPT-------STPCGECDSCVALAPGGP 86 (824)
T ss_pred HHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhCcccCCC-------CCCCcccHHHHHHHcCCC
Confidence 468999999999999987654 224578999999999999999876321111100 0001110001111100
Q ss_pred -------hCCCCCccccchhhHHHHHHHHHH-HcCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEEec-CChHH
Q 038944 234 -------LMPSSRLSEIMDKNYEMKKIILHE-YLMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLITL-TEIKM 302 (334)
Q Consensus 234 -------~~~~~~~~~~~~~~~~~l~~~l~~-~L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIivTT-r~~~v 302 (334)
+...... ...+.. ++...+.. -..+++-++|||++.. ...++.|+..+-+-...+.+|++| ....+
T Consensus 87 ~~~dv~eidaas~~-~Vd~iR--~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kL 163 (824)
T PRK07764 87 GSLDVTEIDAASHG-GVDDAR--ELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKV 163 (824)
T ss_pred CCCcEEEecccccC-CHHHHH--HHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence 0000000 000111 22222211 1345666888999864 478888888886655566665554 44445
Q ss_pred Hhhcccc-Cccccccc
Q 038944 303 FTFLLET-LFSLLICV 317 (334)
Q Consensus 303 a~~~~~~-~~~~l~~l 317 (334)
-..+... ..+.+..+
T Consensus 164 l~TIrSRc~~v~F~~l 179 (824)
T PRK07764 164 IGTIRSRTHHYPFRLV 179 (824)
T ss_pred hHHHHhheeEEEeeCC
Confidence 5444333 33444444
No 92
>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=97.30 E-value=0.00075 Score=64.84 Aligned_cols=99 Identities=16% Similarity=0.184 Sum_probs=53.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCce--eeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYF--DCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILH 256 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~ 256 (334)
...+.|+|..|+|||+|++.+++. +.... ...++++ ..++...+...+.... .+.....+.
T Consensus 136 ~n~l~l~G~~G~GKThL~~ai~~~--l~~~~~~~~v~yi~------~~~~~~~~~~~~~~~~---------~~~~~~~~~ 198 (405)
T TIGR00362 136 YNPLFIYGGVGLGKTHLLHAIGNE--ILENNPNAKVVYVS------SEKFTNDFVNALRNNK---------MEEFKEKYR 198 (405)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHH--HHHhCCCCcEEEEE------HHHHHHHHHHHHHcCC---------HHHHHHHHH
Confidence 456899999999999999999984 32222 1234553 3445555555543221 113322222
Q ss_pred HHcCCCeEEEEEeCCCCh---hHH-HHHHhhCCC-CCCCeEEEEecCC
Q 038944 257 EYLMTKRYLNVIDDVWNI---EVC-DIIREILPD-NQNRSRVLITLTE 299 (334)
Q Consensus 257 ~~L~~kr~LlVlDdvw~~---~~w-~~l~~~l~~-~~~gsrIivTTr~ 299 (334)
+ .-+|+|||+... +.+ +.+...+.. ...|..+|+||..
T Consensus 199 ----~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~ 241 (405)
T TIGR00362 199 ----S-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDR 241 (405)
T ss_pred ----h-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCC
Confidence 2 238899999642 111 222222211 1234567777754
No 93
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.29 E-value=0.0017 Score=62.89 Aligned_cols=157 Identities=13% Similarity=0.026 Sum_probs=81.2
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHh
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFL 234 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~ 234 (334)
-.+++|.+..+..|..++..+. -...+-++|+.|+||||+|+.+.+...-..... ........+...+...+...+
T Consensus 17 f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~---~~pCg~C~sC~~i~~g~~~dv 92 (484)
T PRK14956 17 FRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRLNCENPIG---NEPCNECTSCLEITKGISSDV 92 (484)
T ss_pred HHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhcCcccccC---ccccCCCcHHHHHHccCCccc
Confidence 3468999999998888887654 224578999999999999999987321110000 000000011111111110000
Q ss_pred ---CCCCCccccchhhHHHHHHHHHHH-cCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEE-EecCChHHHhhcc
Q 038944 235 ---MPSSRLSEIMDKNYEMKKIILHEY-LMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVL-ITLTEIKMFTFLL 307 (334)
Q Consensus 235 ---~~~~~~~~~~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIi-vTTr~~~va~~~~ 307 (334)
...... ...+.. ++.+.+... ..++.-++|+|++.. ...++.++..+-.-......| .||....+...+-
T Consensus 93 iEIdaas~~-gVd~IR--eL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~ 169 (484)
T PRK14956 93 LEIDAASNR-GIENIR--ELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETIL 169 (484)
T ss_pred eeechhhcc-cHHHHH--HHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHH
Confidence 000000 011111 333333322 245666999999964 467888887775433345544 4555555654444
Q ss_pred ccC-cccccccC
Q 038944 308 ETL-FSLLICVS 318 (334)
Q Consensus 308 ~~~-~~~l~~l~ 318 (334)
+.+ .+.+..++
T Consensus 170 SRCq~~~f~~ls 181 (484)
T PRK14956 170 SRCQDFIFKKVP 181 (484)
T ss_pred hhhheeeecCCC
Confidence 433 24444444
No 94
>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=97.29 E-value=0.00041 Score=60.81 Aligned_cols=111 Identities=13% Similarity=0.120 Sum_probs=62.5
Q ss_pred HHHHHHhcC-CCCceEEEEEccCCccHHHHHHHHHccCCCCCcee--eEEEEEcCCCCCHHHHHHHHHHHhCCCCCcccc
Q 038944 167 ELLDLLIEG-PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFD--CHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEI 243 (334)
Q Consensus 167 ~l~~~L~~~-~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~ 243 (334)
.....+..+ +.....+.|+|..|+|||.|.+.+++. ..+..+ .++++ +..++...+...+....
T Consensus 21 ~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~--~~~~~~~~~v~y~------~~~~f~~~~~~~~~~~~----- 87 (219)
T PF00308_consen 21 AAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANE--AQKQHPGKRVVYL------SAEEFIREFADALRDGE----- 87 (219)
T ss_dssp HHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHH--HHHHCTTS-EEEE------EHHHHHHHHHHHHHTTS-----
T ss_pred HHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHH--HHhccccccceee------cHHHHHHHHHHHHHccc-----
Confidence 344444443 334566899999999999999999983 322211 23444 45566666665554421
Q ss_pred chhhHHHHHHHHHHHcCCCeEEEEEeCCCCh---hHHHHHHhhCCC--CCCCeEEEEecCC
Q 038944 244 MDKNYEMKKIILHEYLMTKRYLNVIDDVWNI---EVCDIIREILPD--NQNRSRVLITLTE 299 (334)
Q Consensus 244 ~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~---~~w~~l~~~l~~--~~~gsrIivTTr~ 299 (334)
...+.+.+. .-=+|+|||+... ..|......+-+ ...|.+||+|+..
T Consensus 88 --------~~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~ 139 (219)
T PF00308_consen 88 --------IEEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDR 139 (219)
T ss_dssp --------HHHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS
T ss_pred --------chhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCC
Confidence 112333333 2347899999643 334333222211 1346789999853
No 95
>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=97.29 E-value=0.0021 Score=66.78 Aligned_cols=53 Identities=19% Similarity=0.343 Sum_probs=41.0
Q ss_pred CCCeeechhhHHHHHHHHhc----CCCCceEEEEEccCCccHHHHHHHHHccCCCCCce
Q 038944 155 SRDTVGLDDRMEELLDLLIE----GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF 209 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~----~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F 209 (334)
..+++|.++.++.+.+++.. ...+.+++.++|++|+|||++|+.+.+ ....+|
T Consensus 319 ~~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~--~l~~~~ 375 (775)
T TIGR00763 319 DEDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAK--ALNRKF 375 (775)
T ss_pred hhhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHH--HhcCCe
Confidence 44588999999999987752 223345899999999999999999998 444444
No 96
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.27 E-value=0.003 Score=59.83 Aligned_cols=45 Identities=18% Similarity=0.203 Sum_probs=37.8
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+...+.+.+.+..+. -.+.+-++|++|+||||+|+.+.+
T Consensus 17 ~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~ 61 (367)
T PRK14970 17 DDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILAR 61 (367)
T ss_pred HhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence 467899999999999987643 345788999999999999999876
No 97
>PHA00729 NTP-binding motif containing protein
Probab=97.27 E-value=0.0016 Score=56.99 Aligned_cols=23 Identities=22% Similarity=0.281 Sum_probs=20.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...|.|.|.+|+||||||..+.+
T Consensus 17 f~nIlItG~pGvGKT~LA~aLa~ 39 (226)
T PHA00729 17 FVSAVIFGKQGSGKTTYALKVAR 39 (226)
T ss_pred eEEEEEECCCCCCHHHHHHHHHH
Confidence 45788999999999999999987
No 98
>PRK09183 transposase/IS protein; Provisional
Probab=97.26 E-value=0.00067 Score=61.06 Aligned_cols=22 Identities=23% Similarity=0.226 Sum_probs=19.6
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..+.|+|.+|+|||+||..+.+
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~ 124 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGY 124 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHH
Confidence 4677999999999999999976
No 99
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.25 E-value=0.0023 Score=67.12 Aligned_cols=47 Identities=13% Similarity=0.276 Sum_probs=37.7
Q ss_pred CCCeeechhhHHHHHHHHhc-------CCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIE-------GPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++|.+..++.+...+.. .+.+..++.++|+.|+|||+||+.+.+
T Consensus 567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~ 620 (857)
T PRK10865 567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALAN 620 (857)
T ss_pred CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence 44688999998888888763 123345788999999999999999987
No 100
>PRK06526 transposase; Provisional
Probab=97.25 E-value=0.00046 Score=61.90 Aligned_cols=24 Identities=25% Similarity=0.070 Sum_probs=20.6
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..-+.++|++|+|||+||..+.+.
T Consensus 98 ~~nlll~Gp~GtGKThLa~al~~~ 121 (254)
T PRK06526 98 KENVVFLGPPGTGKTHLAIGLGIR 121 (254)
T ss_pred CceEEEEeCCCCchHHHHHHHHHH
Confidence 346899999999999999998763
No 101
>PRK06921 hypothetical protein; Provisional
Probab=97.25 E-value=0.0011 Score=59.86 Aligned_cols=37 Identities=16% Similarity=0.075 Sum_probs=27.3
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCc-eeeEEEEEc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHY-FDCHAWVPG 217 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~-F~~~~wv~v 217 (334)
..-+.++|..|+|||+|+..+.+. +... -..++|++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~--l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANE--LMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHH--HhhhcCceEEEEEH
Confidence 467899999999999999999983 3332 234566653
No 102
>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=97.23 E-value=0.00025 Score=55.71 Aligned_cols=22 Identities=27% Similarity=0.351 Sum_probs=20.3
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
||.|.|++|+||||+|+.+.+.
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 6899999999999999999873
No 103
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.23 E-value=0.0046 Score=61.84 Aligned_cols=152 Identities=12% Similarity=0.021 Sum_probs=80.0
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH--
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF-- 233 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~-- 233 (334)
.+++|.+..++.|.+++..+. -...+-++|+.|+||||+|+.+.+...-..... ..+|+.-..-+.|...
T Consensus 13 ~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-------~~pCg~C~~C~~i~~~~~ 84 (584)
T PRK14952 13 AEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSLNCAQGPT-------ATPCGVCESCVALAPNGP 84 (584)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-------CCcccccHHHHHhhcccC
Confidence 468999999999999987653 234568899999999999998886321111000 0011111111111100
Q ss_pred -------hCCCCCccccchhhHHHHHHHHHHH-cCCCeEEEEEeCCC--ChhHHHHHHhhCCCCCCCeEEE-EecCChHH
Q 038944 234 -------LMPSSRLSEIMDKNYEMKKIILHEY-LMTKRYLNVIDDVW--NIEVCDIIREILPDNQNRSRVL-ITLTEIKM 302 (334)
Q Consensus 234 -------~~~~~~~~~~~~~~~~~l~~~l~~~-L~~kr~LlVlDdvw--~~~~w~~l~~~l~~~~~gsrIi-vTTr~~~v 302 (334)
+...... ...+.. ++.+.+... ..+++-++|+|++. +....+.|+..+..-.....+| +||....+
T Consensus 85 ~~~dvieidaas~~-gvd~iR--el~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kl 161 (584)
T PRK14952 85 GSIDVVELDAASHG-GVDDTR--ELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKV 161 (584)
T ss_pred CCceEEEecccccc-CHHHHH--HHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhh
Confidence 0000000 011111 333333221 23566688999986 4468888888876544456555 45555555
Q ss_pred Hhhcccc-CcccccccC
Q 038944 303 FTFLLET-LFSLLICVS 318 (334)
Q Consensus 303 a~~~~~~-~~~~l~~l~ 318 (334)
-..+.+. ..+.+..++
T Consensus 162 l~TI~SRc~~~~F~~l~ 178 (584)
T PRK14952 162 LPTIRSRTHHYPFRLLP 178 (584)
T ss_pred HHHHHHhceEEEeeCCC
Confidence 5443332 334444443
No 104
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=97.22 E-value=0.0012 Score=64.24 Aligned_cols=120 Identities=14% Similarity=0.140 Sum_probs=61.5
Q ss_pred eeechhh--HHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCcee--eEEEEEcCCCCCHHHHHHHHHHH
Q 038944 158 TVGLDDR--MEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFD--CHAWVPGTYPYDADQMLDIVIKF 233 (334)
Q Consensus 158 ~vGr~~~--~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~il~~il~~ 233 (334)
++|.... ......+....+....-+.|+|.+|+|||+|++.+.+. +...+. ...+++ ...+...+...
T Consensus 125 v~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~v~yi~------~~~~~~~~~~~ 196 (450)
T PRK00149 125 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNY--ILEKNPNAKVVYVT------SEKFTNDFVNA 196 (450)
T ss_pred ccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEEE------HHHHHHHHHHH
Confidence 4564433 22333333332333456899999999999999999984 333332 234443 33445555554
Q ss_pred hCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh---hHH-HHHHhhCCC-CCCCeEEEEecCC
Q 038944 234 LMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI---EVC-DIIREILPD-NQNRSRVLITLTE 299 (334)
Q Consensus 234 ~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~---~~w-~~l~~~l~~-~~~gsrIivTTr~ 299 (334)
+.... .. .+.. .++ +--+|+|||+... ..+ +.+...|.. ...|..||+||..
T Consensus 197 ~~~~~-------~~--~~~~----~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~ 253 (450)
T PRK00149 197 LRNNT-------ME--EFKE----KYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDR 253 (450)
T ss_pred HHcCc-------HH--HHHH----HHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCC
Confidence 43211 01 2322 332 2348999999532 111 223322211 1234557777764
No 105
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=97.22 E-value=0.0012 Score=64.14 Aligned_cols=102 Identities=16% Similarity=0.239 Sum_probs=57.0
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCCCCCce--eeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHH
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF--DCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIIL 255 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l 255 (334)
...-+.|+|..|+|||+|++.+.+. +.... ...+++ +..+++..+...+.... .....+
T Consensus 140 ~~npl~i~G~~G~GKTHLl~Ai~~~--l~~~~~~~~v~yv------~~~~f~~~~~~~l~~~~-----------~~~~~~ 200 (450)
T PRK14087 140 SYNPLFIYGESGMGKTHLLKAAKNY--IESNFSDLKVSYM------SGDEFARKAVDILQKTH-----------KEIEQF 200 (450)
T ss_pred ccCceEEECCCCCcHHHHHHHHHHH--HHHhCCCCeEEEE------EHHHHHHHHHHHHHHhh-----------hHHHHH
Confidence 3456899999999999999999883 22111 122344 34567777766654311 112233
Q ss_pred HHHcCCCeEEEEEeCCCCh---hHH-HHHHhhCCC-CCCCeEEEEecCC
Q 038944 256 HEYLMTKRYLNVIDDVWNI---EVC-DIIREILPD-NQNRSRVLITLTE 299 (334)
Q Consensus 256 ~~~L~~kr~LlVlDdvw~~---~~w-~~l~~~l~~-~~~gsrIivTTr~ 299 (334)
.+.+. +.-+|+|||+-.. ..| +.+...+.. ...|..||+|+..
T Consensus 201 ~~~~~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~ 248 (450)
T PRK14087 201 KNEIC-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDK 248 (450)
T ss_pred HHHhc-cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCC
Confidence 34343 3348899999532 222 233333321 1235568888654
No 106
>PRK06620 hypothetical protein; Validated
Probab=97.21 E-value=0.00072 Score=59.07 Aligned_cols=23 Identities=13% Similarity=-0.047 Sum_probs=20.8
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..+.|+|++|+|||+|++.+.+.
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~~~~ 67 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIWQNL 67 (214)
T ss_pred ceEEEECCCCCCHHHHHHHHHhc
Confidence 56899999999999999998874
No 107
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=97.21 E-value=0.00097 Score=53.87 Aligned_cols=21 Identities=14% Similarity=0.284 Sum_probs=19.5
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
||.++|++|+||||+|+.+..
T Consensus 1 lii~~G~pgsGKSt~a~~l~~ 21 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAK 21 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 678999999999999999986
No 108
>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=97.21 E-value=0.0091 Score=50.84 Aligned_cols=40 Identities=10% Similarity=0.163 Sum_probs=28.0
Q ss_pred CCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEEecCCh
Q 038944 261 TKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLITLTEI 300 (334)
Q Consensus 261 ~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIivTTr~~ 300 (334)
+.+-++|+|++.. .+.++.+...+......+.+|++|++.
T Consensus 95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~ 136 (188)
T TIGR00678 95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSP 136 (188)
T ss_pred CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence 5667899999854 456788888876655566677766543
No 109
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=97.20 E-value=0.0015 Score=57.44 Aligned_cols=97 Identities=11% Similarity=-0.004 Sum_probs=54.8
Q ss_pred HHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH----hCCCCCccccchh
Q 038944 171 LLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF----LMPSSRLSEIMDK 246 (334)
Q Consensus 171 ~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~----~~~~~~~~~~~~~ 246 (334)
+|..+=+.-.++.|+|.+|+|||+++.++.... ...-..++|++.. .++...+. ++... +.....-....+.
T Consensus 15 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~--~~~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~ 90 (225)
T PRK09361 15 LLGGGFERGTITQIYGPPGSGKTNICLQLAVEA--AKNGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEPSSF 90 (225)
T ss_pred HhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeCCCH
Confidence 333333456799999999999999998887632 1223567888876 66665543 23322 1000000001111
Q ss_pred -hHHHHHHHHHHHcCCCeEEEEEeCC
Q 038944 247 -NYEMKKIILHEYLMTKRYLNVIDDV 271 (334)
Q Consensus 247 -~~~~l~~~l~~~L~~kr~LlVlDdv 271 (334)
.+......+...+..+--++|+|.+
T Consensus 91 ~~~~~~i~~~~~~~~~~~~lvVIDsi 116 (225)
T PRK09361 91 EEQSEAIRKAEKLAKENVGLIVLDSA 116 (225)
T ss_pred HHHHHHHHHHHHHHHhcccEEEEeCc
Confidence 1113444455555466679999998
No 110
>PRK05541 adenylylsulfate kinase; Provisional
Probab=97.19 E-value=0.0023 Score=53.91 Aligned_cols=36 Identities=19% Similarity=0.216 Sum_probs=27.3
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEE
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWV 215 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv 215 (334)
+..+|.+.|+.|+||||+|+.+++ ....++....++
T Consensus 6 ~~~~I~i~G~~GsGKst~a~~l~~--~l~~~~~~~~~~ 41 (176)
T PRK05541 6 NGYVIWITGLAGSGKTTIAKALYE--RLKLKYSNVIYL 41 (176)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHH--HHHHcCCcEEEE
Confidence 456999999999999999999998 444444444444
No 111
>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=97.18 E-value=0.0025 Score=56.27 Aligned_cols=95 Identities=9% Similarity=0.058 Sum_probs=57.5
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCc----eeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc-------ccch
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHY----FDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS-------EIMD 245 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~-------~~~~ 245 (334)
+.-.++.|+|.+|+|||+|+.++.-....... ...++|++....++..++.+ +++..+...... ...+
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~~~~ 95 (235)
T cd01123 17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ-IAERFGLDPEEVLDNIYVARAYN 95 (235)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH-HHHHhccChHhHhcCEEEEecCC
Confidence 45679999999999999999988643222221 35788999888887665543 334433221100 0011
Q ss_pred -hhHHHHHHHHHHHc-CC-CeEEEEEeCCC
Q 038944 246 -KNYEMKKIILHEYL-MT-KRYLNVIDDVW 272 (334)
Q Consensus 246 -~~~~~l~~~l~~~L-~~-kr~LlVlDdvw 272 (334)
..+..+...+.+.+ +. +--|||+|.+.
T Consensus 96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSis 125 (235)
T cd01123 96 SDHQLQLLEELEAILIESSRIKLVIVDSVT 125 (235)
T ss_pred HHHHHHHHHHHHHHHhhcCCeeEEEEeCcH
Confidence 11124445555555 33 66799999995
No 112
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=97.18 E-value=0.0048 Score=61.92 Aligned_cols=47 Identities=15% Similarity=0.166 Sum_probs=38.5
Q ss_pred CCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 154 KSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 154 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.-.+++|.+..++.|.+++..+. -..-+-++|+.|+||||+|+.+.+
T Consensus 22 ~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk 68 (598)
T PRK09111 22 TFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILAR 68 (598)
T ss_pred CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHH
Confidence 34568999999999999887653 234677899999999999999976
No 113
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.17 E-value=0.012 Score=57.89 Aligned_cols=45 Identities=11% Similarity=0.082 Sum_probs=36.6
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+.-+..|.+++..+. -....-++|+.|+||||+|+.+..
T Consensus 16 ~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk 60 (486)
T PRK14953 16 KEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAK 60 (486)
T ss_pred HHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence 468899999999999887653 234566799999999999998876
No 114
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.17 E-value=0.0023 Score=67.06 Aligned_cols=45 Identities=16% Similarity=0.279 Sum_probs=37.6
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++||+.+++++++.|.....+ -+-++|.+|+|||++|+.+...
T Consensus 178 ~~vigr~~ei~~~i~iL~r~~~~--n~lL~G~pGvGKT~l~~~la~~ 222 (857)
T PRK10865 178 DPVIGRDEEIRRTIQVLQRRTKN--NPVLIGEPGVGKTAIVEGLAQR 222 (857)
T ss_pred CcCCCCHHHHHHHHHHHhcCCcC--ceEEECCCCCCHHHHHHHHHHH
Confidence 45899999999999999876532 3458999999999999988873
No 115
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=0.0024 Score=63.63 Aligned_cols=104 Identities=19% Similarity=0.181 Sum_probs=66.5
Q ss_pred CCCCCeeechhhHHHHHHHHhc----CCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIE----GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLD 228 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~----~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~ 228 (334)
.-+.+-+|+++-+++|++++.- ++.+-+++..+|++|+|||.+|+.|.. .....|-. ++|+.-.|+.+|
T Consensus 408 iLdeDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~--ALnRkFfR---fSvGG~tDvAeI-- 480 (906)
T KOG2004|consen 408 ILDEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIAR--ALNRKFFR---FSVGGMTDVAEI-- 480 (906)
T ss_pred hhcccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHH--HhCCceEE---EeccccccHHhh--
Confidence 4455668999999999999864 345678999999999999999999998 55555522 344544444332
Q ss_pred HHHHHhCCCCCc-cccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC
Q 038944 229 IVIKFLMPSSRL-SEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN 273 (334)
Q Consensus 229 ~il~~~~~~~~~-~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~ 273 (334)
.+.... .+.|.- .+...|+ ..+...-|+.||.|..
T Consensus 481 ------kGHRRTYVGAMPG---kiIq~LK-~v~t~NPliLiDEvDK 516 (906)
T KOG2004|consen 481 ------KGHRRTYVGAMPG---KIIQCLK-KVKTENPLILIDEVDK 516 (906)
T ss_pred ------cccceeeeccCCh---HHHHHHH-hhCCCCceEEeehhhh
Confidence 121110 012221 2333332 3355667889999864
No 116
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=97.15 E-value=0.0012 Score=64.03 Aligned_cols=99 Identities=8% Similarity=0.096 Sum_probs=53.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY 258 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~ 258 (334)
..-+.|+|..|+|||+|++.+.+. +.......++++ ...+...+...+... . ...++..
T Consensus 141 ~npl~L~G~~G~GKTHLl~Ai~~~--l~~~~~~v~yi~------~~~f~~~~~~~l~~~------------~-~~~f~~~ 199 (445)
T PRK12422 141 FNPIYLFGPEGSGKTHLMQAAVHA--LRESGGKILYVR------SELFTEHLVSAIRSG------------E-MQRFRQF 199 (445)
T ss_pred CceEEEEcCCCCCHHHHHHHHHHH--HHHcCCCEEEee------HHHHHHHHHHHHhcc------------h-HHHHHHH
Confidence 456889999999999999999984 222212234443 344555555544321 1 1123333
Q ss_pred cCCCeEEEEEeCCCChh---H-HHHHHhhCCC-CCCCeEEEEecCC
Q 038944 259 LMTKRYLNVIDDVWNIE---V-CDIIREILPD-NQNRSRVLITLTE 299 (334)
Q Consensus 259 L~~kr~LlVlDdvw~~~---~-w~~l~~~l~~-~~~gsrIivTTr~ 299 (334)
+. +.-+|++||+-... . -+.+...+.. ...|..||+||..
T Consensus 200 ~~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~ 244 (445)
T PRK12422 200 YR-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTC 244 (445)
T ss_pred cc-cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCC
Confidence 33 33488899984321 1 1222222210 1135568888754
No 117
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.0023 Score=63.89 Aligned_cols=55 Identities=16% Similarity=0.277 Sum_probs=45.1
Q ss_pred CCCCCeeechhhHHHHHHHHhc----CCCCceEEEEEccCCccHHHHHHHHHccCCCCCce
Q 038944 153 SKSRDTVGLDDRMEELLDLLIE----GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF 209 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~----~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F 209 (334)
.-+.+-+|.++.+++|++.|.- +.-.-+++..||++|+|||.|++.|.+ .....|
T Consensus 320 iLd~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkf 378 (782)
T COG0466 320 ILDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKF 378 (782)
T ss_pred HhcccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCE
Confidence 4455668999999999999963 233457999999999999999999998 666666
No 118
>PRK08939 primosomal protein DnaI; Reviewed
Probab=97.15 E-value=0.0013 Score=60.59 Aligned_cols=118 Identities=12% Similarity=0.077 Sum_probs=65.4
Q ss_pred echhhHHHHHHHHhcCC--CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 038944 160 GLDDRMEELLDLLIEGP--PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPS 237 (334)
Q Consensus 160 Gr~~~~~~l~~~L~~~~--~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~ 237 (334)
++........+++..-. ...+-+.++|..|+|||.||..+.+... ...+ .+.++++ ..++.++-......
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~-~v~~~~~------~~l~~~lk~~~~~~ 206 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA-KKGV-SSTLLHF------PEFIRELKNSISDG 206 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH-HcCC-CEEEEEH------HHHHHHHHHHHhcC
Confidence 34444445555655321 2346789999999999999999998432 2223 3455544 35666665544221
Q ss_pred CCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh--hHHH--HHHhhC-CCC-CCCeEEEEecCC
Q 038944 238 SRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI--EVCD--IIREIL-PDN-QNRSRVLITLTE 299 (334)
Q Consensus 238 ~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~--~~w~--~l~~~l-~~~-~~gsrIivTTr~ 299 (334)
.+...+.. + .+-=||||||+-.+ ..|. .+...+ ... ..+-..|+||-.
T Consensus 207 ------------~~~~~l~~-l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl 260 (306)
T PRK08939 207 ------------SVKEKIDA-V-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF 260 (306)
T ss_pred ------------cHHHHHHH-h-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence 11122222 2 24569999999643 4564 344433 221 134447777764
No 119
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.14 E-value=0.0022 Score=57.98 Aligned_cols=148 Identities=12% Similarity=0.131 Sum_probs=84.8
Q ss_pred CCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEE-EEcCCCCCHHHHHHHHHH
Q 038944 154 KSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAW-VPGTYPYDADQMLDIVIK 232 (334)
Q Consensus 154 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~w-v~vs~~~~~~~il~~il~ 232 (334)
.-.+++|.+..+.-|.+.+.. ...++.-.+|++|.|||+-|......---.+.|.|++- .++|..-... +-+.
T Consensus 34 t~de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr~--- 107 (346)
T KOG0989|consen 34 TFDELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVRE--- 107 (346)
T ss_pred cHHhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chhh---
Confidence 345688999889999888887 34778899999999999988777653222456777653 3444433211 0000
Q ss_pred HhCCCCCccccchhhHHHHHHHHHHHc--CCCeE-EEEEeCCCC--hhHHHHHHhhCCCCCCCeEE-EEecCChHHHhhc
Q 038944 233 FLMPSSRLSEIMDKNYEMKKIILHEYL--MTKRY-LNVIDDVWN--IEVCDIIREILPDNQNRSRV-LITLTEIKMFTFL 306 (334)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~l~~~l~~~L--~~kr~-LlVlDdvw~--~~~w~~l~~~l~~~~~gsrI-ivTTr~~~va~~~ 306 (334)
...+.. .+........ ..+.| .+|||++.. .+.|..++..+-+-...+|. +||+.-..+....
T Consensus 108 ---------Kik~fa--kl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi 176 (346)
T KOG0989|consen 108 ---------KIKNFA--KLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPL 176 (346)
T ss_pred ---------hhcCHH--HHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHH
Confidence 000000 1111111111 12333 677999875 48999999888765556664 4555444433333
Q ss_pred ccc-CcccccccC
Q 038944 307 LET-LFSLLICVS 318 (334)
Q Consensus 307 ~~~-~~~~l~~l~ 318 (334)
.+. ..+++..|.
T Consensus 177 ~SRC~KfrFk~L~ 189 (346)
T KOG0989|consen 177 VSRCQKFRFKKLK 189 (346)
T ss_pred HhhHHHhcCCCcc
Confidence 222 234444555
No 120
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.14 E-value=0.0028 Score=65.51 Aligned_cols=45 Identities=18% Similarity=0.268 Sum_probs=37.4
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++||+++.+++++.|..... .-+-++|.+|+|||++|+.+...
T Consensus 182 ~~~igr~~ei~~~~~~L~~~~~--~n~lL~G~pG~GKT~l~~~la~~ 226 (731)
T TIGR02639 182 DPLIGREDELERTIQVLCRRKK--NNPLLVGEPGVGKTAIAEGLALR 226 (731)
T ss_pred CcccCcHHHHHHHHHHHhcCCC--CceEEECCCCCCHHHHHHHHHHH
Confidence 4689999999999999977542 23468999999999999999873
No 121
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.13 E-value=0.0017 Score=65.27 Aligned_cols=50 Identities=12% Similarity=0.104 Sum_probs=40.7
Q ss_pred CCCCCeeechhhHHHHHHHHhcCC---CCceEEEEEccCCccHHHHHHHHHcc
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEGP---PQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~~---~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..-.+++|.++.++++..||.... ..-.++.++|++|+||||+++.+.+.
T Consensus 81 ~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~ 133 (637)
T TIGR00602 81 ETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE 133 (637)
T ss_pred CCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 345678999999999999987532 23467999999999999999999973
No 122
>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=97.12 E-value=0.0019 Score=55.96 Aligned_cols=92 Identities=10% Similarity=0.021 Sum_probs=54.1
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCC-Ccc---ccch-hhHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSS-RLS---EIMD-KNYEMK 251 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~-~~~---~~~~-~~~~~l 251 (334)
+.-.++-|+|.+|+|||+++..+... .......++|++... ++...+.+. .+...... ... ...+ .++...
T Consensus 10 ~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~ 85 (209)
T TIGR02237 10 ERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQI-AEDRPERALSNFIVFEVFDFDEQGVA 85 (209)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHHH-HHhChHHHhcCEEEEECCCHHHHHHH
Confidence 45689999999999999999887653 222345788998865 776665543 33221000 000 0011 111134
Q ss_pred HHHHHHHcCC-CeEEEEEeCCC
Q 038944 252 KIILHEYLMT-KRYLNVIDDVW 272 (334)
Q Consensus 252 ~~~l~~~L~~-kr~LlVlDdvw 272 (334)
...+.+.+.. +--+||+|.+-
T Consensus 86 ~~~l~~~~~~~~~~lvVIDSis 107 (209)
T TIGR02237 86 IQKTSKFIDRDSASLVVVDSFT 107 (209)
T ss_pred HHHHHHHHhhcCccEEEEeCcH
Confidence 5555555543 45589999984
No 123
>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=97.11 E-value=0.0016 Score=58.64 Aligned_cols=101 Identities=11% Similarity=0.161 Sum_probs=59.0
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCcee-eEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh----hH--H
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFD-CHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK----NY--E 249 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~-~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~----~~--~ 249 (334)
.-++|+|..|+|||||++.+++ .++.+|. .++++.+.+.. .+.++..++.+.-..+.... ...+. .+ -
T Consensus 70 Qr~~If~~~G~GKTtLa~~i~~--~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~ 147 (274)
T cd01133 70 GKIGLFGGAGVGKTVLIMELIN--NIAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVA 147 (274)
T ss_pred CEEEEecCCCCChhHHHHHHHH--HHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence 3589999999999999999999 4444453 45667777654 45566666654321110000 00000 00 0
Q ss_pred HHHHHHHHHc--C-CCeEEEEEeCCCCh-hHHHHHHh
Q 038944 250 MKKIILHEYL--M-TKRYLNVIDDVWNI-EVCDIIRE 282 (334)
Q Consensus 250 ~l~~~l~~~L--~-~kr~LlVlDdvw~~-~~w~~l~~ 282 (334)
...-.+-+++ + |+..|+++||+-.- ..+.++..
T Consensus 148 ~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a~A~reis~ 184 (274)
T cd01133 148 LTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSA 184 (274)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEeChhHHHHHHHHHHH
Confidence 2233445555 3 89999999999432 44444443
No 124
>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=97.10 E-value=0.00054 Score=63.92 Aligned_cols=47 Identities=13% Similarity=0.333 Sum_probs=40.5
Q ss_pred CCeeechhhHHHHHHHHhcC----CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEG----PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~----~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|.++.++++++++... +...+++.++|++|+||||||+.+.+.
T Consensus 51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~ 101 (361)
T smart00763 51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRG 101 (361)
T ss_pred hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 36999999999999999752 335689999999999999999999874
No 125
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.10 E-value=0.0017 Score=67.97 Aligned_cols=45 Identities=16% Similarity=0.298 Sum_probs=37.6
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++||+++.++++++|.....+ -+.++|.+|+|||++|+.+...
T Consensus 179 ~~~igr~~ei~~~~~~L~r~~~~--n~lL~G~pGvGKTal~~~la~~ 223 (821)
T CHL00095 179 DPVIGREKEIERVIQILGRRTKN--NPILIGEPGVGKTAIAEGLAQR 223 (821)
T ss_pred CCCCCcHHHHHHHHHHHcccccC--CeEEECCCCCCHHHHHHHHHHH
Confidence 45899999999999999876432 3459999999999999988763
No 126
>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=97.08 E-value=0.0017 Score=56.03 Aligned_cols=112 Identities=11% Similarity=0.058 Sum_probs=62.5
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcC-CCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGT-YPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY 258 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~ 258 (334)
.++.|+|+.|+||||++..+... ...+...++++--. .++.... ...++.+-.. ..+.. .....+...
T Consensus 2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t~e~~~E~~~~~-~~~~i~q~~v------g~~~~--~~~~~i~~a 70 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILTIEDPIEFVHES-KRSLINQREV------GLDTL--SFENALKAA 70 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEEEcCCccccccC-ccceeeeccc------CCCcc--CHHHHHHHH
Confidence 47899999999999999987763 32233334433211 1111000 0011111000 01112 445566666
Q ss_pred cCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHHhh
Q 038944 259 LMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMFTF 305 (334)
Q Consensus 259 L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~~ 305 (334)
|....=++++|++.+.+.+..+.... ..|-.++.|+...+++..
T Consensus 71 Lr~~pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~Ha~~~~~~ 114 (198)
T cd01131 71 LRQDPDVILVGEMRDLETIRLALTAA---ETGHLVMSTLHTNSAAKT 114 (198)
T ss_pred hcCCcCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEecCCcHHHH
Confidence 76556699999998887666544443 235558888887776554
No 127
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=97.06 E-value=0.0018 Score=61.37 Aligned_cols=120 Identities=18% Similarity=0.086 Sum_probs=66.2
Q ss_pred CCeeechhhHHHHH-HHHhc-CCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH
Q 038944 156 RDTVGLDDRMEELL-DLLIE-GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF 233 (334)
Q Consensus 156 ~~~vGr~~~~~~l~-~~L~~-~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~ 233 (334)
+-++|-......-. ..+.. .......+.|+|..|.|||.|++.+.+ ....+......++++. .......+..
T Consensus 88 nFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign--~~~~~~~~a~v~y~~s----e~f~~~~v~a 161 (408)
T COG0593 88 NFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGN--EALANGPNARVVYLTS----EDFTNDFVKA 161 (408)
T ss_pred heeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHH--HHHhhCCCceEEeccH----HHHHHHHHHH
Confidence 33556554443322 22222 223578999999999999999999999 4444554333444432 3333333333
Q ss_pred hCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh-------hHHHHHHhhCCCCCCCeEEEEecC
Q 038944 234 LMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI-------EVCDIIREILPDNQNRSRVLITLT 298 (334)
Q Consensus 234 ~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~-------~~w~~l~~~l~~~~~gsrIivTTr 298 (334)
+.. .-+..+++.. .-=++++||++-- +.+..+...+.. .|..||+|++
T Consensus 162 ~~~-------------~~~~~Fk~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~--~~kqIvltsd 216 (408)
T COG0593 162 LRD-------------NEMEKFKEKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLE--NGKQIVLTSD 216 (408)
T ss_pred HHh-------------hhHHHHHHhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHh--cCCEEEEEcC
Confidence 222 2233444544 3348899999642 222233333333 3448999985
No 128
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=97.06 E-value=0.0021 Score=64.09 Aligned_cols=99 Identities=10% Similarity=0.159 Sum_probs=53.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCce--eeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYF--DCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILH 256 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F--~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~ 256 (334)
...+.|+|..|+|||.|++.+.+. ....+ ....++ +..+++.++...+... ....+.
T Consensus 314 ~NpL~LyG~sGsGKTHLL~AIa~~--a~~~~~g~~V~Yi------taeef~~el~~al~~~-------------~~~~f~ 372 (617)
T PRK14086 314 YNPLFIYGESGLGKTHLLHAIGHY--ARRLYPGTRVRYV------SSEEFTNEFINSIRDG-------------KGDSFR 372 (617)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEe------eHHHHHHHHHHHHHhc-------------cHHHHH
Confidence 445899999999999999999984 32221 123444 3445555555443321 111222
Q ss_pred HHcCCCeEEEEEeCCCCh---hHHHH-HHhhCCC-CCCCeEEEEecCC
Q 038944 257 EYLMTKRYLNVIDDVWNI---EVCDI-IREILPD-NQNRSRVLITLTE 299 (334)
Q Consensus 257 ~~L~~kr~LlVlDdvw~~---~~w~~-l~~~l~~-~~~gsrIivTTr~ 299 (334)
+.+.. -=+|+|||+... +.|.. +...|.. ..+|..|||||..
T Consensus 373 ~~y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~ 419 (617)
T PRK14086 373 RRYRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDR 419 (617)
T ss_pred HHhhc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCC
Confidence 33322 247899999643 23322 2222211 1235568888875
No 129
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.05 E-value=0.0062 Score=61.32 Aligned_cols=46 Identities=11% Similarity=-0.044 Sum_probs=36.5
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|.+.-+..|.+++..+. -..-+-++|+.|+||||+|+.+.+
T Consensus 15 f~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk 60 (620)
T PRK14954 15 FADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAK 60 (620)
T ss_pred HHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHH
Confidence 3468899988888888886543 234577999999999999988876
No 130
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=97.04 E-value=0.016 Score=60.23 Aligned_cols=55 Identities=13% Similarity=0.235 Sum_probs=43.3
Q ss_pred CCCCCeeechhhHHHHHHHHhc----CCCCceEEEEEccCCccHHHHHHHHHccCCCCCce
Q 038944 153 SKSRDTVGLDDRMEELLDLLIE----GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF 209 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~----~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F 209 (334)
.-+.+.+|.++.+++|+++|.. +..+-.++.++|++|+||||+++.+.. .....|
T Consensus 319 ~l~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~--~l~~~~ 377 (784)
T PRK10787 319 ILDTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAK--ATGRKY 377 (784)
T ss_pred HhhhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHH--HhCCCE
Confidence 4455689999999999999873 223456899999999999999999997 444444
No 131
>PRK13695 putative NTPase; Provisional
Probab=97.03 E-value=0.00069 Score=57.06 Aligned_cols=34 Identities=9% Similarity=0.040 Sum_probs=24.2
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCceeeEEEE
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWV 215 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv 215 (334)
.++|+|.+|+|||||++.+++.... ..|....|+
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~~l~~-~G~~~~g~~ 35 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAELLKE-EGYKVGGFY 35 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEE
Confidence 4789999999999999998874221 224444454
No 132
>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=97.02 E-value=0.0052 Score=51.95 Aligned_cols=116 Identities=11% Similarity=0.062 Sum_probs=61.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHccC-CC--C---Cceee--EEEEEcCCCCCHHHHHHHHHHHhCCCCC--c--cccchh
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSS-YV--K---HYFDC--HAWVPGTYPYDADQMLDIVIKFLMPSSR--L--SEIMDK 246 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~-~~--~---~~F~~--~~wv~vs~~~~~~~il~~il~~~~~~~~--~--~~~~~~ 246 (334)
-.+++|+|..|+|||||.+.+..+. .+ . ..|.. ..|+ .+ .+.++.++.... . ....+.
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 4589999999999999999986421 11 1 11111 2232 22 355666654321 1 011111
Q ss_pred hHHHHHHHHHHHcCCC--eEEEEEeCCCC---hhHHHHHHhhCCC-CCCCeEEEEecCChHHHhh
Q 038944 247 NYEMKKIILHEYLMTK--RYLNVIDDVWN---IEVCDIIREILPD-NQNRSRVLITLTEIKMFTF 305 (334)
Q Consensus 247 ~~~~l~~~l~~~L~~k--r~LlVlDdvw~---~~~w~~l~~~l~~-~~~gsrIivTTr~~~va~~ 305 (334)
...+... +-..+-.+ .-+++||+.-. ....+.+...+.. ...|..||++|.+.+.+..
T Consensus 91 Gq~qrl~-laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~~ 154 (176)
T cd03238 91 GELQRVK-LASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLSS 154 (176)
T ss_pred HHHHHHH-HHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHh
Confidence 1012333 33444445 56788898743 3333444333322 1246668899998887653
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=97.02 E-value=0.0061 Score=54.94 Aligned_cols=54 Identities=15% Similarity=0.149 Sum_probs=33.5
Q ss_pred HHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHH
Q 038944 165 MEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQML 227 (334)
Q Consensus 165 ~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il 227 (334)
++++..++..+ .-+-+.|.+|+|||+||+.+.. .....| ..++.+...+..+++
T Consensus 11 ~~~~l~~l~~g----~~vLL~G~~GtGKT~lA~~la~--~lg~~~---~~i~~~~~~~~~dll 64 (262)
T TIGR02640 11 TSRALRYLKSG----YPVHLRGPAGTGKTTLAMHVAR--KRDRPV---MLINGDAELTTSDLV 64 (262)
T ss_pred HHHHHHHHhcC----CeEEEEcCCCCCHHHHHHHHHH--HhCCCE---EEEeCCccCCHHHHh
Confidence 34445555443 2455899999999999999987 333333 345555555554443
No 134
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.02 E-value=0.0017 Score=58.25 Aligned_cols=75 Identities=21% Similarity=0.138 Sum_probs=46.3
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHH
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHE 257 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~ 257 (334)
+..-+.++|.+|+|||.||..+-+..- +..+. +.++ +..+++.++....... .....|.+
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~s-v~f~------~~~el~~~Lk~~~~~~------------~~~~~l~~ 163 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAGIS-VLFI------TAPDLLSKLKAAFDEG------------RLEEKLLR 163 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCe-EEEE------EHHHHHHHHHHHHhcC------------chHHHHHH
Confidence 456789999999999999999998533 22233 3444 3456667766555431 12222222
Q ss_pred HcCCCeEEEEEeCCCC
Q 038944 258 YLMTKRYLNVIDDVWN 273 (334)
Q Consensus 258 ~L~~kr~LlVlDdvw~ 273 (334)
.+ .+-=||||||+-.
T Consensus 164 ~l-~~~dlLIiDDlG~ 178 (254)
T COG1484 164 EL-KKVDLLIIDDIGY 178 (254)
T ss_pred Hh-hcCCEEEEecccC
Confidence 22 1234999999954
No 135
>PRK06696 uridine kinase; Validated
Probab=97.01 E-value=0.001 Score=58.51 Aligned_cols=41 Identities=20% Similarity=0.176 Sum_probs=33.6
Q ss_pred chhhHHHHHHHHhc-CCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 161 LDDRMEELLDLLIE-GPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 161 r~~~~~~l~~~L~~-~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
|..-+++|.+.+.. ......+|+|.|.+|+||||||+.+..
T Consensus 3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~ 44 (223)
T PRK06696 3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAE 44 (223)
T ss_pred HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence 55667777777765 345678999999999999999999987
No 136
>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=96.98 E-value=0.0044 Score=50.67 Aligned_cols=40 Identities=10% Similarity=0.072 Sum_probs=28.6
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCC
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYD 222 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~ 222 (334)
++.|+|.+|+||||++..+... ...+-.+.+|+.....+.
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~e~~~~ 40 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALN--IATKGGKVVYVDIEEEIE 40 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHH--HHhcCCEEEEEECCcchH
Confidence 4679999999999999999773 222334567777665543
No 137
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=96.98 E-value=0.0046 Score=63.74 Aligned_cols=48 Identities=13% Similarity=0.165 Sum_probs=39.0
Q ss_pred CCCeeechhhHHHHHHHHhc-------CCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 155 SRDTVGLDDRMEELLDLLIE-------GPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
...++|.+..++.|.+.+.. .+.+...+.++|++|+|||+||+.+...
T Consensus 457 ~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~ 511 (758)
T PRK11034 457 KMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA 511 (758)
T ss_pred cceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHH
Confidence 44689999999999988873 1234567899999999999999999873
No 138
>CHL00176 ftsH cell division protein; Validated
Probab=96.98 E-value=0.0023 Score=64.74 Aligned_cols=49 Identities=18% Similarity=0.255 Sum_probs=34.9
Q ss_pred CCCCeeechhhHHHHHHHH---hcCC-------CCceEEEEEccCCccHHHHHHHHHcc
Q 038944 154 KSRDTVGLDDRMEELLDLL---IEGP-------PQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 154 ~~~~~vGr~~~~~~l~~~L---~~~~-------~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.-.++.|.++.++++.+.+ .... ...+-+.++|++|+|||+||+.+.+.
T Consensus 181 ~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 181 TFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred CHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 3456888877776665543 3221 22456889999999999999999884
No 139
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.98 E-value=0.012 Score=59.18 Aligned_cols=46 Identities=15% Similarity=0.135 Sum_probs=37.2
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|.+.-++.|.+++..+. -...+-++|..|+||||+|+.+.+
T Consensus 15 f~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak 60 (576)
T PRK14965 15 FSDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAK 60 (576)
T ss_pred HHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence 3468999999999999887653 234567899999999999998876
No 140
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=96.98 E-value=0.00037 Score=59.06 Aligned_cols=24 Identities=17% Similarity=0.137 Sum_probs=20.0
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.-+.++|..|+|||.||..+.+.
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~ 70 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANE 70 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHH
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHH
Confidence 356999999999999999999873
No 141
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=96.97 E-value=0.0081 Score=52.61 Aligned_cols=94 Identities=12% Similarity=0.057 Sum_probs=55.3
Q ss_pred cCCCCceEEEEEccCCccHHHHHHHHHccCCCCCce------eeEEEEEcCCCCCHHHHHHHHHHHhCCCCCc----c--
Q 038944 174 EGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF------DCHAWVPGTYPYDADQMLDIVIKFLMPSSRL----S-- 241 (334)
Q Consensus 174 ~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F------~~~~wv~vs~~~~~~~il~~il~~~~~~~~~----~-- 241 (334)
.+=+.-.++.|+|.+|+|||+|+..+..... ..- ..++|+.....++...+. .+.+........ .
T Consensus 14 GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~--~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~ 90 (226)
T cd01393 14 GGIPTGRITEIFGEFGSGKTQLCLQLAVEAQ--LPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYV 90 (226)
T ss_pred CCCcCCcEEEEeCCCCCChhHHHHHHHHHhh--cccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEE
Confidence 3334567999999999999999988865321 122 456888888778776554 333333221110 0
Q ss_pred -ccchhhHHHHHHHHHHHc----CCCeEEEEEeCCC
Q 038944 242 -EIMDKNYEMKKIILHEYL----MTKRYLNVIDDVW 272 (334)
Q Consensus 242 -~~~~~~~~~l~~~l~~~L----~~kr~LlVlDdvw 272 (334)
...+.. ++...+...+ ..+--|+|+|.+.
T Consensus 91 ~~~~~~~--~~~~~l~~~~~~~~~~~~~lvVIDsis 124 (226)
T cd01393 91 ARPYNGE--QQLEIVEELERIMSSGRVDLVVVDSVA 124 (226)
T ss_pred EeCCCHH--HHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence 111222 4444444443 2345599999984
No 142
>PRK07667 uridine kinase; Provisional
Probab=96.94 E-value=0.0013 Score=56.44 Aligned_cols=37 Identities=14% Similarity=0.147 Sum_probs=31.5
Q ss_pred HHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 165 MEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 165 ~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+.+.+.+........+|+|-|.+|+||||+|+.+..
T Consensus 3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~ 39 (193)
T PRK07667 3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKE 39 (193)
T ss_pred HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence 4667777776666678999999999999999999987
No 143
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=96.94 E-value=0.0062 Score=62.14 Aligned_cols=117 Identities=16% Similarity=0.288 Sum_probs=71.8
Q ss_pred CCCeeechhhHHHHHHHHhc-------CCCCceEEEEEccCCccHHHHHHHHHccCCCCCce---eeEEEEEcCCCCCHH
Q 038944 155 SRDTVGLDDRMEELLDLLIE-------GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF---DCHAWVPGTYPYDAD 224 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F---~~~~wv~vs~~~~~~ 224 (334)
...++|.+..+..+.+.+.. ++.+..+...+|+.|||||.||+.+... -| +.-+-+ |+.
T Consensus 490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~-----Lfg~e~aliR~------DMS 558 (786)
T COG0542 490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA-----LFGDEQALIRI------DMS 558 (786)
T ss_pred hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH-----hcCCCccceee------chH
Confidence 44689999999999888763 2356778888999999999999988762 23 222222 333
Q ss_pred HHHHH-HHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeE-EEEEeCCCC--hhHHHHHHhhCCCC
Q 038944 225 QMLDI-VIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRY-LNVIDDVWN--IEVCDIIREILPDN 287 (334)
Q Consensus 225 ~il~~-il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~-LlVlDdvw~--~~~w~~l~~~l~~~ 287 (334)
+.... -.+.+-+..+. -...+ + -..|-+.++.|.| +|.||+|.. ++.++.+...|.++
T Consensus 559 Ey~EkHsVSrLIGaPPG--YVGye--e-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdG 620 (786)
T COG0542 559 EYMEKHSVSRLIGAPPG--YVGYE--E-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDG 620 (786)
T ss_pred HHHHHHHHHHHhCCCCC--Cceec--c-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCC
Confidence 33211 12223222221 11111 2 2344455666777 777899974 57888888888654
No 144
>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=96.94 E-value=0.0044 Score=52.35 Aligned_cols=24 Identities=13% Similarity=0.093 Sum_probs=21.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||++.+..-
T Consensus 28 Ge~~~i~G~nGsGKStLl~~l~G~ 51 (178)
T cd03247 28 GEKIALLGRSGSGKSTLLQLLTGD 51 (178)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcc
Confidence 358999999999999999999864
No 145
>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=96.94 E-value=0.0031 Score=66.06 Aligned_cols=45 Identities=18% Similarity=0.337 Sum_probs=37.7
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++||+.++.++++.|.....+ -+-++|.+|+||||+|+.+...
T Consensus 187 d~~iGr~~ei~~~i~~l~r~~~~--n~lLvG~pGvGKTal~~~La~~ 231 (852)
T TIGR03345 187 DPVLGRDDEIRQMIDILLRRRQN--NPILTGEAGVGKTAVVEGLALR 231 (852)
T ss_pred CcccCCHHHHHHHHHHHhcCCcC--ceeEECCCCCCHHHHHHHHHHH
Confidence 46899999999999999876422 3459999999999999998873
No 146
>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=96.93 E-value=0.016 Score=57.84 Aligned_cols=50 Identities=18% Similarity=0.138 Sum_probs=40.2
Q ss_pred CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.....++|....+.++.+.+..-...-.-|.|+|..|+|||++|+.+++.
T Consensus 193 ~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~ 242 (534)
T TIGR01817 193 GKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYL 242 (534)
T ss_pred CccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHh
Confidence 44567999999999998888653323345679999999999999999985
No 147
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.91 E-value=0.021 Score=57.63 Aligned_cols=46 Identities=13% Similarity=0.096 Sum_probs=37.2
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|.+...+.|..++..+. -...+-++|..|+||||+|+.+..
T Consensus 16 f~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk 61 (614)
T PRK14971 16 FESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAK 61 (614)
T ss_pred HHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHH
Confidence 3468999999999999987653 234578999999999999988765
No 148
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=96.90 E-value=0.0044 Score=63.89 Aligned_cols=44 Identities=16% Similarity=0.244 Sum_probs=36.8
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..++||+++++++++.|..... .-+-++|.+|+|||++|+.+..
T Consensus 186 ~~liGR~~ei~~~i~iL~r~~~--~n~LLvGppGvGKT~lae~la~ 229 (758)
T PRK11034 186 DPLIGREKELERAIQVLCRRRK--NNPLLVGESGVGKTAIAEGLAW 229 (758)
T ss_pred CcCcCCCHHHHHHHHHHhccCC--CCeEEECCCCCCHHHHHHHHHH
Confidence 4589999999999999987532 2235799999999999999886
No 149
>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=96.86 E-value=0.0028 Score=62.53 Aligned_cols=48 Identities=21% Similarity=0.322 Sum_probs=33.9
Q ss_pred CCCeeechhhHHHHHHHHh---cC-------CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 155 SRDTVGLDDRMEELLDLLI---EG-------PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~---~~-------~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|.+..++++.+++. .. ....+-+-++|++|+|||+||+.+.+.
T Consensus 54 ~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 54 FKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred HHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 3457888877766655443 21 122345788999999999999999984
No 150
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=96.84 E-value=0.0032 Score=54.34 Aligned_cols=52 Identities=17% Similarity=0.106 Sum_probs=31.8
Q ss_pred echhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEE
Q 038944 160 GLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWV 215 (334)
Q Consensus 160 Gr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv 215 (334)
.+..+-...++.|.. ..++.+.|++|.|||.||-...-+.-...+|+..+++
T Consensus 4 p~~~~Q~~~~~al~~----~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~ 55 (205)
T PF02562_consen 4 PKNEEQKFALDALLN----NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIIT 55 (205)
T ss_dssp --SHHHHHHHHHHHH-----SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEE
T ss_pred CCCHHHHHHHHHHHh----CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEE
Confidence 345556667777773 4599999999999999997665432223556665555
No 151
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.83 E-value=0.016 Score=58.04 Aligned_cols=46 Identities=13% Similarity=0.081 Sum_probs=36.2
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|.+..+..|.+.+..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~dIiGQe~v~~~L~~ai~~~r-i~ha~Lf~GPpG~GKTtiArilAk~ 61 (624)
T PRK14959 16 AEVAGQETVKAILSRAAQENR-VAPAYLFSGTRGVGKTTIARIFAKA 61 (624)
T ss_pred HHhcCCHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHh
Confidence 457898888888888776542 2356778999999999999988873
No 152
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=96.82 E-value=0.0015 Score=58.47 Aligned_cols=47 Identities=21% Similarity=0.273 Sum_probs=38.5
Q ss_pred CCeeechhhHHHHHHHHhc---CCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIE---GPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~---~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|.++-++++-=++.. .+..+.-+-++|++|.||||||..+.+.
T Consensus 26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~E 75 (332)
T COG2255 26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANE 75 (332)
T ss_pred HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHH
Confidence 4689988888887666653 3456888999999999999999999993
No 153
>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=96.82 E-value=0.022 Score=52.70 Aligned_cols=145 Identities=14% Similarity=0.074 Sum_probs=86.9
Q ss_pred hhhHHHHHHHHhcCC-CCceEEEEEccCCccHHHHHHHHHccCCCC--Cc---eeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 162 DDRMEELLDLLIEGP-PQLSVVVILDSIGLDKAAFAGEAYNSSYVK--HY---FDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 162 ~~~~~~l~~~L~~~~-~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~--~~---F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
+.-.+.|.+.+.+.+ ....+|+|.|.=|+||||+.+.+.+..+-. .. +..-+|-.-..+--...++..|..++.
T Consensus 2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~ 81 (325)
T PF07693_consen 2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLE 81 (325)
T ss_pred hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHH
Confidence 344567778887754 677899999999999999999998743322 11 233456554433334566666666554
Q ss_pred CCCCcc---------------------------c-c--------------------------------ch--hhHHHHHH
Q 038944 236 PSSRLS---------------------------E-I--------------------------------MD--KNYEMKKI 253 (334)
Q Consensus 236 ~~~~~~---------------------------~-~--------------------------------~~--~~~~~l~~ 253 (334)
...... . . .. ...+++..
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (325)
T PF07693_consen 82 KHFGSKKIKLYAKKKLKSLKIKFKIKINLSKAIPLALIGLPALILAVAIAKLKAELKNAFKSLEEKFLKKLKKEVEELIS 161 (325)
T ss_pred HhcCccchhHHHhhhhhhhhceeeeeeecceeehHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhhhhHHHHHHHH
Confidence 321110 0 0 00 01112344
Q ss_pred HHHHHc--CCCeEEEEEeCCCC--h----hHHHHHHhhCCCCCCCeEEEEecCChHHHhhccc
Q 038944 254 ILHEYL--MTKRYLNVIDDVWN--I----EVCDIIREILPDNQNRSRVLITLTEIKMFTFLLE 308 (334)
Q Consensus 254 ~l~~~L--~~kr~LlVlDdvw~--~----~~w~~l~~~l~~~~~gsrIivTTr~~~va~~~~~ 308 (334)
.+.+.| .++|.++++||+.. + +.|+.+...+.. ++..+|+..-.+.++.....
T Consensus 162 ~~~~~l~~~~~~iViiIDdLDR~~~~~i~~~l~~ik~~~~~--~~i~~Il~~D~~~l~~ai~~ 222 (325)
T PF07693_consen 162 KIKKKLKESKKRIVIIIDDLDRCSPEEIVELLEAIKLLLDF--PNIIFILAFDPEILEKAIEK 222 (325)
T ss_pred HHHHhhhcCCceEEEEEcchhcCCcHHHHHHHHHHHHhcCC--CCeEEEEEecHHHHHHHHHh
Confidence 555555 35899999999974 2 466666665533 56767766666666665544
No 154
>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=96.82 E-value=0.0024 Score=66.99 Aligned_cols=45 Identities=16% Similarity=0.280 Sum_probs=37.2
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++||+.++++++..|.....+ -+-++|.+|+|||++|..+...
T Consensus 173 ~~~igr~~ei~~~~~~l~r~~~~--n~lL~G~pGvGKT~l~~~la~~ 217 (852)
T TIGR03346 173 DPVIGRDEEIRRTIQVLSRRTKN--NPVLIGEPGVGKTAIVEGLAQR 217 (852)
T ss_pred CcCCCcHHHHHHHHHHHhcCCCC--ceEEEcCCCCCHHHHHHHHHHH
Confidence 45899999999999999876533 3347999999999999988773
No 155
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.81 E-value=0.0091 Score=52.28 Aligned_cols=105 Identities=14% Similarity=0.103 Sum_probs=65.4
Q ss_pred CCCCCeeechhhHHHHHHHHhc--CCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHH
Q 038944 153 SKSRDTVGLDDRMEELLDLLIE--GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIV 230 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~--~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~i 230 (334)
++-..++|.+..++.|++--.. ...+..-+-.||..|.||+.|++.+.+ ......-. -|.|++.
T Consensus 57 i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~--e~~~~glr--LVEV~k~---------- 122 (287)
T COG2607 57 IDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLN--EYADEGLR--LVEVDKE---------- 122 (287)
T ss_pred cCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHH--HHHhcCCe--EEEEcHH----------
Confidence 3445689999988888764332 223345678999999999999999998 33222222 2222221
Q ss_pred HHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCC---ChhHHHHHHhhCCC
Q 038944 231 IKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVW---NIEVCDIIREILPD 286 (334)
Q Consensus 231 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw---~~~~w~~l~~~l~~ 286 (334)
+..+.. .+.+.|+. ...||.|..||+- ..+.++.+..+|..
T Consensus 123 -----------dl~~Lp--~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG 166 (287)
T COG2607 123 -----------DLATLP--DLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEG 166 (287)
T ss_pred -----------HHhhHH--HHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcC
Confidence 111111 23333222 3579999999995 34689999988864
No 156
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.80 E-value=0.00097 Score=54.69 Aligned_cols=23 Identities=13% Similarity=0.127 Sum_probs=20.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..-|+|.||+|+|||||++.+.+
T Consensus 5 ~mki~ITG~PGvGKtTl~~ki~e 27 (179)
T COG1618 5 AMKIFITGRPGVGKTTLVLKIAE 27 (179)
T ss_pred ceEEEEeCCCCccHHHHHHHHHH
Confidence 35689999999999999999997
No 157
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=96.79 E-value=0.012 Score=54.56 Aligned_cols=102 Identities=10% Similarity=0.059 Sum_probs=60.7
Q ss_pred HHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCc----eeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc----
Q 038944 170 DLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHY----FDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---- 241 (334)
Q Consensus 170 ~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---- 241 (334)
++|..+=+.-.++-|+|.+|+|||+|+.++.-....... =...+|++.-..|++.++.+. ++.++......
T Consensus 93 ~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~-~~~~g~~~~~~l~~i 171 (317)
T PRK04301 93 ELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQM-AEALGLDPDEVLDNI 171 (317)
T ss_pred HHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHH-HHHcCCChHhhhccE
Confidence 344333345679999999999999999887653221111 136899999888988876544 44444321110
Q ss_pred ---cc-chhhHHHHHHHHHHHcCC--CeEEEEEeCCC
Q 038944 242 ---EI-MDKNYEMKKIILHEYLMT--KRYLNVIDDVW 272 (334)
Q Consensus 242 ---~~-~~~~~~~l~~~l~~~L~~--kr~LlVlDdvw 272 (334)
.. .......+...+...+.. +--|||+|-+-
T Consensus 172 ~~~~~~~~~~~~~~~~~l~~~i~~~~~~~lvVIDSis 208 (317)
T PRK04301 172 HVARAYNSDHQMLLAEKAEELIKEGENIKLVIVDSLT 208 (317)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHhccCceeEEEEECch
Confidence 00 001111345566666643 44499999984
No 158
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=96.78 E-value=0.0015 Score=64.26 Aligned_cols=45 Identities=13% Similarity=0.320 Sum_probs=39.1
Q ss_pred CeeechhhHHHHHHHHh----cCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 157 DTVGLDDRMEELLDLLI----EGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~----~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+++|.++.+++|++.|. .-+..-+++.++|++|+||||||+.+.+
T Consensus 77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~ 125 (644)
T PRK15455 77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKS 125 (644)
T ss_pred cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence 58999999999999993 2234567999999999999999999987
No 159
>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=96.78 E-value=0.0055 Score=63.43 Aligned_cols=48 Identities=19% Similarity=0.189 Sum_probs=36.8
Q ss_pred CCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 155 SRDTVGLDDRMEELLDLLIEG-----------PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-+++.|.+..++.+.+++... -...+-+.++|.+|+||||||+.+.+.
T Consensus 177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~ 235 (733)
T TIGR01243 177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE 235 (733)
T ss_pred HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH
Confidence 345789999999888776421 023456889999999999999999983
No 160
>PTZ00301 uridine kinase; Provisional
Probab=96.70 E-value=0.0014 Score=57.07 Aligned_cols=24 Identities=17% Similarity=0.227 Sum_probs=21.4
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++.+|+|.|.+|+||||||+.+.+
T Consensus 2 ~~~iIgIaG~SgSGKTTla~~l~~ 25 (210)
T PTZ00301 2 PCTVIGISGASGSGKSSLSTNIVS 25 (210)
T ss_pred CCEEEEEECCCcCCHHHHHHHHHH
Confidence 357999999999999999998865
No 161
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=96.70 E-value=0.0028 Score=61.14 Aligned_cols=52 Identities=19% Similarity=0.219 Sum_probs=38.4
Q ss_pred CCeeechhhHHHHHHHHhc---C--------CCCceEEEEEccCCccHHHHHHHHHccCCCCCce
Q 038944 156 RDTVGLDDRMEELLDLLIE---G--------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF 209 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~---~--------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F 209 (334)
.++.|.+..+++|.+.+.- . -...+-+.++|++|+|||++|+.+.+ .....|
T Consensus 183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~--el~~~f 245 (438)
T PTZ00361 183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVAN--ETSATF 245 (438)
T ss_pred HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHH--hhCCCE
Confidence 3567888888888877642 1 12345677899999999999999999 444444
No 162
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=96.70 E-value=0.0092 Score=52.04 Aligned_cols=92 Identities=14% Similarity=-0.048 Sum_probs=50.3
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC----CCCCccccchh-hHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM----PSSRLSEIMDK-NYEMK 251 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~----~~~~~~~~~~~-~~~~l 251 (334)
..-.++.|.|.+|+|||||+.++... ...+=...+|++....++ .-+++++.... .........+. ++...
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (218)
T cd01394 17 ERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRA 92 (218)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHH
Confidence 45679999999999999999888753 212223467777655554 33334443211 10000011111 11123
Q ss_pred HHHHHHHcCCCeEEEEEeCCC
Q 038944 252 KIILHEYLMTKRYLNVIDDVW 272 (334)
Q Consensus 252 ~~~l~~~L~~kr~LlVlDdvw 272 (334)
...+...+..+--++|+|-+-
T Consensus 93 ~~~~~~~~~~~~~lvvIDsi~ 113 (218)
T cd01394 93 IQETETFADEKVDLVVVDSAT 113 (218)
T ss_pred HHHHHHHHhcCCcEEEEechH
Confidence 344555555445689999984
No 163
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=96.70 E-value=0.034 Score=55.56 Aligned_cols=46 Identities=15% Similarity=0.082 Sum_probs=38.3
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|.+..+..|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~ 61 (563)
T PRK06647 16 NSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARC 61 (563)
T ss_pred HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence 468999999999999997653 3456789999999999999998873
No 164
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=96.69 E-value=0.038 Score=54.78 Aligned_cols=49 Identities=20% Similarity=0.201 Sum_probs=40.3
Q ss_pred CCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 154 KSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 154 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
....++|....++++.+.+..-...-.-|.|+|..|+|||++|+.+++.
T Consensus 185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~ 233 (509)
T PRK05022 185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAA 233 (509)
T ss_pred cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence 3456899999999998888764334456889999999999999999985
No 165
>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=96.69 E-value=0.012 Score=54.52 Aligned_cols=101 Identities=9% Similarity=0.042 Sum_probs=59.5
Q ss_pred HHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCC----CceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc-----
Q 038944 171 LLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVK----HYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS----- 241 (334)
Q Consensus 171 ~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~----- 241 (334)
+|..+=+.-.++-|+|.+|+|||+|+..+.-..... ..=...+|++.-..|++.++.+ +++.++......
T Consensus 88 lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~ 166 (313)
T TIGR02238 88 ILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNIL 166 (313)
T ss_pred HhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEE
Confidence 344333456799999999999999997765321221 1113678999989999888754 566665432210
Q ss_pred --ccchhh-HHHHHHHHHHHc-CCCeEEEEEeCCC
Q 038944 242 --EIMDKN-YEMKKIILHEYL-MTKRYLNVIDDVW 272 (334)
Q Consensus 242 --~~~~~~-~~~l~~~l~~~L-~~kr~LlVlDdvw 272 (334)
...+.+ +-++...+...+ .++--|||+|.+-
T Consensus 167 ~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSis 201 (313)
T TIGR02238 167 YARAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIM 201 (313)
T ss_pred EecCCCHHHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence 000111 113334444444 3345589999984
No 166
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=96.68 E-value=0.0024 Score=60.37 Aligned_cols=46 Identities=22% Similarity=0.176 Sum_probs=37.0
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|.+..++.|.+.+..+. -..-+-++|+.|+||+|+|..+.+
T Consensus 18 ~~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~ 63 (365)
T PRK07471 18 TTALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMAR 63 (365)
T ss_pred hhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHH
Confidence 4568999999999999888763 234688999999999999976654
No 167
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=96.67 E-value=0.026 Score=52.09 Aligned_cols=46 Identities=15% Similarity=0.147 Sum_probs=35.6
Q ss_pred CeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 157 DTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++|-+.....+..+......-..-+-++|++|+||||+|..+.+.
T Consensus 2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~ 47 (325)
T COG0470 2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKE 47 (325)
T ss_pred CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHH
Confidence 4667778888888888854433335899999999999999888763
No 168
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.66 E-value=0.31 Score=47.11 Aligned_cols=23 Identities=17% Similarity=0.218 Sum_probs=19.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-+++.++|++|+||||++..+..
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~ 243 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAA 243 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHH
Confidence 35999999999999998777654
No 169
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.66 E-value=0.031 Score=56.54 Aligned_cols=137 Identities=12% Similarity=0.025 Sum_probs=72.0
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
.+++|.+..+..|..++..+. -..-+-++|..|+||||+|+.+.+.---...+. .....|+....-+.+.....
T Consensus 16 ~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~-----~~~~~Cg~C~~C~~i~~g~h 89 (620)
T PRK14948 16 DELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDK-----PTPEPCGKCELCRAIAAGNA 89 (620)
T ss_pred hhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCC-----CCCCCCcccHHHHHHhcCCC
Confidence 468899999999988887653 124567899999999999999987321110000 00112222222223322211
Q ss_pred CCCCcc---ccchhh-HHHHHHHHHHH-cCCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEEecC
Q 038944 236 PSSRLS---EIMDKN-YEMKKIILHEY-LMTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLITLT 298 (334)
Q Consensus 236 ~~~~~~---~~~~~~-~~~l~~~l~~~-L~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIivTTr 298 (334)
...... .....+ ..++...+... ..+++-++|+|++.. ...++.|...+-.-.....+|++|.
T Consensus 90 ~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~ 159 (620)
T PRK14948 90 LDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATT 159 (620)
T ss_pred ccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeC
Confidence 100000 001111 11222222111 135566889999864 4678888877765444565555544
No 170
>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]
Probab=96.66 E-value=0.026 Score=56.42 Aligned_cols=135 Identities=15% Similarity=0.085 Sum_probs=85.3
Q ss_pred CCCeeechhhHHHHHHHHhc---CCCCceEEEEEccCCccHHHHHHHHHccCC------CCCceeeEEEEEcCCCCCHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIE---GPPQLSVVVILDSIGLDKAAFAGEAYNSSY------VKHYFDCHAWVPGTYPYDADQ 225 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~---~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~------~~~~F~~~~wv~vs~~~~~~~ 225 (334)
+..+-+|+.+..+|-.++.. +...-..+.|.|-+|+|||..+..|.+..+ --..|+ .+.|+.-.-..+.+
T Consensus 395 p~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~ 473 (767)
T KOG1514|consen 395 PESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPRE 473 (767)
T ss_pred cccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHH
Confidence 44567899999999988864 223344999999999999999999987321 112232 33444444457899
Q ss_pred HHHHHHHHhCCCCCccccchhhHHHHHHHHHHHc-----CCCeEEEEEeCCCChh--HHHHHHhhCCC-CCCCeEEEEec
Q 038944 226 MLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYL-----MTKRYLNVIDDVWNIE--VCDIIREILPD-NQNRSRVLITL 297 (334)
Q Consensus 226 il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L-----~~kr~LlVlDdvw~~~--~w~~l~~~l~~-~~~gsrIivTT 297 (334)
++..|...+.+.... +. ..+..|..++ +.+..++++|++...- .-+.+-..|.+ ...+||++|.+
T Consensus 474 ~Y~~I~~~lsg~~~~---~~----~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~ 546 (767)
T KOG1514|consen 474 IYEKIWEALSGERVT---WD----AALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIA 546 (767)
T ss_pred HHHHHHHhcccCccc---HH----HHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEE
Confidence 999999999987643 22 3334444444 2355788888873220 01222233332 45688877764
No 171
>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=96.65 E-value=0.013 Score=54.28 Aligned_cols=105 Identities=10% Similarity=-0.004 Sum_probs=60.5
Q ss_pred HHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCC----CceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc-
Q 038944 167 ELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVK----HYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS- 241 (334)
Q Consensus 167 ~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~- 241 (334)
.|=.+|..+=+.-.++-|+|.+|+|||||+..+....... ..-...+|++....|+..++ .++.+.++......
T Consensus 84 ~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l 162 (316)
T TIGR02239 84 ELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVL 162 (316)
T ss_pred HHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhh
Confidence 3444454443567899999999999999998876422111 11235689988888888774 44555554332110
Q ss_pred ------ccchhh-HHHHHHHHHHHcC-CCeEEEEEeCCC
Q 038944 242 ------EIMDKN-YEMKKIILHEYLM-TKRYLNVIDDVW 272 (334)
Q Consensus 242 ------~~~~~~-~~~l~~~l~~~L~-~kr~LlVlDdvw 272 (334)
...+.+ +..+...+...+. .+--|||+|-+-
T Consensus 163 ~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~LvVIDSI~ 201 (316)
T TIGR02239 163 DNVAYARAYNTDHQLQLLQQAAAMMSESRFALLIVDSAT 201 (316)
T ss_pred ccEEEEecCChHHHHHHHHHHHHhhccCCccEEEEECcH
Confidence 011111 1123333444443 345589999984
No 172
>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=96.65 E-value=0.0079 Score=50.83 Aligned_cols=22 Identities=23% Similarity=0.309 Sum_probs=19.9
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
||.|+|++|+||||+|+.+...
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~ 22 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVEN 22 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5789999999999999999873
No 173
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=96.65 E-value=0.039 Score=45.88 Aligned_cols=124 Identities=12% Similarity=0.117 Sum_probs=68.0
Q ss_pred echhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc----CCCC--------------CceeeEEEEEcCCCC
Q 038944 160 GLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS----SYVK--------------HYFDCHAWVPGTYPY 221 (334)
Q Consensus 160 Gr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~----~~~~--------------~~F~~~~wv~vs~~~ 221 (334)
|-+...+.|.+.+..+. -...+-++|..|+||+|+|..+.+. .... ....-..|+.-....
T Consensus 1 gq~~~~~~L~~~~~~~~-l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~ 79 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGR-LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKK 79 (162)
T ss_dssp S-HHHHHHHHHHHHCTC---SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSS
T ss_pred CcHHHHHHHHHHHHcCC-cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEeccccc
Confidence 34555666666665543 2346788999999999998877642 1110 111122233222110
Q ss_pred CHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHc-----CCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEE
Q 038944 222 DADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYL-----MTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVL 294 (334)
Q Consensus 222 ~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L-----~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIi 294 (334)
.....+ +.. .+.+++ .+++=++|+|++.. .+.++.|+..+-.-..++++|
T Consensus 80 --------------------~~i~i~--~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fi 136 (162)
T PF13177_consen 80 --------------------KSIKID--QIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFI 136 (162)
T ss_dssp --------------------SSBSHH--HHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEE
T ss_pred --------------------chhhHH--HHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEE
Confidence 011111 222 333333 24566889999974 478888888886656688888
Q ss_pred EecCChH-HHhhcc
Q 038944 295 ITLTEIK-MFTFLL 307 (334)
Q Consensus 295 vTTr~~~-va~~~~ 307 (334)
++|.+.+ +-.++-
T Consensus 137 L~t~~~~~il~TI~ 150 (162)
T PF13177_consen 137 LITNNPSKILPTIR 150 (162)
T ss_dssp EEES-GGGS-HHHH
T ss_pred EEECChHHChHHHH
Confidence 8887655 444333
No 174
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=96.63 E-value=0.025 Score=55.09 Aligned_cols=46 Identities=15% Similarity=0.067 Sum_probs=37.3
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|.+..+..|.+++..+. -...+-++|..|+||||+|+.+.+
T Consensus 16 ~~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk 61 (451)
T PRK06305 16 FSEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAK 61 (451)
T ss_pred HHHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHH
Confidence 3468999999999998887653 235677899999999999998865
No 175
>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=96.60 E-value=0.018 Score=52.02 Aligned_cols=130 Identities=10% Similarity=0.052 Sum_probs=71.0
Q ss_pred hHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEE---cCCCCCHHHHHHHHHHHhCCCCCc
Q 038944 164 RMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVP---GTYPYDADQMLDIVIKFLMPSSRL 240 (334)
Q Consensus 164 ~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~---vs~~~~~~~il~~il~~~~~~~~~ 240 (334)
..+.++..|... ....-+.|+|..|.|||||.+.+... +.. ....+++. +...-.. .++......-...
T Consensus 97 ~~~~~l~~l~~~-~~~~~~~i~g~~g~GKttl~~~l~~~--~~~-~~G~i~~~g~~v~~~d~~----~ei~~~~~~~~q~ 168 (270)
T TIGR02858 97 AADKLLPYLVRN-NRVLNTLIISPPQCGKTTLLRDLARI--LST-GISQLGLRGKKVGIVDER----SEIAGCVNGVPQH 168 (270)
T ss_pred cHHHHHHHHHhC-CCeeEEEEEcCCCCCHHHHHHHHhCc--cCC-CCceEEECCEEeecchhH----HHHHHHhcccccc
Confidence 445555566543 23578999999999999999999873 221 11122221 1100011 2222222111100
Q ss_pred c-----ccchhhHHHHHHHHHHHc-CCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHHhhc
Q 038944 241 S-----EIMDKNYEMKKIILHEYL-MTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMFTFL 306 (334)
Q Consensus 241 ~-----~~~~~~~~~l~~~l~~~L-~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~~~ 306 (334)
. +..+.. .-...+...+ ....-++++|.+-..+.+..+...+. .|..||+||...++...+
T Consensus 169 ~~~~r~~v~~~~--~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~~~~~ 235 (270)
T TIGR02858 169 DVGIRTDVLDGC--PKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDVEDLY 235 (270)
T ss_pred cccccccccccc--hHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHHHHHH
Confidence 0 111111 1122222222 24677999999988777777776662 477799999988876553
No 176
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=96.60 E-value=0.011 Score=60.69 Aligned_cols=48 Identities=25% Similarity=0.235 Sum_probs=38.1
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccC
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
..++|....+..+.+.+..-...-.-|.|+|..|+|||++|+.+++..
T Consensus 376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s 423 (686)
T PRK15429 376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS 423 (686)
T ss_pred cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence 468999999998877776432233468899999999999999999853
No 177
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=96.60 E-value=0.0055 Score=53.11 Aligned_cols=25 Identities=20% Similarity=0.231 Sum_probs=22.9
Q ss_pred CCceEEEEEccCCccHHHHHHHHHc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.++.+|+|-|.+|+||||+|+.++.
T Consensus 6 ~~~iiIgIaG~SgSGKTTva~~l~~ 30 (218)
T COG0572 6 EKVIIIGIAGGSGSGKTTVAKELSE 30 (218)
T ss_pred CceEEEEEeCCCCCCHHHHHHHHHH
Confidence 3568999999999999999999998
No 178
>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=96.60 E-value=0.018 Score=48.71 Aligned_cols=24 Identities=17% Similarity=0.051 Sum_probs=21.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+..-
T Consensus 25 Ge~~~l~G~nGsGKSTLl~~l~Gl 48 (177)
T cd03222 25 GEVIGIVGPNGTGKTTAVKILAGQ 48 (177)
T ss_pred CCEEEEECCCCChHHHHHHHHHcC
Confidence 359999999999999999999863
No 179
>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=96.57 E-value=0.032 Score=45.41 Aligned_cols=97 Identities=12% Similarity=0.067 Sum_probs=54.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEE-------cCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVP-------GTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMK 251 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~-------vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l 251 (334)
-.+++|+|..|.|||||++.+..-... ..-.+|+. +++ +. ... ..
T Consensus 26 Ge~~~i~G~nGsGKStLl~~l~G~~~~---~~G~i~~~~~~~i~~~~~--------------lS--------~G~---~~ 77 (144)
T cd03221 26 GDRIGLVGRNGAGKSTLLKLIAGELEP---DEGIVTWGSTVKIGYFEQ--------------LS--------GGE---KM 77 (144)
T ss_pred CCEEEEECCCCCCHHHHHHHHcCCCCC---CceEEEECCeEEEEEEcc--------------CC--------HHH---HH
Confidence 358999999999999999999874221 11222221 111 10 011 22
Q ss_pred HHHHHHHcCCCeEEEEEeCCCC---hhHHHHHHhhCCCCCCCeEEEEecCChHHHhh
Q 038944 252 KIILHEYLMTKRYLNVIDDVWN---IEVCDIIREILPDNQNRSRVLITLTEIKMFTF 305 (334)
Q Consensus 252 ~~~l~~~L~~kr~LlVlDdvw~---~~~w~~l~~~l~~~~~gsrIivTTr~~~va~~ 305 (334)
.-.+-..+..+.-++++|+.-. ......+...+... +.-||++|...+.+..
T Consensus 78 rv~laral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~~ 132 (144)
T cd03221 78 RLALAKLLLENPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLDQ 132 (144)
T ss_pred HHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHHH
Confidence 2223444455667889999753 34444444443322 2358888887766544
No 180
>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=96.56 E-value=0.0057 Score=55.42 Aligned_cols=89 Identities=18% Similarity=0.173 Sum_probs=49.3
Q ss_pred HHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccc
Q 038944 165 MEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIM 244 (334)
Q Consensus 165 ~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~ 244 (334)
...+++.+.... +-+-++|+.|+|||++++.......- ..|- ..-++.|...+...+ +.++++--.+... ...
T Consensus 22 ~~~ll~~l~~~~---~pvLl~G~~GtGKT~li~~~l~~l~~-~~~~-~~~~~~s~~Tts~~~-q~~ie~~l~k~~~-~~~ 94 (272)
T PF12775_consen 22 YSYLLDLLLSNG---RPVLLVGPSGTGKTSLIQNFLSSLDS-DKYL-VITINFSAQTTSNQL-QKIIESKLEKRRG-RVY 94 (272)
T ss_dssp HHHHHHHHHHCT---EEEEEESSTTSSHHHHHHHHHHCSTT-CCEE-EEEEES-TTHHHHHH-HHCCCTTECECTT-EEE
T ss_pred HHHHHHHHHHcC---CcEEEECCCCCchhHHHHhhhccCCc-cccc-eeEeeccCCCCHHHH-HHHHhhcEEcCCC-CCC
Confidence 356677777653 34689999999999999998863221 2222 334455554444433 3333221111110 000
Q ss_pred hhhHHHHHHHHHHHcCCCeEEEEEeCCC
Q 038944 245 DKNYEMKKIILHEYLMTKRYLNVIDDVW 272 (334)
Q Consensus 245 ~~~~~~l~~~l~~~L~~kr~LlVlDdvw 272 (334)
.. -.+|+.++.+||+-
T Consensus 95 gP------------~~~k~lv~fiDDlN 110 (272)
T PF12775_consen 95 GP------------PGGKKLVLFIDDLN 110 (272)
T ss_dssp EE------------ESSSEEEEEEETTT
T ss_pred CC------------CCCcEEEEEecccC
Confidence 00 14789999999995
No 181
>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=96.56 E-value=0.0028 Score=54.95 Aligned_cols=123 Identities=12% Similarity=0.091 Sum_probs=63.3
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhhHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKNYEMKKIIL 255 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~~~~l~~~l 255 (334)
-.++.|.|..|.||||+.+.+.--.-. ..+..+|+... .. -.+...|+..++...... .....++.++. .+
T Consensus 29 ~~~~~l~G~n~~GKstll~~i~~~~~l---a~~G~~vpa~~-~~-l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~-~i 102 (204)
T cd03282 29 SRFHIITGPNMSGKSTYLKQIALLAIM---AQIGCFVPAEY-AT-LPIFNRLLSRLSNDDSMERNLSTFASEMSETA-YI 102 (204)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH---HHcCCCcchhh-cC-ccChhheeEecCCccccchhhhHHHHHHHHHH-HH
Confidence 478999999999999999988642100 11111221111 11 123333444443322110 01111111222 11
Q ss_pred HHHcCCCeEEEEEeCCCC---hhH----HHHHHhhCCCCCCCeEEEEecCChHHHhhccccC
Q 038944 256 HEYLMTKRYLNVIDDVWN---IEV----CDIIREILPDNQNRSRVLITLTEIKMFTFLLETL 310 (334)
Q Consensus 256 ~~~L~~kr~LlVlDdvw~---~~~----w~~l~~~l~~~~~gsrIivTTr~~~va~~~~~~~ 310 (334)
.. +..++-|++||..-. ..+ ...+...+.. .|+.+|++|...+++..+....
T Consensus 103 l~-~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~~~~ 161 (204)
T cd03282 103 LD-YADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILGNKS 161 (204)
T ss_pred HH-hcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhhcCC
Confidence 12 235678999999843 322 1222333322 3788999999999998776543
No 182
>COG3899 Predicted ATPase [General function prediction only]
Probab=96.55 E-value=0.0076 Score=63.12 Aligned_cols=45 Identities=20% Similarity=0.267 Sum_probs=38.6
Q ss_pred CeeechhhHHHHHHHHhcC-CCCceEEEEEccCCccHHHHHHHHHc
Q 038944 157 DTVGLDDRMEELLDLLIEG-PPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~~~-~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.++||+.+.+.|...+..- .....++.+.|..|+|||+|++.|..
T Consensus 1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~ 46 (849)
T COG3899 1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHK 46 (849)
T ss_pred CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHH
Confidence 3689999999999888752 34456999999999999999999997
No 183
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=96.55 E-value=0.023 Score=53.47 Aligned_cols=47 Identities=19% Similarity=0.182 Sum_probs=38.4
Q ss_pred CCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 154 KSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 154 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.-..++|.+...+.+...+..+. -..-+-|+|..|+||||+|..+.+
T Consensus 21 ~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~ 67 (351)
T PRK09112 21 ENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLAN 67 (351)
T ss_pred chhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHH
Confidence 34568999999999999887654 234688899999999999998776
No 184
>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=96.55 E-value=0.016 Score=49.00 Aligned_cols=122 Identities=12% Similarity=0.104 Sum_probs=63.7
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEE---EcCCCCCHHHHH------HHHHHHhCCCCCc---cccchh
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWV---PGTYPYDADQML------DIVIKFLMPSSRL---SEIMDK 246 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv---~vs~~~~~~~il------~~il~~~~~~~~~---~~~~~~ 246 (334)
-.+++|+|..|.|||||.+.+..-.. ...-.+++ .+. ..+..... -++++.++..... ....+.
T Consensus 25 G~~~~l~G~nGsGKStLl~~i~G~~~---~~~G~v~~~g~~~~-~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~ 100 (180)
T cd03214 25 GEIVGILGPNGAGKSTLLKTLAGLLK---PSSGEILLDGKDLA-SLSPKELARKIAYVPQALELLGLAHLADRPFNELSG 100 (180)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCCCC---CCCcEEEECCEECC-cCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCH
Confidence 45899999999999999999987321 12222222 121 11222211 1144554432110 011111
Q ss_pred hHHHHHHHHHHHcCCCeEEEEEeCCCC---hhHHHHHHhhCCC-CCC-CeEEEEecCChHHHhh
Q 038944 247 NYEMKKIILHEYLMTKRYLNVIDDVWN---IEVCDIIREILPD-NQN-RSRVLITLTEIKMFTF 305 (334)
Q Consensus 247 ~~~~l~~~l~~~L~~kr~LlVlDdvw~---~~~w~~l~~~l~~-~~~-gsrIivTTr~~~va~~ 305 (334)
. +...-.+-..|....-+++||+.-. ....+.+...+.. ... |.-||++|.+.+....
T Consensus 101 G-~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~~~ 163 (180)
T cd03214 101 G-ERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLAAR 163 (180)
T ss_pred H-HHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHH
Confidence 1 1222334455556778899999853 3334444443332 112 5678888888776543
No 185
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=96.54 E-value=0.015 Score=54.34 Aligned_cols=100 Identities=10% Similarity=0.010 Sum_probs=58.4
Q ss_pred HhcCCCCceEEEEEccCCccHHHHHHHHHccCCC----CCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc------
Q 038944 172 LIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYV----KHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS------ 241 (334)
Q Consensus 172 L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~----~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~------ 241 (334)
|..+=..-.+.-|+|.+|+|||+|+..+.-.... ...-...+|++.-..|++.++.+ +++.++......
T Consensus 119 LgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~ 197 (344)
T PLN03187 119 LGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIY 197 (344)
T ss_pred cCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEE
Confidence 3333345678889999999999999877532122 11123679999999999888765 556665432110
Q ss_pred -ccchhh-HHHHHHHHHHHc-CCCeEEEEEeCCC
Q 038944 242 -EIMDKN-YEMKKIILHEYL-MTKRYLNVIDDVW 272 (334)
Q Consensus 242 -~~~~~~-~~~l~~~l~~~L-~~kr~LlVlDdvw 272 (334)
...+.+ +-.+...+...+ ..+--|||+|.+-
T Consensus 198 ~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSit 231 (344)
T PLN03187 198 ARAYTYEHQYNLLLGLAAKMAEEPFRLLIVDSVI 231 (344)
T ss_pred ecCCCHHHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence 111111 002233333333 2334589999984
No 186
>PRK08233 hypothetical protein; Provisional
Probab=96.54 E-value=0.0022 Score=54.10 Aligned_cols=24 Identities=13% Similarity=0.166 Sum_probs=21.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..+|+|.|.+|+||||||+.+...
T Consensus 3 ~~iI~I~G~~GsGKtTla~~L~~~ 26 (182)
T PRK08233 3 TKIITIAAVSGGGKTTLTERLTHK 26 (182)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhh
Confidence 479999999999999999999874
No 187
>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=96.53 E-value=0.0019 Score=50.89 Aligned_cols=21 Identities=24% Similarity=0.155 Sum_probs=19.2
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.|.|.+|+||||+|+.+.+.
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 689999999999999999883
No 188
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=96.53 E-value=0.049 Score=53.91 Aligned_cols=45 Identities=13% Similarity=0.009 Sum_probs=36.5
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|-+..++.|...+..+. -....-++|..|+||||+|+.+.+
T Consensus 14 deiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk 58 (535)
T PRK08451 14 DELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFAR 58 (535)
T ss_pred HHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHH
Confidence 468999998999998887653 334668899999999999997765
No 189
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=96.53 E-value=0.033 Score=56.77 Aligned_cols=45 Identities=20% Similarity=0.206 Sum_probs=36.5
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+..++.|..++..+. -....-++|+.|+||||+|+.+..
T Consensus 18 ~dIiGQe~~v~~L~~aI~~~r-l~HAYLF~GP~GtGKTt~AriLAk 62 (725)
T PRK07133 18 DDIVGQDHIVQTLKNIIKSNK-ISHAYLFSGPRGTGKTSVAKIFAN 62 (725)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHH
Confidence 458899999999999887653 234567899999999999998875
No 190
>PRK04296 thymidine kinase; Provisional
Probab=96.53 E-value=0.0042 Score=53.20 Aligned_cols=113 Identities=12% Similarity=-0.075 Sum_probs=59.5
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYL 259 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L 259 (334)
.++.|+|..|.||||++...... ...+-.....+ .+.++.......++++++............ ++...+.+ .
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~--~~~~g~~v~i~--k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~--~~~~~~~~-~ 75 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYN--YEERGMKVLVF--KPAIDDRYGEGKVVSRIGLSREAIPVSSDT--DIFELIEE-E 75 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHH--HHHcCCeEEEE--eccccccccCCcEecCCCCcccceEeCChH--HHHHHHHh-h
Confidence 46788999999999999777663 21222222222 122232232444555655332210011122 45555555 3
Q ss_pred CCCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEEecCChH
Q 038944 260 MTKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLITLTEIK 301 (334)
Q Consensus 260 ~~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIivTTr~~~ 301 (334)
.++.-+||+|.+-- .++...+...+ ...|..||+|.++.+
T Consensus 76 ~~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~ 117 (190)
T PRK04296 76 GEKIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD 117 (190)
T ss_pred CCCCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence 34445899999843 23233333332 235778999988833
No 191
>PRK05480 uridine/cytidine kinase; Provisional
Probab=96.52 E-value=0.0023 Score=55.55 Aligned_cols=25 Identities=20% Similarity=0.291 Sum_probs=22.8
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
+..+|+|.|.+|+|||||++.++..
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~ 29 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEE 29 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHH
Confidence 4679999999999999999999973
No 192
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.51 E-value=0.032 Score=55.58 Aligned_cols=137 Identities=16% Similarity=0.223 Sum_probs=79.0
Q ss_pred hHHHHHHHHhcCCCCceEEEEEccCCccHHH-HHHHHHccCCCCCceeeEEEEEcCCCCC--HHHHHHHHHHHhCCCCCc
Q 038944 164 RMEELLDLLIEGPPQLSVVVILDSIGLDKAA-FAGEAYNSSYVKHYFDCHAWVPGTYPYD--ADQMLDIVIKFLMPSSRL 240 (334)
Q Consensus 164 ~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTt-La~~v~~~~~~~~~F~~~~wv~vs~~~~--~~~il~~il~~~~~~~~~ 240 (334)
-.++|++.+..+ .||.|||..|+|||| |+|.+|.+- |-..-.+.+.++-. ...+.+.+.+.++.....
T Consensus 360 ~R~~ll~~ir~n----~vvvivgETGSGKTTQl~QyL~edG-----Y~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~ 430 (1042)
T KOG0924|consen 360 CRDQLLSVIREN----QVVVIVGETGSGKTTQLAQYLYEDG-----YADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGD 430 (1042)
T ss_pred HHHHHHHHHhhC----cEEEEEecCCCCchhhhHHHHHhcc-----cccCCeeeecCchHHHHHHHHHHHHHHhCCcccc
Confidence 345566666554 499999999999999 999999852 32222445555543 345566777777554332
Q ss_pred c------------------ccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh----h-HHHHHHhhCCCCCCCeEEEEec
Q 038944 241 S------------------EIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI----E-VCDIIREILPDNQNRSRVLITL 297 (334)
Q Consensus 241 ~------------------~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~----~-~w~~l~~~l~~~~~gsrIivTT 297 (334)
. ...+-- -|.+.|....-+|--.||+|..-.. + .+.-+..++.. ...-|+|||+
T Consensus 431 ~VGYsIRFEdvT~~~T~IkymTDGi--LLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~lar-RrdlKliVtS 507 (1042)
T KOG0924|consen 431 TVGYSIRFEDVTSEDTKIKYMTDGI--LLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVLAR-RRDLKLIVTS 507 (1042)
T ss_pred ccceEEEeeecCCCceeEEEeccch--HHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHHHh-hccceEEEee
Confidence 1 111212 3344444444456668889998543 2 23333444433 2367899998
Q ss_pred CChH---HHhhccccCcc
Q 038944 298 TEIK---MFTFLLETLFS 312 (334)
Q Consensus 298 r~~~---va~~~~~~~~~ 312 (334)
--.+ .+..++..+.+
T Consensus 508 ATm~a~kf~nfFgn~p~f 525 (1042)
T KOG0924|consen 508 ATMDAQKFSNFFGNCPQF 525 (1042)
T ss_pred ccccHHHHHHHhCCCcee
Confidence 7655 44445533333
No 193
>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=96.49 E-value=0.0021 Score=55.15 Aligned_cols=22 Identities=18% Similarity=0.193 Sum_probs=20.3
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
||+|.|.+|+||||+|+.+...
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~ 22 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQI 22 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 7999999999999999999873
No 194
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=96.48 E-value=0.0047 Score=54.49 Aligned_cols=26 Identities=23% Similarity=0.233 Sum_probs=23.3
Q ss_pred CCCceEEEEEccCCccHHHHHHHHHc
Q 038944 176 PPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 176 ~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..+..+++|.|..|+|||||++.+..
T Consensus 30 ~~~~~iigi~G~~GsGKTTl~~~L~~ 55 (229)
T PRK09270 30 PQRRTIVGIAGPPGAGKSTLAEFLEA 55 (229)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence 35678999999999999999998886
No 195
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=96.47 E-value=0.011 Score=55.01 Aligned_cols=47 Identities=19% Similarity=0.203 Sum_probs=37.8
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++|....+.++.+.+..-...-.-|.|+|..|+||+++|+.++..
T Consensus 6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~ 52 (326)
T PRK11608 6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL 52 (326)
T ss_pred CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence 45899999999998888753333345789999999999999999874
No 196
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=96.45 E-value=0.013 Score=52.30 Aligned_cols=62 Identities=15% Similarity=0.068 Sum_probs=40.0
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEE---------EEEcCCCCCHHHH--HHHHHHHhCCCCCc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHA---------WVPGTYPYDADQM--LDIVIKFLMPSSRL 240 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~---------wv~vs~~~~~~~i--l~~il~~~~~~~~~ 240 (334)
++..+|-++||+|+||||..|.++.+..-+ +.+-- -|+..-+.|+++. .++.+++.+....+
T Consensus 17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~--~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNG 89 (366)
T KOG1532|consen 17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAK--KTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNG 89 (366)
T ss_pred cCCcEEEEEecCCCCchhHHHHHHHHHhhc--cCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCc
Confidence 456788999999999999999999853222 21111 1122233466654 67888888766553
No 197
>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=96.45 E-value=0.0028 Score=54.93 Aligned_cols=26 Identities=23% Similarity=0.308 Sum_probs=22.8
Q ss_pred CCceEEEEEccCCccHHHHHHHHHcc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
+.-.+|+|+|.+|+|||||++.+...
T Consensus 4 ~~g~vi~I~G~sGsGKSTl~~~l~~~ 29 (207)
T TIGR00235 4 PKGIIIGIGGGSGSGKTTVARKIYEQ 29 (207)
T ss_pred CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence 34579999999999999999999873
No 198
>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=96.45 E-value=0.072 Score=55.30 Aligned_cols=121 Identities=13% Similarity=0.074 Sum_probs=59.3
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhhHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKNYEMKKIIL 255 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~~~~l~~~l 255 (334)
..++.|+|+.|.|||||.+.+.... -...+.++|+...... -.++..+...++...... ..-...+..+...+
T Consensus 322 ~~~liItGpNg~GKSTlLK~i~~~~---l~aq~G~~Vpa~~~~~-~~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~il 397 (771)
T TIGR01069 322 KRVLAITGPNTGGKTVTLKTLGLLA---LMFQSGIPIPANEHSE-IPYFEEIFADIGDEQSIEQNLSTFSGHMKNISAIL 397 (771)
T ss_pred ceEEEEECCCCCCchHHHHHHHHHH---HHHHhCCCccCCcccc-ccchhheeeecChHhHHhhhhhHHHHHHHHHHHHH
Confidence 4799999999999999999886420 0011112222221100 001111111111110000 00010111232222
Q ss_pred HHHcCCCeEEEEEeCCCCh---hHHHHH----HhhCCCCCCCeEEEEecCChHHHhhcc
Q 038944 256 HEYLMTKRYLNVIDDVWNI---EVCDII----REILPDNQNRSRVLITLTEIKMFTFLL 307 (334)
Q Consensus 256 ~~~L~~kr~LlVlDdvw~~---~~w~~l----~~~l~~~~~gsrIivTTr~~~va~~~~ 307 (334)
. .+ +++-|++||..-.. ..-..+ ...+. ..|+.+|+||...++.....
T Consensus 398 ~-~~-~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~ 452 (771)
T TIGR01069 398 S-KT-TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMY 452 (771)
T ss_pred H-hc-CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhc
Confidence 2 22 57899999998753 222222 22332 35788999999999876543
No 199
>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=96.43 E-value=0.041 Score=45.89 Aligned_cols=115 Identities=10% Similarity=0.009 Sum_probs=58.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCC-CCc--eee---EEEEEcCCCC--CHHHHHHHHHHHhCCCCCccccchhhHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYV-KHY--FDC---HAWVPGTYPY--DADQMLDIVIKFLMPSSRLSEIMDKNYEM 250 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~-~~~--F~~---~~wv~vs~~~--~~~~il~~il~~~~~~~~~~~~~~~~~~~ 250 (334)
-.+++|+|..|.|||||++.+..-... ... |+. ..+ +++.. ....+...+.-. .... -+... .
T Consensus 27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~--~~q~~~~~~~tv~~nl~~~-~~~~---LS~G~---~ 97 (166)
T cd03223 27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLF--LPQRPYLPLGTLREQLIYP-WDDV---LSGGE---Q 97 (166)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEE--ECCCCccccccHHHHhhcc-CCCC---CCHHH---H
Confidence 458999999999999999999874221 111 111 222 23332 112333333211 1111 11111 2
Q ss_pred HHHHHHHHcCCCeEEEEEeCCCCh---hHHHHHHhhCCCCCCCeEEEEecCChHHHh
Q 038944 251 KKIILHEYLMTKRYLNVIDDVWNI---EVCDIIREILPDNQNRSRVLITLTEIKMFT 304 (334)
Q Consensus 251 l~~~l~~~L~~kr~LlVlDdvw~~---~~w~~l~~~l~~~~~gsrIivTTr~~~va~ 304 (334)
..-.+-..+..+.=+++||+.-+. .....+...+... +.-||++|.+...+.
T Consensus 98 ~rv~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~ 152 (166)
T cd03223 98 QRLAFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK 152 (166)
T ss_pred HHHHHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh
Confidence 223334444456667889987533 3333333333221 355888888877654
No 200
>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=96.41 E-value=0.013 Score=52.56 Aligned_cols=95 Identities=14% Similarity=0.073 Sum_probs=57.6
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCC----CceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc-------ccch
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVK----HYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS-------EIMD 245 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~-------~~~~ 245 (334)
..-.|.=|+|.+|+|||.|+-.+.-...+. ..=...+|++-...|++.++. +|++......... ...+
T Consensus 36 ~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~ 114 (256)
T PF08423_consen 36 PTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFD 114 (256)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SS
T ss_pred CCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCC
Confidence 345699999999999999997776432222 112358999999999988875 5677654322110 0111
Q ss_pred h-hHHHHHHHHHHHc-CCCeEEEEEeCCC
Q 038944 246 K-NYEMKKIILHEYL-MTKRYLNVIDDVW 272 (334)
Q Consensus 246 ~-~~~~l~~~l~~~L-~~kr~LlVlDdvw 272 (334)
. .+..+...+...+ ..+--|||+|.+-
T Consensus 115 ~~~l~~~L~~l~~~l~~~~ikLIVIDSIa 143 (256)
T PF08423_consen 115 LEELLELLEQLPKLLSESKIKLIVIDSIA 143 (256)
T ss_dssp HHHHHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred HHHHHHHHHHHHhhccccceEEEEecchH
Confidence 1 1113444444444 3455699999983
No 201
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=96.39 E-value=0.04 Score=46.87 Aligned_cols=47 Identities=15% Similarity=0.070 Sum_probs=30.3
Q ss_pred CCeEEEEEeCCCCh---hH----HHHHHhhCCCCCCCeEEEEecCChHHHhhccc
Q 038944 261 TKRYLNVIDDVWNI---EV----CDIIREILPDNQNRSRVLITLTEIKMFTFLLE 308 (334)
Q Consensus 261 ~kr~LlVlDdvw~~---~~----w~~l~~~l~~~~~gsrIivTTr~~~va~~~~~ 308 (334)
+++-|+++|..-.. .. ...+...+.. ..|+.+|++|...+++..+..
T Consensus 77 ~~~~llllDEp~~g~d~~~~~~~~~~~l~~l~~-~~~~~iii~TH~~~l~~~~~~ 130 (185)
T smart00534 77 TENSLVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIGALTLFATHYHELTKLADE 130 (185)
T ss_pred CCCeEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCeEEEEecHHHHHHHhhc
Confidence 47889999998643 11 1222222222 236779999999998887654
No 202
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.39 E-value=0.012 Score=53.59 Aligned_cols=24 Identities=17% Similarity=0.242 Sum_probs=21.2
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+..++.++|.+|+||||++..+..
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~ 216 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAA 216 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 457999999999999999988876
No 203
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=96.37 E-value=0.8 Score=47.80 Aligned_cols=124 Identities=11% Similarity=0.072 Sum_probs=60.7
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhhHHHHHHH
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKNYEMKKII 254 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~~~~l~~~ 254 (334)
..+++.|.|+.+.||||+.+.+.--.- ...+.++|+..... .-.++..|+..++...... ......+..+...
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 357889999999999999988852100 01122222222110 0011111111111111000 0111111122222
Q ss_pred HHHHcCCCeEEEEEeCCCCh---hHHHHH----HhhCCCCCCCeEEEEecCChHHHhhcccc
Q 038944 255 LHEYLMTKRYLNVIDDVWNI---EVCDII----REILPDNQNRSRVLITLTEIKMFTFLLET 309 (334)
Q Consensus 255 l~~~L~~kr~LlVlDdvw~~---~~w~~l----~~~l~~~~~gsrIivTTr~~~va~~~~~~ 309 (334)
+.. + +.+-|++||..-.. ..-..+ ...+. ..|+.+|+||...+++..+...
T Consensus 402 l~~-~-~~~sLvLlDE~~~GtDp~eg~ala~aile~l~--~~~~~vIitTH~~el~~~~~~~ 459 (782)
T PRK00409 402 LEK-A-DKNSLVLFDELGAGTDPDEGAALAISILEYLR--KRGAKIIATTHYKELKALMYNR 459 (782)
T ss_pred HHh-C-CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--HCCCEEEEECChHHHHHHHhcC
Confidence 222 2 57789999999743 222222 22332 3478999999999988776543
No 204
>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=96.35 E-value=0.021 Score=54.43 Aligned_cols=75 Identities=13% Similarity=0.199 Sum_probs=48.8
Q ss_pred eeechhhHHHHHHHHhcC------------CCCceEEEEEccCCccHHHHHHHHHccCCCCCce---eeEEEEEcCC-CC
Q 038944 158 TVGLDDRMEELLDLLIEG------------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF---DCHAWVPGTY-PY 221 (334)
Q Consensus 158 ~vGr~~~~~~l~~~L~~~------------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F---~~~~wv~vs~-~~ 221 (334)
++|.++.++.+...+... +...+-|.++|++|+|||++|+.+.. .....| +..-++..+. ..
T Consensus 14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~--~l~~~fi~vdat~~~e~g~vG~ 91 (441)
T TIGR00390 14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAK--LANAPFIKVEATKFTEVGYVGR 91 (441)
T ss_pred ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHH--HhCCeEEEeecceeecCCcccC
Confidence 789988888887666531 12346788999999999999999988 444444 2222322222 23
Q ss_pred CHHHHHHHHHHHh
Q 038944 222 DADQMLDIVIKFL 234 (334)
Q Consensus 222 ~~~~il~~il~~~ 234 (334)
+...+++.+....
T Consensus 92 dvE~i~r~l~e~A 104 (441)
T TIGR00390 92 DVESMVRDLTDAA 104 (441)
T ss_pred CHHHHHHHHHHHH
Confidence 5666666665543
No 205
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.34 E-value=0.05 Score=51.62 Aligned_cols=24 Identities=8% Similarity=0.239 Sum_probs=21.0
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+.++|+++|.+|+||||++..+..
T Consensus 240 ~~~vI~LVGptGvGKTTTiaKLA~ 263 (436)
T PRK11889 240 EVQTIALIGPTGVGKTTTLAKMAW 263 (436)
T ss_pred CCcEEEEECCCCCcHHHHHHHHHH
Confidence 357999999999999999988864
No 206
>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=96.33 E-value=0.016 Score=52.21 Aligned_cols=103 Identities=17% Similarity=0.098 Sum_probs=61.8
Q ss_pred EEEEEccCCccHHHHHHHHHccCCC--CCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchhh------HH
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYV--KHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDKN------YE 249 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~--~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~~------~~ 249 (334)
-++|.|-.|+|||+|+..+.++... +.+-+.++++-+.+.. ++.++..++.+.-..+.... ...++. --
T Consensus 71 R~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a~ 150 (276)
T cd01135 71 KIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIITP 150 (276)
T ss_pred EEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHHH
Confidence 5799999999999999988875331 2234678888888765 56677777665422111100 000100 00
Q ss_pred HHHHHHHHHc---CCCeEEEEEeCCCCh-hHHHHHHhh
Q 038944 250 MKKIILHEYL---MTKRYLNVIDDVWNI-EVCDIIREI 283 (334)
Q Consensus 250 ~l~~~l~~~L---~~kr~LlVlDdvw~~-~~w~~l~~~ 283 (334)
...-.+-+++ ++++.|+++||+-.- +.+.++...
T Consensus 151 ~~a~aiAEyfrd~~g~~VLl~~D~ltr~A~A~rEisl~ 188 (276)
T cd01135 151 RMALTTAEYLAYEKGKHVLVILTDMTNYAEALREISAA 188 (276)
T ss_pred HHHHHHHHHHHhccCCeEEEEEcChhHHHHHHHHHHhc
Confidence 2233344555 379999999999543 555555543
No 207
>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=96.33 E-value=0.033 Score=47.97 Aligned_cols=24 Identities=17% Similarity=0.176 Sum_probs=21.7
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+...
T Consensus 26 Ge~~~i~G~nGsGKStLl~~l~G~ 49 (200)
T cd03217 26 GEVHALMGPNGSGKSTLAKTIMGH 49 (200)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 458999999999999999999874
No 208
>PRK13531 regulatory ATPase RavA; Provisional
Probab=96.33 E-value=0.0097 Score=57.76 Aligned_cols=41 Identities=17% Similarity=0.141 Sum_probs=35.9
Q ss_pred eeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 158 TVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 158 ~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++|+++.++.+...+..+. -+-+.|.+|+|||+||+.+...
T Consensus 22 i~gre~vI~lll~aalag~----hVLL~GpPGTGKT~LAraLa~~ 62 (498)
T PRK13531 22 LYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKFA 62 (498)
T ss_pred ccCcHHHHHHHHHHHccCC----CEEEECCCChhHHHHHHHHHHH
Confidence 8999999999888887654 5789999999999999999974
No 209
>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=96.31 E-value=0.03 Score=51.73 Aligned_cols=103 Identities=7% Similarity=0.068 Sum_probs=59.2
Q ss_pred HHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCC----ceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCc----c
Q 038944 170 DLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKH----YFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRL----S 241 (334)
Q Consensus 170 ~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~----~ 241 (334)
++|..+=+.-.++-|+|.+|+|||||+.++.-...... .=...+||+.-..|+..++. ++++.++..... .
T Consensus 86 ~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i 164 (310)
T TIGR02236 86 ELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNI 164 (310)
T ss_pred HHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhce
Confidence 33433334567999999999999999988865322210 01268999998889888765 444544432110 0
Q ss_pred ---ccch-hhHHHHHHHHHHHcCC---CeEEEEEeCCCC
Q 038944 242 ---EIMD-KNYEMKKIILHEYLMT---KRYLNVIDDVWN 273 (334)
Q Consensus 242 ---~~~~-~~~~~l~~~l~~~L~~---kr~LlVlDdvw~ 273 (334)
...+ ...-.+...+.+.+.. +--+||+|.+-.
T Consensus 165 ~i~~~~~~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa 203 (310)
T TIGR02236 165 YVARAYNSNHQMLLVEKAEDLIKELNNPVKLLIVDSLTS 203 (310)
T ss_pred EEEecCCHHHHHHHHHHHHHHHHhcCCCceEEEEecchH
Confidence 0000 0100234445555532 234899998843
No 210
>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=96.30 E-value=0.008 Score=51.72 Aligned_cols=23 Identities=13% Similarity=0.245 Sum_probs=19.0
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++|+.+||+.|+||||.+-++..
T Consensus 1 p~vi~lvGptGvGKTTt~aKLAa 23 (196)
T PF00448_consen 1 PKVIALVGPTGVGKTTTIAKLAA 23 (196)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEEEECCCCCchHhHHHHHHH
Confidence 47999999999999997665544
No 211
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=96.28 E-value=0.093 Score=52.55 Aligned_cols=46 Identities=17% Similarity=0.145 Sum_probs=37.5
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|.+...+.|.+++..+. -...+-++|+.|+||||+|+.+.+
T Consensus 15 f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAk 60 (559)
T PRK05563 15 FEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAK 60 (559)
T ss_pred HHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHH
Confidence 3568999999999999988754 234566799999999999998865
No 212
>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=96.27 E-value=0.019 Score=55.31 Aligned_cols=24 Identities=17% Similarity=0.252 Sum_probs=19.8
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++.++|.+|+||||.+..+..
T Consensus 98 ~p~vi~~vG~~GsGKTTtaakLA~ 121 (428)
T TIGR00959 98 PPTVILMVGLQGSGKTTTCGKLAY 121 (428)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHH
Confidence 467999999999999998665543
No 213
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.27 E-value=0.04 Score=52.72 Aligned_cols=24 Identities=21% Similarity=0.191 Sum_probs=21.0
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++.++|.+|+||||++..+..
T Consensus 222 ~~~vi~lvGptGvGKTTtaaKLA~ 245 (432)
T PRK12724 222 QRKVVFFVGPTGSGKTTSIAKLAA 245 (432)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 357899999999999999988865
No 214
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=96.26 E-value=0.033 Score=52.08 Aligned_cols=104 Identities=9% Similarity=0.024 Sum_probs=61.4
Q ss_pred HHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCC----ceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc--
Q 038944 168 LLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKH----YFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS-- 241 (334)
Q Consensus 168 l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~-- 241 (334)
|=++|..+=+.-.++-|+|.+|+|||+|+..+.-...... .-..++|++.-..|++.++. +|++.++......
T Consensus 112 LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~~~~~l~ 190 (342)
T PLN03186 112 LDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLNGADVLE 190 (342)
T ss_pred HHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCChhhhcc
Confidence 3344444435567899999999999999987764322211 11268999999999988764 5566665432110
Q ss_pred -----ccchhh-HHHHHHHHHHHc-CCCeEEEEEeCCC
Q 038944 242 -----EIMDKN-YEMKKIILHEYL-MTKRYLNVIDDVW 272 (334)
Q Consensus 242 -----~~~~~~-~~~l~~~l~~~L-~~kr~LlVlDdvw 272 (334)
...+.+ +..+...+...+ ..+--|||+|-+-
T Consensus 191 ~i~~~~~~~~e~~~~ll~~~~~~~~~~~~~LIVIDSI~ 228 (342)
T PLN03186 191 NVAYARAYNTDHQSELLLEAASMMAETRFALMIVDSAT 228 (342)
T ss_pred ceEEEecCCHHHHHHHHHHHHHHhhccCCCEEEEeCcH
Confidence 111111 112233333333 3455699999984
No 215
>PRK06547 hypothetical protein; Provisional
Probab=96.25 E-value=0.007 Score=50.94 Aligned_cols=26 Identities=23% Similarity=0.230 Sum_probs=23.2
Q ss_pred CCceEEEEEccCCccHHHHHHHHHcc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
....+|+|.|.+|+||||+|+.+.+.
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 45789999999999999999999874
No 216
>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=96.23 E-value=0.02 Score=48.04 Aligned_cols=24 Identities=17% Similarity=0.138 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+..-
T Consensus 28 Ge~~~i~G~nGsGKStLl~~l~G~ 51 (173)
T cd03246 28 GESLAIIGPSGSGKSTLARLILGL 51 (173)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhc
Confidence 358999999999999999999863
No 217
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.23 E-value=0.014 Score=50.15 Aligned_cols=115 Identities=8% Similarity=0.018 Sum_probs=55.9
Q ss_pred HHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccch
Q 038944 166 EELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMD 245 (334)
Q Consensus 166 ~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~ 245 (334)
.+.+..+..+. -++..|.|.+|+||||+.+.+........ + ..+++..+. +....+.+..+....
T Consensus 7 ~~a~~~~l~~~--~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~-~v~~~apT~-----~Aa~~L~~~~~~~a~------ 71 (196)
T PF13604_consen 7 REAVRAILTSG--DRVSVLQGPAGTGKTTLLKALAEALEAAG-K-RVIGLAPTN-----KAAKELREKTGIEAQ------ 71 (196)
T ss_dssp HHHHHHHHHCT--CSEEEEEESTTSTHHHHHHHHHHHHHHTT----EEEEESSH-----HHHHHHHHHHTS-EE------
T ss_pred HHHHHHHHhcC--CeEEEEEECCCCCHHHHHHHHHHHHHhCC-C-eEEEECCcH-----HHHHHHHHhhCcchh------
Confidence 33444443332 35788899999999999998876322111 1 222222221 222223333332111
Q ss_pred hhHHHHHHHHHHHc---------CCCeEEEEEeCCCCh--hHHHHHHhhCCCCCCCeEEEEecCChH
Q 038944 246 KNYEMKKIILHEYL---------MTKRYLNVIDDVWNI--EVCDIIREILPDNQNRSRVLITLTEIK 301 (334)
Q Consensus 246 ~~~~~l~~~l~~~L---------~~kr~LlVlDdvw~~--~~w~~l~~~l~~~~~gsrIivTTr~~~ 301 (334)
.+...+.... ..+.-+||+|+..-. ..+..+....+. .|+|+|+.==..+
T Consensus 72 ----Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~~Q 132 (196)
T PF13604_consen 72 ----TIHSFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDPNQ 132 (196)
T ss_dssp ----EHHHHTTEECCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-TTS
T ss_pred ----hHHHHHhcCCcccccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCcch
Confidence 1111111110 123349999999743 578888777755 5788887644333
No 218
>PRK06762 hypothetical protein; Provisional
Probab=96.21 E-value=0.0041 Score=51.75 Aligned_cols=23 Identities=17% Similarity=0.310 Sum_probs=21.1
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+|.|.|++|+||||+|+.+.+.
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~ 25 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQER 25 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 68999999999999999999873
No 219
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=96.21 E-value=0.021 Score=51.00 Aligned_cols=129 Identities=9% Similarity=0.067 Sum_probs=72.7
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCC--CCC-ceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc----ccchhhHHH
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSY--VKH-YFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS----EIMDKNYEM 250 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~--~~~-~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~----~~~~~~~~~ 250 (334)
+-.++++||..|.|||||++.+..=.+ -.+ .|+..-+...+ .....+-..++++.++...... ...+-. +
T Consensus 38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~-~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGG--Q 114 (268)
T COG4608 38 EGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLS-KEERRERVLELLEKVGLPEEFLYRYPHELSGG--Q 114 (268)
T ss_pred CCCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcc-hhHHHHHHHHHHHHhCCCHHHhhcCCcccCch--h
Confidence 346899999999999999999986211 111 12221111111 2223445666777766432110 111212 3
Q ss_pred HH-HHHHHHcCCCeEEEEEeCCCChh---HHHHHHhhCC--CCCCCeEEEEecCChHHHhhcccc
Q 038944 251 KK-IILHEYLMTKRYLNVIDDVWNIE---VCDIIREILP--DNQNRSRVLITLTEIKMFTFLLET 309 (334)
Q Consensus 251 l~-~~l~~~L~~kr~LlVlDdvw~~~---~w~~l~~~l~--~~~~gsrIivTTr~~~va~~~~~~ 309 (334)
.+ -.+.+.|.-+.=|+|.|..-+.- .=.++...|. ....|--.+..|.+-.|+..++..
T Consensus 115 rQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~isdr 179 (268)
T COG4608 115 RQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYISDR 179 (268)
T ss_pred hhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhccc
Confidence 33 23455677888899999975441 1122222222 122366688899999999988753
No 220
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.20 E-value=0.027 Score=54.47 Aligned_cols=25 Identities=12% Similarity=0.145 Sum_probs=21.8
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
+..++.++|.+|+||||++..+...
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~ 118 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARY 118 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHH
Confidence 4679999999999999999888753
No 221
>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=96.20 E-value=0.012 Score=53.17 Aligned_cols=103 Identities=21% Similarity=0.152 Sum_probs=63.3
Q ss_pred HHHHHHHHHHHHhhhhhccccccchhHhhhHHhHHHhhhccccchHHHHHHHHHHhccc-ccCCchHHHHHHHHHHHHHh
Q 038944 5 FRLFSERLRRVLAGEEVTLPDAAKLPIQNLHAETEIVTSWLSEFQDDISCLLLQKMGHR-EIKNPDLTTVMDEINCFTYE 83 (334)
Q Consensus 5 ~~~~~~kl~~~l~~~e~~l~~~~~~~i~~L~~~l~~l~~~~~~~~~~~~~~~l~~a~~~-~~~~~~v~~Wl~~lr~~ayd 83 (334)
+..++++|..+. ..-...+.-++..++-++.+++ .+|.||+..... .........+..++-..||+
T Consensus 298 VdFlL~NLkdfq-~rysdSlaflKnQiqvIQ~ele------------sLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAye 364 (402)
T PF12061_consen 298 VDFLLKNLKDFQ-GRYSDSLAFLKNQIQVIQTELE------------SLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYE 364 (402)
T ss_pred HHHHHhhHHHHh-ccccchHHHHHHHHHHHHHHHH------------HhhHHHHHHHhccchhhhhhhhHHHHHHHHHhh
Confidence 455666666655 2222233334455555555555 999999998443 33333488999999999999
Q ss_pred HHHHHHHHHhhhhcccccCCcccchhhhHHHHHHHHHHHHHHHH
Q 038944 84 SEKVIDTFINSISEQKSQSSCSEDIFDALQGLQSRITDIKQRMQ 127 (334)
Q Consensus 84 ~ED~lD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~l~ 127 (334)
+|.++|-+...... .....+.+..+..+|+.++++++
T Consensus 365 vEYVVDaCi~k~~P-------~Wcl~~WL~dIieei~~ik~~i~ 401 (402)
T PF12061_consen 365 VEYVVDACISKSVP-------HWCLERWLLDIIEEITCIKAKIQ 401 (402)
T ss_pred eeeeeehhhcCCCc-------HHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999987543311 11122344555667776666654
No 222
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=96.19 E-value=0.037 Score=50.12 Aligned_cols=97 Identities=16% Similarity=0.031 Sum_probs=61.5
Q ss_pred HhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC---CCCCccccchhhH
Q 038944 172 LIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM---PSSRLSEIMDKNY 248 (334)
Q Consensus 172 L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~---~~~~~~~~~~~~~ 248 (334)
|-.+=+.-.++=|+|+.|.||||+|-+++-. ....-...+|+..-+.|++..+..--...+. ...+. ......
T Consensus 53 LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~~~~-~~e~q~- 128 (279)
T COG0468 53 LGGGLPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQLGVDLLDNLLVSQPD-TGEQQL- 128 (279)
T ss_pred hcCCcccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHHHHHhhhcceeEecCC-CHHHHH-
Confidence 3333356679999999999999999887763 3333347899999999998775433322121 11111 111222
Q ss_pred HHHHHHHHHHcCCCeEEEEEeCCCC
Q 038944 249 EMKKIILHEYLMTKRYLNVIDDVWN 273 (334)
Q Consensus 249 ~~l~~~l~~~L~~kr~LlVlDdvw~ 273 (334)
.+...+......+--|+|+|.+-.
T Consensus 129 -~i~~~~~~~~~~~i~LvVVDSvaa 152 (279)
T COG0468 129 -EIAEKLARSGAEKIDLLVVDSVAA 152 (279)
T ss_pred -HHHHHHHHhccCCCCEEEEecCcc
Confidence 555666666655567999999853
No 223
>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=96.19 E-value=0.013 Score=51.23 Aligned_cols=96 Identities=13% Similarity=0.046 Sum_probs=55.0
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh--------h-H
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK--------N-Y 248 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~--------~-~ 248 (334)
-++|+|.+|+|||+|+..+.++.. . +..+++.+.+.. .+.++.+++...-..+.... ...+. . .
T Consensus 17 r~~I~g~~g~GKt~Ll~~i~~~~~-~---d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~~ 92 (215)
T PF00006_consen 17 RIGIFGGAGVGKTVLLQEIANNQD-A---DVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPYT 92 (215)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHCT-T---TEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHHH
T ss_pred EEEEEcCcccccchhhHHHHhccc-c---cceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhcc
Confidence 589999999999999999988542 1 223777777653 55566666643311110000 00000 0 0
Q ss_pred -HHHHHHHHHHcCCCeEEEEEeCCCCh-hHHHHHHh
Q 038944 249 -EMKKIILHEYLMTKRYLNVIDDVWNI-EVCDIIRE 282 (334)
Q Consensus 249 -~~l~~~l~~~L~~kr~LlVlDdvw~~-~~w~~l~~ 282 (334)
=..++.++. +||..|+++||+-.- +.+..+..
T Consensus 93 a~t~AEyfrd--~G~dVlli~Dsltr~a~A~reis~ 126 (215)
T PF00006_consen 93 ALTIAEYFRD--QGKDVLLIIDSLTRWAQAYREISL 126 (215)
T ss_dssp HHHHHHHHHH--TTSEEEEEEETHHHHHHHHHHHHH
T ss_pred chhhhHHHhh--cCCceeehhhhhHHHHHHHHhhhc
Confidence 023344444 799999999999332 34444443
No 224
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=96.18 E-value=0.012 Score=54.51 Aligned_cols=37 Identities=24% Similarity=0.305 Sum_probs=30.1
Q ss_pred chhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHH
Q 038944 161 LDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEA 199 (334)
Q Consensus 161 r~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v 199 (334)
|..+..--+++|++++ .+.+++.|.+|.|||.||-..
T Consensus 229 rn~eQ~~ALdlLld~d--I~lV~L~G~AGtGKTlLALaA 265 (436)
T COG1875 229 RNAEQRVALDLLLDDD--IDLVSLGGKAGTGKTLLALAA 265 (436)
T ss_pred ccHHHHHHHHHhcCCC--CCeEEeeccCCccHhHHHHHH
Confidence 5666666788888876 889999999999999987543
No 225
>PRK08972 fliI flagellum-specific ATP synthase; Validated
Probab=96.16 E-value=0.021 Score=54.92 Aligned_cols=97 Identities=10% Similarity=0.042 Sum_probs=55.4
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchhh------HHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDKN------YEM 250 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~~------~~~ 250 (334)
..++|+|..|+|||||++.+.+.. ..++.+.+-+.+.. .+.++..+++..-....... ...+.. --.
T Consensus 163 qrigI~G~sG~GKSTLL~~I~~~~----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~ 238 (444)
T PRK08972 163 QRMGLFAGSGVGKSVLLGMMTRGT----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCE 238 (444)
T ss_pred CEEEEECCCCCChhHHHHHhccCC----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHH
Confidence 578999999999999999998732 12455556676654 44556666554422111000 001110 001
Q ss_pred HHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHH
Q 038944 251 KKIILHEYL--MTKRYLNVIDDVWNI-EVCDII 280 (334)
Q Consensus 251 l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l 280 (334)
..-.+-+++ +|+..|+++||+-.- ..+.++
T Consensus 239 ~A~tiAEyfrd~G~~VLl~~DslTR~A~A~REI 271 (444)
T PRK08972 239 TATTIAEYFRDQGLNVLLLMDSLTRYAQAQREI 271 (444)
T ss_pred HHHHHHHHHHHcCCCEEEEEcChHHHHHHHHHH
Confidence 222344444 699999999999432 444444
No 226
>PRK03839 putative kinase; Provisional
Probab=96.16 E-value=0.0042 Score=52.52 Aligned_cols=22 Identities=14% Similarity=0.241 Sum_probs=20.2
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.|.|+|++|+||||+++.+.+.
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~ 23 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 5889999999999999999984
No 227
>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=96.15 E-value=0.0041 Score=43.83 Aligned_cols=22 Identities=18% Similarity=0.267 Sum_probs=19.7
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
+|.|.|..|+||||+++.+.+.
T Consensus 1 ~i~i~G~~gsGKst~~~~l~~~ 22 (69)
T cd02019 1 IIAITGGSGSGKSTVAKKLAEQ 22 (69)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999998874
No 228
>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=96.14 E-value=0.051 Score=44.46 Aligned_cols=21 Identities=19% Similarity=0.169 Sum_probs=19.3
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
|+.|+|.+|+||||||+.+..
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~ 21 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEE 21 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHH
Confidence 578999999999999999887
No 229
>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=96.14 E-value=0.0047 Score=52.30 Aligned_cols=24 Identities=13% Similarity=0.228 Sum_probs=21.9
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..++|.|+|++|+||||+++.+..
T Consensus 2 ~~~ii~i~G~~GsGKsTl~~~l~~ 25 (188)
T TIGR01360 2 KCKIIFIVGGPGSGKGTQCEKIVE 25 (188)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHH
Confidence 467999999999999999999986
No 230
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=96.12 E-value=0.025 Score=47.74 Aligned_cols=25 Identities=12% Similarity=0.219 Sum_probs=22.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHccC
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
-.++.|.|++|+||+||++.++++.
T Consensus 4 G~l~vlsgPSG~GKsTl~k~L~~~~ 28 (191)
T COG0194 4 GLLIVLSGPSGVGKSTLVKALLEDD 28 (191)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhhc
Confidence 3578899999999999999999954
No 231
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=96.12 E-value=0.1 Score=50.19 Aligned_cols=24 Identities=13% Similarity=0.147 Sum_probs=20.9
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...+|.++|..|+||||++..+..
T Consensus 99 ~~~vi~lvG~~GvGKTTtaaKLA~ 122 (429)
T TIGR01425 99 KQNVIMFVGLQGSGKTTTCTKLAY 122 (429)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 468999999999999998887753
No 232
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=96.12 E-value=0.037 Score=47.68 Aligned_cols=22 Identities=18% Similarity=0.030 Sum_probs=20.2
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.++.|+|+.|.|||||.+.+.-
T Consensus 26 ~~~~ltGpNg~GKSTllr~i~~ 47 (199)
T cd03283 26 NGILITGSNMSGKSTFLRTIGV 47 (199)
T ss_pred cEEEEECCCCCChHHHHHHHHH
Confidence 7999999999999999998864
No 233
>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=96.11 E-value=0.028 Score=52.46 Aligned_cols=45 Identities=20% Similarity=0.209 Sum_probs=34.4
Q ss_pred eeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 158 TVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 158 ~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++|....+.++.+.+..-...-.-|.|+|..|+||+++|+.+++.
T Consensus 1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~ 45 (329)
T TIGR02974 1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYL 45 (329)
T ss_pred CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHh
Confidence 467777777777777653333345789999999999999999874
No 234
>PRK10867 signal recognition particle protein; Provisional
Probab=96.11 E-value=0.024 Score=54.62 Aligned_cols=23 Identities=22% Similarity=0.320 Sum_probs=18.9
Q ss_pred CceEEEEEccCCccHHHHHHHHH
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAY 200 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~ 200 (334)
...+|.++|.+|+||||.+..+.
T Consensus 99 ~p~vI~~vG~~GsGKTTtaakLA 121 (433)
T PRK10867 99 PPTVIMMVGLQGAGKTTTAGKLA 121 (433)
T ss_pred CCEEEEEECCCCCcHHHHHHHHH
Confidence 46899999999999999665553
No 235
>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=96.09 E-value=0.018 Score=50.51 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=19.5
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+|+|.|.+|+||||||+.+..
T Consensus 1 IigI~G~sGSGKTTla~~L~~ 21 (220)
T cd02025 1 IIGIAGSVAVGKSTTARVLQA 21 (220)
T ss_pred CEEeeCCCCCCHHHHHHHHHH
Confidence 589999999999999999986
No 236
>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=96.09 E-value=0.007 Score=52.79 Aligned_cols=123 Identities=16% Similarity=0.191 Sum_probs=58.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY 258 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~ 258 (334)
.+++.|+|..|.|||||.+.+...... .....|+.... .. ...+.++...+.......+..+. +..-...+...
T Consensus 29 ~~~~~itGpNg~GKStlLk~i~~~~~l---a~~G~~v~a~~-~~-~~~~d~i~~~l~~~~si~~~~S~-f~~el~~l~~~ 102 (213)
T cd03281 29 PSIMVITGPNSSGKSVYLKQVALIVFL---AHIGSFVPADS-AT-IGLVDKIFTRMSSRESVSSGQSA-FMIDLYQVSKA 102 (213)
T ss_pred ceEEEEECCCCCChHHHHHHHHHHHHH---HhCCCeeEcCC-cE-EeeeeeeeeeeCCccChhhccch-HHHHHHHHHHH
Confidence 478999999999999999988632110 00111111110 00 00111222222221110000000 00111122222
Q ss_pred --cCCCeEEEEEeCCCChh---H-----HHHHHhhCCCCCCCeEEEEecCChHHHhhcc
Q 038944 259 --LMTKRYLNVIDDVWNIE---V-----CDIIREILPDNQNRSRVLITLTEIKMFTFLL 307 (334)
Q Consensus 259 --L~~kr~LlVlDdvw~~~---~-----w~~l~~~l~~~~~gsrIivTTr~~~va~~~~ 307 (334)
+..++-|++||..-... + +..+......+..+..+|+||...+++....
T Consensus 103 l~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~~~~ 161 (213)
T cd03281 103 LRLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFNRSL 161 (213)
T ss_pred HHhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHHhhh
Confidence 24678999999986531 1 2222222222233467999999999988764
No 237
>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=96.09 E-value=0.042 Score=56.95 Aligned_cols=48 Identities=21% Similarity=0.200 Sum_probs=35.4
Q ss_pred CCCeeechhhHHHHHHHHhc-----------CCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 155 SRDTVGLDDRMEELLDLLIE-----------GPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~-----------~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.++.|.+..++.|.+.+.- +-...+-+.++|++|+|||+||+.+.+.
T Consensus 452 ~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e 510 (733)
T TIGR01243 452 WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATE 510 (733)
T ss_pred hhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 34577888888877776542 1123345788999999999999999983
No 238
>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=96.08 E-value=0.095 Score=42.60 Aligned_cols=22 Identities=14% Similarity=0.291 Sum_probs=19.5
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++.++|++|+||||+|+.+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4678999999999999999873
No 239
>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=96.08 E-value=0.018 Score=53.29 Aligned_cols=87 Identities=14% Similarity=0.025 Sum_probs=52.3
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhhHHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKNYEMKKI 253 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~~~~l~~ 253 (334)
+.-+++-|+|.+|+||||||.++... ....-..++|+..-+.++.. .+++++...... .....+ +...
T Consensus 53 p~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~e--q~l~ 123 (321)
T TIGR02012 53 PRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGE--QALE 123 (321)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHH--HHHH
Confidence 55679999999999999999876653 22223456788776666543 344454332110 111112 4455
Q ss_pred HHHHHc-CCCeEEEEEeCCC
Q 038944 254 ILHEYL-MTKRYLNVIDDVW 272 (334)
Q Consensus 254 ~l~~~L-~~kr~LlVlDdvw 272 (334)
.+...+ .+.--+||+|.|-
T Consensus 124 ~~~~li~~~~~~lIVIDSv~ 143 (321)
T TIGR02012 124 IAETLVRSGAVDIIVVDSVA 143 (321)
T ss_pred HHHHHhhccCCcEEEEcchh
Confidence 554444 3456689999974
No 240
>PRK01184 hypothetical protein; Provisional
Probab=96.07 E-value=0.097 Score=44.22 Aligned_cols=21 Identities=14% Similarity=0.265 Sum_probs=18.1
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+|.|+|++|+||||+++ +..
T Consensus 2 ~~i~l~G~~GsGKsT~a~-~~~ 22 (184)
T PRK01184 2 KIIGVVGMPGSGKGEFSK-IAR 22 (184)
T ss_pred cEEEEECCCCCCHHHHHH-HHH
Confidence 589999999999999987 444
No 241
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=96.06 E-value=0.01 Score=47.56 Aligned_cols=41 Identities=12% Similarity=0.148 Sum_probs=29.7
Q ss_pred hhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccC
Q 038944 163 DRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 163 ~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
++..++.+.|...-..-.+|.+.|.-|.|||||++.+.+..
T Consensus 6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 34445555554432334699999999999999999999853
No 242
>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=96.05 E-value=0.044 Score=45.94 Aligned_cols=24 Identities=13% Similarity=0.055 Sum_probs=21.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+..-
T Consensus 26 Ge~~~i~G~nGsGKStLl~~l~G~ 49 (173)
T cd03230 26 GEIYGLLGPNGAGKTTLIKIILGL 49 (173)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 458999999999999999999873
No 243
>PRK04040 adenylate kinase; Provisional
Probab=96.03 E-value=0.0055 Score=52.36 Aligned_cols=23 Identities=26% Similarity=0.408 Sum_probs=21.2
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.++|.|+|++|+||||+++.+.+
T Consensus 2 ~~~i~v~G~pG~GKtt~~~~l~~ 24 (188)
T PRK04040 2 MKVVVVTGVPGVGKTTVLNKALE 24 (188)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHH
Confidence 46899999999999999999988
No 244
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=96.01 E-value=0.016 Score=55.25 Aligned_cols=77 Identities=13% Similarity=0.220 Sum_probs=48.8
Q ss_pred CCeeechhhHHHHHHHHhcC------------CCCceEEEEEccCCccHHHHHHHHHccCCCCCce---eeEEEEEcCC-
Q 038944 156 RDTVGLDDRMEELLDLLIEG------------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYF---DCHAWVPGTY- 219 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F---~~~~wv~vs~- 219 (334)
..++|.+..++.+..++... +...+-|.++|++|+||||||+.+... ....| +..-|...+.
T Consensus 15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~--l~~~fi~vD~t~f~e~Gyv 92 (443)
T PRK05201 15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL--ANAPFIKVEATKFTEVGYV 92 (443)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH--hCChheeecchhhccCCcc
Confidence 34899999999998887541 112467899999999999999999873 33333 2222222211
Q ss_pred CCCHHHHHHHHHHHh
Q 038944 220 PYDADQMLDIVIKFL 234 (334)
Q Consensus 220 ~~~~~~il~~il~~~ 234 (334)
..+...+++.+....
T Consensus 93 G~d~e~~ir~L~~~A 107 (443)
T PRK05201 93 GRDVESIIRDLVEIA 107 (443)
T ss_pred cCCHHHHHHHHHHHH
Confidence 225555555555444
No 245
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=96.01 E-value=0.022 Score=56.18 Aligned_cols=94 Identities=18% Similarity=0.220 Sum_probs=60.5
Q ss_pred CCeeechhhHHHHHHHHhc---CC-------CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHH
Q 038944 156 RDTVGLDDRMEELLDLLIE---GP-------PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQ 225 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~---~~-------~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ 225 (334)
.++-|.+....++.+++.. .+ .+.+=+-++|++|.|||.||+.+.++ ..-.| ..++.+
T Consensus 190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAge--l~vPf-----~~isAp----- 257 (802)
T KOG0733|consen 190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGE--LGVPF-----LSISAP----- 257 (802)
T ss_pred hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhh--cCCce-----Eeecch-----
Confidence 4577899888888888753 11 24556788999999999999999994 44344 222221
Q ss_pred HHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC
Q 038944 226 MLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN 273 (334)
Q Consensus 226 il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~ 273 (334)
+|+....+.. ++ .+.+-+.+.-..-.+++++|++.-
T Consensus 258 ---eivSGvSGES-------Ek--kiRelF~~A~~~aPcivFiDeIDA 293 (802)
T KOG0733|consen 258 ---EIVSGVSGES-------EK--KIRELFDQAKSNAPCIVFIDEIDA 293 (802)
T ss_pred ---hhhcccCccc-------HH--HHHHHHHHHhccCCeEEEeecccc
Confidence 2333333322 22 344444455567789999999963
No 246
>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]
Probab=96.00 E-value=0.077 Score=47.28 Aligned_cols=122 Identities=11% Similarity=0.097 Sum_probs=70.2
Q ss_pred eEEEEEccCCccHHHHHHHHHcc--CCCCC---------ce---eeEEEEEcCC----CC--CHH---------------
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS--SYVKH---------YF---DCHAWVPGTY----PY--DAD--------------- 224 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~--~~~~~---------~F---~~~~wv~vs~----~~--~~~--------------- 224 (334)
.+++|+|+.|.|||||.+.+..= +.... .+ ...+||+=.. .| ++.
T Consensus 31 ~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~~ 110 (254)
T COG1121 31 EITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFR 110 (254)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccccc
Confidence 68999999999999999999861 11110 11 2345553211 11 122
Q ss_pred -------HHHHHHHHHhCCCCCc---cccchhhHHHHHH-HHHHHcCCCeEEEEEeCCCCh------hHHHHHHhhCCCC
Q 038944 225 -------QMLDIVIKFLMPSSRL---SEIMDKNYEMKKI-ILHEYLMTKRYLNVIDDVWNI------EVCDIIREILPDN 287 (334)
Q Consensus 225 -------~il~~il~~~~~~~~~---~~~~~~~~~~l~~-~l~~~L~~kr~LlVlDdvw~~------~~w~~l~~~l~~~ 287 (334)
+...+.|+.++..... ....+-. +.+. .|-+.|..+.=|++||.--.. ...-.+...+...
T Consensus 111 ~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGG--Q~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e 188 (254)
T COG1121 111 RLNKKDKEKVDEALERVGMEDLRDRQIGELSGG--QKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE 188 (254)
T ss_pred cccHHHHHHHHHHHHHcCchhhhCCcccccCcH--HHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC
Confidence 3344445555443211 0222222 4443 344567888889999986532 3555555555443
Q ss_pred CCCeEEEEecCChHHHhh
Q 038944 288 QNRSRVLITLTEIKMFTF 305 (334)
Q Consensus 288 ~~gsrIivTTr~~~va~~ 305 (334)
|.-|+++|.+-+....
T Consensus 189 --g~tIl~vtHDL~~v~~ 204 (254)
T COG1121 189 --GKTVLMVTHDLGLVMA 204 (254)
T ss_pred --CCEEEEEeCCcHHhHh
Confidence 7889999998775554
No 247
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=96.00 E-value=0.0044 Score=53.24 Aligned_cols=21 Identities=24% Similarity=0.289 Sum_probs=19.6
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+|+|.|.+|+|||||++.+..
T Consensus 1 iigi~G~~GsGKSTl~~~l~~ 21 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIE 21 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 589999999999999999976
No 248
>PRK08927 fliI flagellum-specific ATP synthase; Validated
Probab=96.00 E-value=0.032 Score=53.71 Aligned_cols=99 Identities=13% Similarity=0.014 Sum_probs=55.6
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh---h---HH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK---N---YE 249 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~---~---~~ 249 (334)
-..++|+|..|+|||||++.+.+... -+..+.+-+.... .+.++..+.+..-+...... ...+. . --
T Consensus 158 Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~ 233 (442)
T PRK08927 158 GQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAA 233 (442)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHH
Confidence 45789999999999999999997432 1344556666554 44455555554422111000 00111 0 00
Q ss_pred HHHHHHHHHc--CCCeEEEEEeCCCC-hhHHHHHH
Q 038944 250 MKKIILHEYL--MTKRYLNVIDDVWN-IEVCDIIR 281 (334)
Q Consensus 250 ~l~~~l~~~L--~~kr~LlVlDdvw~-~~~w~~l~ 281 (334)
...-.+-+++ +|+..|+++||+-. ...+.++.
T Consensus 234 ~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~REis 268 (442)
T PRK08927 234 YLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIG 268 (442)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeCcHHHHhhhhHHH
Confidence 2223344444 69999999999943 23444433
No 249
>PRK08149 ATP synthase SpaL; Validated
Probab=95.99 E-value=0.03 Score=53.76 Aligned_cols=87 Identities=14% Similarity=0.096 Sum_probs=51.1
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC-CCCHHHHHHHHHHHhCCCCCcc-----cc-----chhhH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY-PYDADQMLDIVIKFLMPSSRLS-----EI-----MDKNY 248 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~il~~il~~~~~~~~~~-----~~-----~~~~~ 248 (334)
..++|+|..|+|||||.+.+.+.... +..+...+.. .-++..+..+.+.......... +. ....
T Consensus 152 q~i~I~G~sG~GKTTLl~~i~~~~~~----dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~- 226 (428)
T PRK08149 152 QRMGIFASAGCGKTSLMNMLIEHSEA----DVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA- 226 (428)
T ss_pred CEEEEECCCCCChhHHHHHHhcCCCC----CeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH-
Confidence 47899999999999999999874322 2223333433 3356666666665432211100 00 0001
Q ss_pred HHHHHHHHHHc--CCCeEEEEEeCCC
Q 038944 249 EMKKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 249 ~~l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
.....+-+++ +||..||++||+-
T Consensus 227 -~~a~tiAE~fr~~G~~Vll~~DslT 251 (428)
T PRK08149 227 -LVATTVAEYFRDQGKRVVLFIDSMT 251 (428)
T ss_pred -HHHHHHHHHHHHcCCCEEEEccchH
Confidence 2233344444 6999999999994
No 250
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=95.97 E-value=0.056 Score=45.85 Aligned_cols=58 Identities=10% Similarity=0.146 Sum_probs=39.8
Q ss_pred HHHHHHHHcCCCeEEEEEeCC----CChhHHHHHHhhCCCCCCCeEEEEecCChHHHhhccc
Q 038944 251 KKIILHEYLMTKRYLNVIDDV----WNIEVCDIIREILPDNQNRSRVLITLTEIKMFTFLLE 308 (334)
Q Consensus 251 l~~~l~~~L~~kr~LlVlDdv----w~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~~~~~ 308 (334)
-.-.+-+.+-++.-+++=|.- .....|+-+...-.-+..|.-||+.|.+.++...+..
T Consensus 144 QRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~~ 205 (223)
T COG2884 144 QRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMRH 205 (223)
T ss_pred HHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhccC
Confidence 334455556677778888864 3335677665443346789999999999998887743
No 251
>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=95.96 E-value=0.029 Score=47.03 Aligned_cols=46 Identities=22% Similarity=0.194 Sum_probs=33.0
Q ss_pred eeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccC
Q 038944 158 TVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 158 ~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
++|....+.++++.+..-.....-|-|+|..|+||+.+|+.+++..
T Consensus 1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s 46 (168)
T PF00158_consen 1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS 46 (168)
T ss_dssp SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence 4688888888888876522222345599999999999999999953
No 252
>PRK14738 gmk guanylate kinase; Provisional
Probab=95.95 E-value=0.0069 Score=52.53 Aligned_cols=32 Identities=25% Similarity=0.315 Sum_probs=26.3
Q ss_pred HHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 171 LLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 171 ~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
|+..+....+.+.|+|++|+|||||++.+.+.
T Consensus 5 ~~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 5 WLFNKPAKPLLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred cccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence 44555567789999999999999999999763
No 253
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=95.95 E-value=0.044 Score=45.85 Aligned_cols=21 Identities=19% Similarity=0.278 Sum_probs=19.1
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++.++|++|+||||++..+..
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~ 22 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLAL 22 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 688999999999999988876
No 254
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.95 E-value=0.012 Score=51.77 Aligned_cols=25 Identities=4% Similarity=0.024 Sum_probs=21.9
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
....+.|+|..|+|||+||+.+++.
T Consensus 41 ~~~~~~l~G~~G~GKT~La~ai~~~ 65 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLLQALVAD 65 (227)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHH
Confidence 3467889999999999999999984
No 255
>PRK00131 aroK shikimate kinase; Reviewed
Probab=95.94 E-value=0.0068 Score=50.52 Aligned_cols=24 Identities=13% Similarity=0.155 Sum_probs=21.7
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
...|.++|++|+||||+|+.+...
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~ 27 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKR 27 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHH
Confidence 458999999999999999999883
No 256
>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=95.93 E-value=0.038 Score=46.26 Aligned_cols=24 Identities=17% Similarity=0.079 Sum_probs=21.6
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+..-
T Consensus 28 G~~~~l~G~nGsGKstLl~~i~G~ 51 (171)
T cd03228 28 GEKVAIVGPSGSGKSTLLKLLLRL 51 (171)
T ss_pred CCEEEEECCCCCCHHHHHHHHHcC
Confidence 458999999999999999999873
No 257
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=95.93 E-value=0.022 Score=49.71 Aligned_cols=45 Identities=24% Similarity=0.242 Sum_probs=36.0
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.++||-++-++++--.-.+++ .+-+-|.||+|+||||-+..+.+
T Consensus 26 l~dIVGNe~tv~rl~via~~gn--mP~liisGpPG~GKTTsi~~LAr 70 (333)
T KOG0991|consen 26 LQDIVGNEDTVERLSVIAKEGN--MPNLIISGPPGTGKTTSILCLAR 70 (333)
T ss_pred HHHhhCCHHHHHHHHHHHHcCC--CCceEeeCCCCCchhhHHHHHHH
Confidence 3568999998888876666654 77788999999999997776665
No 258
>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=95.93 E-value=0.038 Score=49.79 Aligned_cols=97 Identities=12% Similarity=-0.008 Sum_probs=56.9
Q ss_pred eEEEEEccCCccHHHHH-HHHHccCCCCCceee-EEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc-----cc-chh----
Q 038944 180 SVVVILDSIGLDKAAFA-GEAYNSSYVKHYFDC-HAWVPGTYPY-DADQMLDIVIKFLMPSSRLS-----EI-MDK---- 246 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa-~~v~~~~~~~~~F~~-~~wv~vs~~~-~~~~il~~il~~~~~~~~~~-----~~-~~~---- 246 (334)
.-++|.|..|+|||+|+ ..+.+. . +-+. ++++-+.+.. .+.++..++.+.-....... +. ...
T Consensus 70 Qr~~Ifg~~g~GKt~L~l~~i~~~--~--~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a 145 (274)
T cd01132 70 QRELIIGDRQTGKTAIAIDTIINQ--K--GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLA 145 (274)
T ss_pred CEEEeeCCCCCCccHHHHHHHHHh--c--CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHH
Confidence 36899999999999995 667663 1 1233 3666676654 45566666664321111000 00 000
Q ss_pred ----hHHHHHHHHHHHcCCCeEEEEEeCCCCh-hHHHHHHhhC
Q 038944 247 ----NYEMKKIILHEYLMTKRYLNVIDDVWNI-EVCDIIREIL 284 (334)
Q Consensus 247 ----~~~~l~~~l~~~L~~kr~LlVlDdvw~~-~~w~~l~~~l 284 (334)
. ..++.++. +|+..|+++||+-.- +.|.++...+
T Consensus 146 ~~~a~--aiAE~fr~--~G~~Vlvl~DslTr~A~A~rEisl~~ 184 (274)
T cd01132 146 PYTGC--AMGEYFMD--NGKHALIIYDDLSKQAVAYRQMSLLL 184 (274)
T ss_pred HHHHH--HHHHHHHH--CCCCEEEEEcChHHHHHHHHHHHHhc
Confidence 1 23333333 689999999999543 6777776554
No 259
>PRK06002 fliI flagellum-specific ATP synthase; Validated
Probab=95.93 E-value=0.042 Score=53.04 Aligned_cols=89 Identities=13% Similarity=0.118 Sum_probs=48.7
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCC-------CCcccc--chhhHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPS-------SRLSEI--MDKNYE 249 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~-------~~~~~~--~~~~~~ 249 (334)
-..++|+|..|+|||||++.+..... .....++..--+.-++..+....+...... .+.+.. ....
T Consensus 165 Gqri~I~G~SGsGKTTLL~~Ia~l~~---pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~-- 239 (450)
T PRK06002 165 GQRIGIFAGSGVGKSTLLAMLARADA---FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAP-- 239 (450)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCCC---CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHH--
Confidence 34799999999999999998886322 223344433223345555555444433111 010000 0001
Q ss_pred HHHHHHHHHc--CCCeEEEEEeCCC
Q 038944 250 MKKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 250 ~l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
...-.+-+++ +|+..|+++||+-
T Consensus 240 ~~a~~iAEyfrd~G~~Vll~~DslT 264 (450)
T PRK06002 240 LTATAIAEYFRDRGENVLLIVDSVT 264 (450)
T ss_pred HHHHHHHHHHHHcCCCEEEeccchH
Confidence 1222333444 6899999999994
No 260
>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=95.92 E-value=0.021 Score=52.95 Aligned_cols=87 Identities=16% Similarity=0.034 Sum_probs=52.1
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhhHHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKNYEMKKI 253 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~~~~l~~ 253 (334)
+.-+++-|+|++|+||||||.++.-. ....-..++|+..-..+++. .+++++...... ...+.+ ++..
T Consensus 53 p~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~e--q~l~ 123 (325)
T cd00983 53 PKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGE--QALE 123 (325)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHH--HHHH
Confidence 45678999999999999999887652 11223457788877766653 334444321110 111122 4555
Q ss_pred HHHHHcC-CCeEEEEEeCCC
Q 038944 254 ILHEYLM-TKRYLNVIDDVW 272 (334)
Q Consensus 254 ~l~~~L~-~kr~LlVlDdvw 272 (334)
.+...++ +.--+||+|-|-
T Consensus 124 i~~~li~s~~~~lIVIDSva 143 (325)
T cd00983 124 IADSLVRSGAVDLIVVDSVA 143 (325)
T ss_pred HHHHHHhccCCCEEEEcchH
Confidence 5544443 455689999974
No 261
>PRK09354 recA recombinase A; Provisional
Probab=95.91 E-value=0.026 Score=52.74 Aligned_cols=87 Identities=17% Similarity=0.037 Sum_probs=53.5
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhhHHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKNYEMKKI 253 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~~~~l~~ 253 (334)
+.-+++-|+|++|+|||||+-++.... ...-..++|+..-..++.. .+++++...... .....+ +...
T Consensus 58 p~G~IteI~G~~GsGKTtLal~~~~~~--~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~E--q~l~ 128 (349)
T PRK09354 58 PRGRIVEIYGPESSGKTTLALHAIAEA--QKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGE--QALE 128 (349)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHH--HHHH
Confidence 556799999999999999998876532 2223567888877777653 345554432110 111122 4444
Q ss_pred HHHHHc-CCCeEEEEEeCCC
Q 038944 254 ILHEYL-MTKRYLNVIDDVW 272 (334)
Q Consensus 254 ~l~~~L-~~kr~LlVlDdvw 272 (334)
.+...+ .++--+||+|-|-
T Consensus 129 i~~~li~s~~~~lIVIDSva 148 (349)
T PRK09354 129 IADTLVRSGAVDLIVVDSVA 148 (349)
T ss_pred HHHHHhhcCCCCEEEEeChh
Confidence 555444 3456689999984
No 262
>PRK00625 shikimate kinase; Provisional
Probab=95.91 E-value=0.0061 Score=51.37 Aligned_cols=21 Identities=10% Similarity=0.128 Sum_probs=19.4
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.|.++||+|+||||+++.+.+
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~ 22 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAK 22 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 488999999999999999987
No 263
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=95.91 E-value=0.022 Score=55.27 Aligned_cols=90 Identities=11% Similarity=0.113 Sum_probs=56.5
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccch--------hhH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMD--------KNY 248 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~--------~~~ 248 (334)
.-++|.|.+|+|||||+..+.+.... .+-++++++-+.... .+.++..+++..-....... ...+ ..
T Consensus 144 QR~gIfa~~G~GKt~Ll~~~~~~~~~-~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~- 221 (461)
T PRK12597 144 GKTGLFGGAGVGKTVLMMELIFNISK-QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVV- 221 (461)
T ss_pred CEEEeecCCCCChhHHHHHHHHHHHh-hCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHH-
Confidence 36899999999999999888774322 256778888877654 55666666665322111000 0001 11
Q ss_pred HHHHHHHHHHc---CCCeEEEEEeCCC
Q 038944 249 EMKKIILHEYL---MTKRYLNVIDDVW 272 (334)
Q Consensus 249 ~~l~~~l~~~L---~~kr~LlVlDdvw 272 (334)
.....+-+++ +|+..|+++||+-
T Consensus 222 -~~a~tiAEyfrd~~G~~VLl~~DslT 247 (461)
T PRK12597 222 -LTGLTIAEYLRDEEKEDVLLFIDNIF 247 (461)
T ss_pred -HHHHHHHHHHHHhcCCceEEEeccch
Confidence 2344455665 4899999999993
No 264
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=95.90 E-value=0.036 Score=52.01 Aligned_cols=26 Identities=12% Similarity=0.058 Sum_probs=23.6
Q ss_pred CCceEEEEEccCCccHHHHHHHHHcc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.....+.|+|++|.|||.+|+.+++.
T Consensus 146 k~PlgllL~GPPGcGKTllAraiA~e 171 (413)
T PLN00020 146 KVPLILGIWGGKGQGKSFQCELVFKK 171 (413)
T ss_pred CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 45679999999999999999999994
No 265
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=95.90 E-value=0.0084 Score=50.39 Aligned_cols=25 Identities=12% Similarity=0.166 Sum_probs=22.5
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++++|+|..|+|||||++.+...
T Consensus 5 ~~~ii~ivG~sgsGKTTLi~~li~~ 29 (173)
T PRK10751 5 MIPLLAIAAWSGTGKTTLLKKLIPA 29 (173)
T ss_pred CceEEEEECCCCChHHHHHHHHHHH
Confidence 4679999999999999999999873
No 266
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=95.90 E-value=0.012 Score=47.28 Aligned_cols=86 Identities=13% Similarity=0.086 Sum_probs=48.3
Q ss_pred EEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCC
Q 038944 182 VVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMT 261 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~ 261 (334)
|-++|.+|+|||+||+.+.. ..... ..-+.++...+..+++...--. .... ..... .+...+.
T Consensus 2 vlL~G~~G~GKt~l~~~la~--~~~~~---~~~i~~~~~~~~~dl~g~~~~~-~~~~----~~~~~--~l~~a~~----- 64 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAA--LLGRP---VIRINCSSDTTEEDLIGSYDPS-NGQF----EFKDG--PLVRAMR----- 64 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHH--HHTCE---EEEEE-TTTSTHHHHHCEEET--TTTT----CEEE---CCCTTHH-----
T ss_pred EEEECCCCCCHHHHHHHHHH--Hhhcc---eEEEEeccccccccceeeeeec-cccc----ccccc--ccccccc-----
Confidence 56899999999999999987 32222 2235677777777665433211 1110 11101 1111111
Q ss_pred CeEEEEEeCCCC--hhHHHHHHhhC
Q 038944 262 KRYLNVIDDVWN--IEVCDIIREIL 284 (334)
Q Consensus 262 kr~LlVlDdvw~--~~~w~~l~~~l 284 (334)
+..++|||++.. ...+..|...+
T Consensus 65 ~~~il~lDEin~a~~~v~~~L~~ll 89 (139)
T PF07728_consen 65 KGGILVLDEINRAPPEVLESLLSLL 89 (139)
T ss_dssp EEEEEEESSCGG--HHHHHTTHHHH
T ss_pred ceeEEEECCcccCCHHHHHHHHHHH
Confidence 789999999973 45555554443
No 267
>PTZ00185 ATPase alpha subunit; Provisional
Probab=95.89 E-value=0.058 Score=52.69 Aligned_cols=101 Identities=12% Similarity=0.079 Sum_probs=56.1
Q ss_pred EEEEEccCCccHHHHH-HHHHccCCC-----CCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhh--HH
Q 038944 181 VVVILDSIGLDKAAFA-GEAYNSSYV-----KHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKN--YE 249 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa-~~v~~~~~~-----~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~--~~ 249 (334)
-++|.|-.|+|||+|| ..+.|...+ .++-..++++.+.+..+.-.-+.+.++.-+.-.... ...++. ++
T Consensus 191 R~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~r 270 (574)
T PTZ00185 191 RELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGLQ 270 (574)
T ss_pred EEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHHH
Confidence 5789999999999996 666664322 124456788889887643333444444443111110 000000 00
Q ss_pred ----HHHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHHH
Q 038944 250 ----MKKIILHEYL--MTKRYLNVIDDVWNI-EVCDIIR 281 (334)
Q Consensus 250 ----~l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l~ 281 (334)
-..-.+-+++ +|+..|+|+||+-.. ..+.++.
T Consensus 271 ~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A~A~REIS 309 (574)
T PTZ00185 271 YLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAYRQIS 309 (574)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEcCchHHHHHHHHHH
Confidence 1122233333 689999999999543 4454443
No 268
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=95.88 E-value=0.0071 Score=49.08 Aligned_cols=39 Identities=10% Similarity=0.062 Sum_probs=26.7
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY 219 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~ 219 (334)
++|.|+|..|+|||||++.+.+.. .+..+...+..+...
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l-~~~g~~v~~ik~~~~ 39 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINEL-KRRGYRVAVIKHTDH 39 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHH-HHTT--EEEEEE-ST
T ss_pred CEEEEECCCCCCHHHHHHHHHHHH-hHcCCceEEEEEccC
Confidence 589999999999999999999842 124455555555544
No 269
>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=95.88 E-value=0.015 Score=50.99 Aligned_cols=122 Identities=14% Similarity=0.083 Sum_probs=58.7
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhhHHHHHHH
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKNYEMKKII 254 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~~~~l~~~ 254 (334)
+..++.|.|..|.||||+.+.+.--.- .+.+..+|+... ..-.+...++..++...... ..-..++.++...
T Consensus 29 ~~~~~~l~G~n~~GKstll~~i~~~~~---la~~g~~vpa~~--~~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a~i 103 (222)
T cd03285 29 KSRFLIITGPNMGGKSTYIRQIGVIVL---MAQIGCFVPCDS--ADIPIVDCILARVGASDSQLKGVSTFMAEMLETAAI 103 (222)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHH---HHHhCCCcCccc--EEEeccceeEeeeccccchhcCcChHHHHHHHHHHH
Confidence 457999999999999999887652100 001111111111 00011222222222211100 0000000022222
Q ss_pred HHHHcCCCeEEEEEeCC---CChh-----HHHHHHhhCCCCCCCeEEEEecCChHHHhhccc
Q 038944 255 LHEYLMTKRYLNVIDDV---WNIE-----VCDIIREILPDNQNRSRVLITLTEIKMFTFLLE 308 (334)
Q Consensus 255 l~~~L~~kr~LlVlDdv---w~~~-----~w~~l~~~l~~~~~gsrIivTTr~~~va~~~~~ 308 (334)
++. .+++-|++||.. -+.. .|..+ ..+.. ..|+.+|+||...++...+..
T Consensus 104 l~~--~~~~sLvLLDEp~~gT~~lD~~~~~~~il-~~l~~-~~~~~vlisTH~~el~~~~~~ 161 (222)
T cd03285 104 LKS--ATENSLIIIDELGRGTSTYDGFGLAWAIA-EYIAT-QIKCFCLFATHFHELTALADE 161 (222)
T ss_pred HHh--CCCCeEEEEecCcCCCChHHHHHHHHHHH-HHHHh-cCCCeEEEEechHHHHHHhhc
Confidence 222 356789999999 4332 33322 22222 347889999998888876653
No 270
>CHL00195 ycf46 Ycf46; Provisional
Probab=95.87 E-value=0.047 Score=53.58 Aligned_cols=47 Identities=23% Similarity=0.216 Sum_probs=31.9
Q ss_pred CCeeechhhHHHHHHHHhc--------CCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIE--------GPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~--------~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++.|.+.-++.+.+.... +-...+-|-++|++|+|||.+|+.+.+.
T Consensus 228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence 4567776665555432211 1133466889999999999999999983
No 271
>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=95.81 E-value=0.0074 Score=50.88 Aligned_cols=23 Identities=13% Similarity=0.212 Sum_probs=20.5
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++.|+|+.|+|||||++.+...
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 37899999999999999998764
No 272
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=95.80 E-value=0.041 Score=45.56 Aligned_cols=120 Identities=11% Similarity=0.094 Sum_probs=59.3
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEE--EEEcCCCCCHHHHHHHHHHHh-----CCCCC-ccccchh---hH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHA--WVPGTYPYDADQMLDIVIKFL-----MPSSR-LSEIMDK---NY 248 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~--wv~vs~~~~~~~il~~il~~~-----~~~~~-~~~~~~~---~~ 248 (334)
..|-|++-.|.||||+|--+.-. ....-+.+.+ |+.-........++..+ ..+ +.... ....... ..
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-ALGHGYRVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAAA 80 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH-HHHCCCeEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHHH
Confidence 46788888899999998766531 1112222222 23322233443433333 000 00000 0000000 00
Q ss_pred HHHHHHHHHHcCC-CeEEEEEeCCCCh-----hHHHHHHhhCCCCCCCeEEEEecCChH
Q 038944 249 EMKKIILHEYLMT-KRYLNVIDDVWNI-----EVCDIIREILPDNQNRSRVLITLTEIK 301 (334)
Q Consensus 249 ~~l~~~l~~~L~~-kr~LlVlDdvw~~-----~~w~~l~~~l~~~~~gsrIivTTr~~~ 301 (334)
.......++.+.. +-=|+|||++-.. -..+.+...+.....+.-||+|.|+..
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 1334444555544 4459999998543 244555555544444567999999753
No 273
>PRK00889 adenylylsulfate kinase; Provisional
Probab=95.80 E-value=0.0091 Score=50.19 Aligned_cols=25 Identities=16% Similarity=0.039 Sum_probs=22.2
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.-.+|.|+|.+|+||||+|+.+...
T Consensus 3 ~g~~i~~~G~~GsGKST~a~~la~~ 27 (175)
T PRK00889 3 RGVTVWFTGLSGAGKTTIARALAEK 27 (175)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4569999999999999999999873
No 274
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=95.79 E-value=0.012 Score=48.35 Aligned_cols=44 Identities=20% Similarity=0.102 Sum_probs=33.8
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPS 237 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~ 237 (334)
+|.|-|.+|+||||+|+.+.++.... | .+...++++|++..+..
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 68999999999999999999853321 1 13457888888887764
No 275
>PRK14974 cell division protein FtsY; Provisional
Probab=95.78 E-value=0.12 Score=48.23 Aligned_cols=24 Identities=17% Similarity=0.153 Sum_probs=20.4
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+..++.++|++|+||||++..+..
T Consensus 139 ~~~vi~~~G~~GvGKTTtiakLA~ 162 (336)
T PRK14974 139 KPVVIVFVGVNGTGKTTTIAKLAY 162 (336)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHH
Confidence 468999999999999997776664
No 276
>PRK06936 type III secretion system ATPase; Provisional
Probab=95.78 E-value=0.046 Score=52.66 Aligned_cols=90 Identities=14% Similarity=0.077 Sum_probs=52.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchhh-H-----H
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDKN-Y-----E 249 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~~-~-----~ 249 (334)
-..++|.|..|+|||||.+.+++... -++++++-+.+.. .+.++....+..-..+.... ...+.. . -
T Consensus 162 Gq~~~I~G~sG~GKStLl~~Ia~~~~----~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~ 237 (439)
T PRK06936 162 GQRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAG 237 (439)
T ss_pred CCEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHH
Confidence 35789999999999999999998432 2466777777654 44455544443211110000 011110 0 0
Q ss_pred HHHHHHHHHc--CCCeEEEEEeCCC
Q 038944 250 MKKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 250 ~l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
...-.+-+++ +||..|+++||+-
T Consensus 238 ~~a~tiAEyfrd~G~~Vll~~DslT 262 (439)
T PRK06936 238 FVATSIAEYFRDQGKRVLLLMDSVT 262 (439)
T ss_pred HHHHHHHHHHHHcCCCEEEeccchh
Confidence 1122234444 6999999999994
No 277
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.059 Score=52.39 Aligned_cols=109 Identities=17% Similarity=0.116 Sum_probs=61.2
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILH 256 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~ 256 (334)
.++.-+.+.|++|+|||+||-.+..+ ..|+..--+ |. +++ ++.. +...-. .+...+.
T Consensus 536 s~lvSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKii--Sp----e~m-------iG~s----EsaKc~--~i~k~F~ 592 (744)
T KOG0741|consen 536 SPLVSVLLEGPPGSGKTALAAKIALS----SDFPFVKII--SP----EDM-------IGLS----ESAKCA--HIKKIFE 592 (744)
T ss_pred CcceEEEEecCCCCChHHHHHHHHhh----cCCCeEEEe--Ch----HHc-------cCcc----HHHHHH--HHHHHHH
Confidence 45667778899999999999999873 346543222 11 110 0000 011111 2333333
Q ss_pred HHcCCCeEEEEEeCCCChhHHHHH------------HhhCCCC-CCCeE--EEEecCChHHHhhccc
Q 038944 257 EYLMTKRYLNVIDDVWNIEVCDII------------REILPDN-QNRSR--VLITLTEIKMFTFLLE 308 (334)
Q Consensus 257 ~~L~~kr~LlVlDdvw~~~~w~~l------------~~~l~~~-~~gsr--IivTTr~~~va~~~~~ 308 (334)
..-+..=-.||+||+...-+|-.| ...|... .+|-| |+-||....|.+.|+-
T Consensus 593 DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i 659 (744)
T KOG0741|consen 593 DAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGI 659 (744)
T ss_pred HhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCH
Confidence 344566679999999655444322 2233221 23444 5558888889888874
No 278
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.06 Score=52.42 Aligned_cols=52 Identities=21% Similarity=0.314 Sum_probs=37.6
Q ss_pred CCCCeeechhh---HHHHHHHHhcCC-------CCceEEEEEccCCccHHHHHHHHHccCCC
Q 038944 154 KSRDTVGLDDR---MEELLDLLIEGP-------PQLSVVVILDSIGLDKAAFAGEAYNSSYV 205 (334)
Q Consensus 154 ~~~~~vGr~~~---~~~l~~~L~~~~-------~~~~vi~IvG~gGvGKTtLa~~v~~~~~~ 205 (334)
.-+++-|.|+. +++++++|.++. .=.+=|-.+|++|.|||-||+.|.....+
T Consensus 302 ~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~V 363 (752)
T KOG0734|consen 302 TFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGV 363 (752)
T ss_pred ccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCC
Confidence 34566777654 566777887652 22456788999999999999999985443
No 279
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=95.77 E-value=0.013 Score=53.05 Aligned_cols=63 Identities=17% Similarity=0.105 Sum_probs=42.9
Q ss_pred HHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHH
Q 038944 165 MEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQML 227 (334)
Q Consensus 165 ~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il 227 (334)
-.+|+..+.....+..||+|.|.||+||+||.-.+-....-+.|=-.++=|.-|++|+-..||
T Consensus 37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiL 99 (323)
T COG1703 37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSIL 99 (323)
T ss_pred HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccc
Confidence 456777777766778899999999999999998776643223332334445556666544444
No 280
>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=95.77 E-value=0.0078 Score=50.70 Aligned_cols=22 Identities=18% Similarity=0.318 Sum_probs=20.7
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+++.|+|+.|+|||||++.+.+
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~ 23 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLE 23 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHc
Confidence 4799999999999999999998
No 281
>PTZ00035 Rad51 protein; Provisional
Probab=95.76 E-value=0.12 Score=48.45 Aligned_cols=105 Identities=8% Similarity=-0.028 Sum_probs=59.1
Q ss_pred HHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCC----CceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc--
Q 038944 168 LLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVK----HYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS-- 241 (334)
Q Consensus 168 l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~----~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~-- 241 (334)
|=++|..+=+.-.++.|+|.+|+|||||+..+.-..... ..=...+|+.....|++.++ .++.+.++......
T Consensus 107 LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~ 185 (337)
T PTZ00035 107 LDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLD 185 (337)
T ss_pred HHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhh
Confidence 333444443566899999999999999998886432211 01124568888787888774 44455554432110
Q ss_pred -----ccchhh-HHHHHHHHHHHc-CCCeEEEEEeCCCC
Q 038944 242 -----EIMDKN-YEMKKIILHEYL-MTKRYLNVIDDVWN 273 (334)
Q Consensus 242 -----~~~~~~-~~~l~~~l~~~L-~~kr~LlVlDdvw~ 273 (334)
...+.+ +-.+...+...+ .++--|||+|-+-.
T Consensus 186 nI~~~~~~~~e~~~~~l~~~~~~l~~~~~~lvVIDSita 224 (337)
T PTZ00035 186 NIAYARAYNHEHQMQLLSQAAAKMAEERFALLIVDSATA 224 (337)
T ss_pred ceEEEccCCHHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence 011111 012223333333 34456999999853
No 282
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.75 E-value=0.16 Score=48.84 Aligned_cols=45 Identities=9% Similarity=-0.007 Sum_probs=28.8
Q ss_pred HHHHHHHHc---CCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEe
Q 038944 251 KKIILHEYL---MTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLIT 296 (334)
Q Consensus 251 l~~~l~~~L---~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivT 296 (334)
+...+..+. ..-+.+||||=-...++..++...|...+ =+.+|+|
T Consensus 287 ~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~~~~-~~~~I~T 334 (420)
T PRK14721 287 LAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQGHG-IHGCIIT 334 (420)
T ss_pred HHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhcCCC-CCEEEEE
Confidence 444444432 23367888888888888888887775433 3457776
No 283
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.74 E-value=0.033 Score=52.67 Aligned_cols=23 Identities=13% Similarity=0.211 Sum_probs=20.7
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.++.++|+.|+||||++.++..
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~ 159 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAA 159 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHH
Confidence 46999999999999999988876
No 284
>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=95.73 E-value=0.026 Score=53.00 Aligned_cols=114 Identities=12% Similarity=0.094 Sum_probs=65.3
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY 258 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~ 258 (334)
-..+.|.|..|+||||+.+.+.+ .+..+...+++. +..+.. -..... ..+-.... ...+.. .....++..
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~--~i~~~~~~~i~t-iEdp~E--~~~~~~-~~~i~q~e--vg~~~~--~~~~~l~~~ 191 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMID--YINKNAAGHIIT-IEDPIE--YVHRNK-RSLINQRE--VGLDTL--SFANALRAA 191 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHH--hhCcCCCCEEEE-EcCChh--hhccCc-cceEEccc--cCCCCc--CHHHHHHHh
Confidence 46899999999999999999887 343344445543 222211 000000 00000000 011112 455567777
Q ss_pred cCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHHhh
Q 038944 259 LMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMFTF 305 (334)
Q Consensus 259 L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~~ 305 (334)
|....=.|++|.+.+.+.+.....+ ...|--|+.|+.-.+++..
T Consensus 192 lr~~pd~i~vgEird~~~~~~~l~a---a~tGh~v~~T~Ha~~~~~~ 235 (343)
T TIGR01420 192 LREDPDVILIGEMRDLETVELALTA---AETGHLVFGTLHTNSAAQT 235 (343)
T ss_pred hccCCCEEEEeCCCCHHHHHHHHHH---HHcCCcEEEEEcCCCHHHH
Confidence 8778889999999988877654433 2345557777776665543
No 285
>PRK12678 transcription termination factor Rho; Provisional
Probab=95.72 E-value=0.022 Score=56.19 Aligned_cols=89 Identities=15% Similarity=0.062 Sum_probs=48.2
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCceeeEE-EEEcCCCC-CHHHHHHHHHHHhCCCCC-cc--ccchhhHHHHHHHH
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHA-WVPGTYPY-DADQMLDIVIKFLMPSSR-LS--EIMDKNYEMKKIIL 255 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~-wv~vs~~~-~~~~il~~il~~~~~~~~-~~--~~~~~~~~~l~~~l 255 (334)
-..|+|.+|+|||||++.|.+... ..+=++.+ .+-|.+.. .+..+.+.+-..+-.... .+ ...... .+.-.+
T Consensus 418 R~LIvgpp~aGKTtLL~~IAn~i~-~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~~~~a--~~ai~~ 494 (672)
T PRK12678 418 RGLIVSPPKAGKTTILQNIANAIT-TNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVA--ELAIER 494 (672)
T ss_pred EeEEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHHHHHH--HHHHHH
Confidence 578999999999999999988321 12333443 44555543 233333332000100111 00 111112 334445
Q ss_pred HHHc--CCCeEEEEEeCCC
Q 038944 256 HEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 256 ~~~L--~~kr~LlVlDdvw 272 (334)
-++| .|+..||++|++-
T Consensus 495 Ae~fre~G~dVlillDSlT 513 (672)
T PRK12678 495 AKRLVELGKDVVVLLDSIT 513 (672)
T ss_pred HHHHHHcCCCEEEEEeCch
Confidence 5555 7899999999994
No 286
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=95.71 E-value=0.021 Score=48.31 Aligned_cols=22 Identities=23% Similarity=0.323 Sum_probs=20.1
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.|.|+|.+|+||||+|+.+.+.
T Consensus 2 riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999999985
No 287
>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=95.71 E-value=0.0071 Score=52.21 Aligned_cols=22 Identities=9% Similarity=-0.028 Sum_probs=20.4
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.++.|+|..|.|||||.+.+..
T Consensus 30 ~~~~l~G~Ng~GKStll~~i~~ 51 (202)
T cd03243 30 RLLLITGPNMGGKSTYLRSIGL 51 (202)
T ss_pred eEEEEECCCCCccHHHHHHHHH
Confidence 6999999999999999999983
No 288
>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=95.70 E-value=0.013 Score=46.47 Aligned_cols=28 Identities=18% Similarity=0.182 Sum_probs=19.4
Q ss_pred EEEEccCCccHHHHHHHHHccCCCCCceee
Q 038944 182 VVILDSIGLDKAAFAGEAYNSSYVKHYFDC 211 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~~~~~~~F~~ 211 (334)
+-++|.+|+||||+|+.+.. .+...|..
T Consensus 2 vLleg~PG~GKT~la~~lA~--~~~~~f~R 29 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALAR--SLGLSFKR 29 (131)
T ss_dssp EEEES---HHHHHHHHHHHH--HTT--EEE
T ss_pred EeeECCCccHHHHHHHHHHH--HcCCceeE
Confidence 56899999999999999998 66677754
No 289
>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=95.67 E-value=0.023 Score=54.83 Aligned_cols=99 Identities=8% Similarity=0.128 Sum_probs=59.9
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc-----cc-----chhhH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS-----EI-----MDKNY 248 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~-----~~-----~~~~~ 248 (334)
.-++|.|.+|+|||+|+..+..+.. +.+-++++++-+.... .+.+++.++...-..+.... +. ....
T Consensus 139 Qr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~- 216 (449)
T TIGR03305 139 GKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG- 216 (449)
T ss_pred CEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH-
Confidence 3689999999999999998876532 2334678888887665 45666776665321111000 00 0011
Q ss_pred HHHHHHHHHHc---CCCeEEEEEeCCCCh-hHHHHHH
Q 038944 249 EMKKIILHEYL---MTKRYLNVIDDVWNI-EVCDIIR 281 (334)
Q Consensus 249 ~~l~~~l~~~L---~~kr~LlVlDdvw~~-~~w~~l~ 281 (334)
...-.+-+++ +|+..|+++||+-.- ..+.++.
T Consensus 217 -~~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REis 252 (449)
T TIGR03305 217 -HTALTMAEYFRDDEKQDVLLLIDNIFRFIQAGSEVS 252 (449)
T ss_pred -HHHHHHHHHHHHhcCCceEEEecChHHHHHHHHHHH
Confidence 2334455555 579999999999432 3444443
No 290
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=95.67 E-value=0.0073 Score=51.51 Aligned_cols=22 Identities=18% Similarity=0.040 Sum_probs=20.2
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
+|+|.|.+|+||||||+.+...
T Consensus 1 ii~i~G~sgsGKTtla~~l~~~ 22 (187)
T cd02024 1 IVGISGVTNSGKTTLAKLLQRI 22 (187)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999884
No 291
>PLN02318 phosphoribulokinase/uridine kinase
Probab=95.67 E-value=0.014 Score=57.81 Aligned_cols=35 Identities=20% Similarity=0.244 Sum_probs=28.5
Q ss_pred HHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 168 LLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 168 l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++.|.....+..+|+|.|..|+||||||+.+...
T Consensus 54 a~qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lagl 88 (656)
T PLN02318 54 ACQLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNF 88 (656)
T ss_pred HHHHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence 44555555567899999999999999999999873
No 292
>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=95.66 E-value=0.0077 Score=51.02 Aligned_cols=22 Identities=36% Similarity=0.371 Sum_probs=20.1
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
+|+|.|.+|+||||||+.+...
T Consensus 1 ii~i~G~sgsGKttla~~l~~~ 22 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQ 22 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999874
No 293
>PRK13947 shikimate kinase; Provisional
Probab=95.66 E-value=0.0088 Score=49.93 Aligned_cols=21 Identities=14% Similarity=0.284 Sum_probs=19.6
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-|.|+|++|+||||+|+.+.+
T Consensus 3 ~I~l~G~~GsGKst~a~~La~ 23 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVAT 23 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHH
Confidence 488999999999999999988
No 294
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=95.65 E-value=0.034 Score=53.88 Aligned_cols=92 Identities=12% Similarity=0.166 Sum_probs=53.9
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh---h---HHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK---N---YEM 250 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~---~---~~~ 250 (334)
.-++|.|..|+|||||+..+........ =+.++++-+.... .+.+++.+++..-..+.... ...+. . --.
T Consensus 145 QR~gIfa~~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~ 223 (463)
T PRK09280 145 GKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVAL 223 (463)
T ss_pred CEEEeecCCCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence 3689999999999999988765322111 1356777776654 56677777765422111000 00000 0 002
Q ss_pred HHHHHHHHc---CCCeEEEEEeCCC
Q 038944 251 KKIILHEYL---MTKRYLNVIDDVW 272 (334)
Q Consensus 251 l~~~l~~~L---~~kr~LlVlDdvw 272 (334)
..-.+-+++ +||..||++||+-
T Consensus 224 ~a~tiAEyfrd~~G~~VLll~DslT 248 (463)
T PRK09280 224 TGLTMAEYFRDVEGQDVLLFIDNIF 248 (463)
T ss_pred HHHHHHHHHHHhcCCceEEEecchH
Confidence 233455555 7899999999994
No 295
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=95.65 E-value=0.075 Score=52.82 Aligned_cols=48 Identities=13% Similarity=0.074 Sum_probs=36.0
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|....+.++++.+..-...-.-|.|+|..|+||+++|+.++..
T Consensus 203 f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~ 250 (520)
T PRK10820 203 FSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLR 250 (520)
T ss_pred ccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHh
Confidence 346899998888888777532111223779999999999999999864
No 296
>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=95.64 E-value=0.017 Score=48.94 Aligned_cols=37 Identities=14% Similarity=0.087 Sum_probs=29.7
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPG 217 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~v 217 (334)
.+++.|+|+.|+|||||++.+.. .....|...++.+-
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~TT 38 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHTT 38 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEES
T ss_pred CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeecc
Confidence 46889999999999999999998 55667865555544
No 297
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=95.64 E-value=0.044 Score=47.09 Aligned_cols=26 Identities=8% Similarity=0.144 Sum_probs=22.8
Q ss_pred CceEEEEEccCCccHHHHHHHHHccC
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
....|+|+|.+|+|||||...+.+..
T Consensus 40 ~~~~I~iiG~~g~GKStLl~~l~~~~ 65 (204)
T cd01878 40 GIPTVALVGYTNAGKSTLFNALTGAD 65 (204)
T ss_pred CCCeEEEECCCCCCHHHHHHHHhcch
Confidence 45789999999999999999998753
No 298
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=95.64 E-value=0.06 Score=49.56 Aligned_cols=112 Identities=15% Similarity=0.103 Sum_probs=65.7
Q ss_pred CCeeechhhHHHHHHHHhcC--CCCceEEEEEccCCccHHHHHHHHHcc-CCCCCceeeEEEEEcCCCCCH-HHHHHHHH
Q 038944 156 RDTVGLDDRMEELLDLLIEG--PPQLSVVVILDSIGLDKAAFAGEAYNS-SYVKHYFDCHAWVPGTYPYDA-DQMLDIVI 231 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~--~~~~~vi~IvG~gGvGKTtLa~~v~~~-~~~~~~F~~~~wv~vs~~~~~-~~il~~il 231 (334)
..++|..++..++-.||... .....-+.|+|+.|.|||+|.-.+..+ ++.+++|- -|...+..-. +-.++.|.
T Consensus 24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l---~v~Lng~~~~dk~al~~I~ 100 (408)
T KOG2228|consen 24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFL---LVRLNGELQTDKIALKGIT 100 (408)
T ss_pred cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEE---EEEECccchhhHHHHHHHH
Confidence 35899999999999998753 123456789999999999999888775 34455553 2334444322 22356666
Q ss_pred HHhCCCCCcc--ccchhhHHHHHHHHHHHcC------CCeEEEEEeCCC
Q 038944 232 KFLMPSSRLS--EIMDKNYEMKKIILHEYLM------TKRYLNVIDDVW 272 (334)
Q Consensus 232 ~~~~~~~~~~--~~~~~~~~~l~~~l~~~L~------~kr~LlVlDdvw 272 (334)
.|+..+.... ...+.. +...++-..|+ +-+.++|+|...
T Consensus 101 rql~~e~~~~~k~~gsft--e~l~~lL~~L~~~~~~t~~~ViFIldEfD 147 (408)
T KOG2228|consen 101 RQLALELNRIVKSFGSFT--ENLSKLLEALKKGDETTSGKVIFILDEFD 147 (408)
T ss_pred HHHHHHHhhhheeecccc--hhHHHHHHHHhcCCCCCCceEEEEeehhh
Confidence 6554432211 111112 33333434442 234777887764
No 299
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=95.64 E-value=0.078 Score=50.17 Aligned_cols=24 Identities=25% Similarity=0.354 Sum_probs=19.9
Q ss_pred CceEEEEEccCCccHHH-HHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAA-FAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTt-La~~v~~ 201 (334)
+-+|+++||+.|+|||| ||+....
T Consensus 202 ~~~vi~LVGPTGVGKTTTlAKLAar 226 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTLAKLAAR 226 (407)
T ss_pred cCcEEEEECCCCCcHHHHHHHHHHH
Confidence 36899999999999987 7776654
No 300
>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=95.63 E-value=0.0078 Score=48.65 Aligned_cols=21 Identities=19% Similarity=0.185 Sum_probs=19.7
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
||.|.|.+|+||||+|+.+..
T Consensus 1 ~I~i~G~~GsGKst~a~~la~ 21 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAK 21 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 589999999999999999987
No 301
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.63 E-value=0.076 Score=53.38 Aligned_cols=96 Identities=11% Similarity=0.081 Sum_probs=54.6
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC--CHHHHHHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY--DADQMLDIVIK 232 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~il~~il~ 232 (334)
+.+++-....+++..+.....-....-|-+.|..|+|||+||+.+++... +.+.-....|+.|.-. ....+++
T Consensus 407 e~d~i~~~s~kke~~n~~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk---- 481 (952)
T KOG0735|consen 407 EHDFIQVPSYKKENANQELSPVFRHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQK---- 481 (952)
T ss_pred CCceeecchhhhhhhhhhcccccccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHH----
Confidence 33444333333333333333322345688999999999999999998644 3443344455544321 1111111
Q ss_pred HhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCC
Q 038944 233 FLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVW 272 (334)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw 272 (334)
.+...+.+.+....-+|||||+.
T Consensus 482 -----------------~l~~vfse~~~~~PSiIvLDdld 504 (952)
T KOG0735|consen 482 -----------------FLNNVFSEALWYAPSIIVLDDLD 504 (952)
T ss_pred -----------------HHHHHHHHHHhhCCcEEEEcchh
Confidence 23344445566678899999995
No 302
>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=95.62 E-value=0.011 Score=45.96 Aligned_cols=22 Identities=18% Similarity=0.391 Sum_probs=19.8
Q ss_pred EEEEccCCccHHHHHHHHHccC
Q 038944 182 VVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~~ 203 (334)
|.|+|..|+|||||.+.+.+..
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 7899999999999999998754
No 303
>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=95.62 E-value=0.16 Score=44.30 Aligned_cols=21 Identities=10% Similarity=0.162 Sum_probs=19.5
Q ss_pred eEEEEEccCCccHHHHHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAY 200 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~ 200 (334)
.++.|.|+.|.||||+.+.+.
T Consensus 31 ~~~~l~Gpn~sGKstllr~i~ 51 (216)
T cd03284 31 QILLITGPNMAGKSTYLRQVA 51 (216)
T ss_pred eEEEEECCCCCChHHHHHHHH
Confidence 789999999999999999984
No 304
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=95.62 E-value=0.01 Score=50.92 Aligned_cols=26 Identities=27% Similarity=0.210 Sum_probs=22.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCC
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSY 204 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~ 204 (334)
..+|+|=||-|+||||||+.+.++..
T Consensus 4 ~~~IvI~G~IG~GKSTLa~~La~~l~ 29 (216)
T COG1428 4 AMVIVIEGMIGAGKSTLAQALAEHLG 29 (216)
T ss_pred ccEEEEecccccCHHHHHHHHHHHhC
Confidence 56899999999999999999988533
No 305
>PRK05439 pantothenate kinase; Provisional
Probab=95.62 E-value=0.076 Score=48.94 Aligned_cols=25 Identities=16% Similarity=0.061 Sum_probs=22.5
Q ss_pred CCceEEEEEccCCccHHHHHHHHHc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...-+|+|.|.+|+||||+|+.+..
T Consensus 84 ~~~~iIgIaG~~gsGKSTla~~L~~ 108 (311)
T PRK05439 84 KVPFIIGIAGSVAVGKSTTARLLQA 108 (311)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHH
Confidence 4578999999999999999998876
No 306
>PRK06217 hypothetical protein; Validated
Probab=95.61 E-value=0.01 Score=50.30 Aligned_cols=24 Identities=8% Similarity=0.057 Sum_probs=21.1
Q ss_pred eEEEEEccCCccHHHHHHHHHccC
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
..|.|.|++|+||||||+.+....
T Consensus 2 ~~I~i~G~~GsGKSTla~~L~~~l 25 (183)
T PRK06217 2 MRIHITGASGSGTTTLGAALAERL 25 (183)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHc
Confidence 358999999999999999999853
No 307
>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=95.60 E-value=0.049 Score=44.79 Aligned_cols=115 Identities=10% Similarity=0.110 Sum_probs=58.8
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC--CCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY--PYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHE 257 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~--~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~ 257 (334)
.+++|+|..|.|||||.+.+..-.. ...-.+++.-.. ........ ..+..-.. -+..+ ...-.+..
T Consensus 26 ~~~~i~G~nGsGKStll~~l~g~~~---~~~G~i~~~~~~~~~~~~~~~~----~~i~~~~q--lS~G~---~~r~~l~~ 93 (157)
T cd00267 26 EIVALVGPNGSGKSTLLRAIAGLLK---PTSGEILIDGKDIAKLPLEELR----RRIGYVPQ--LSGGQ---RQRVALAR 93 (157)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCC---CCccEEEECCEEcccCCHHHHH----hceEEEee--CCHHH---HHHHHHHH
Confidence 6899999999999999999987321 223333332111 11111111 11110000 00111 22223444
Q ss_pred HcCCCeEEEEEeCCCC---hhHHHHHHhhCCC-CCCCeEEEEecCChHHHhhc
Q 038944 258 YLMTKRYLNVIDDVWN---IEVCDIIREILPD-NQNRSRVLITLTEIKMFTFL 306 (334)
Q Consensus 258 ~L~~kr~LlVlDdvw~---~~~w~~l~~~l~~-~~~gsrIivTTr~~~va~~~ 306 (334)
.+....-+++||+.-. ......+...+.. ...+.-+|++|.+.+....+
T Consensus 94 ~l~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~~ 146 (157)
T cd00267 94 ALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAELA 146 (157)
T ss_pred HHhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHh
Confidence 4545567889999853 3333333333321 11245688888888776654
No 308
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=95.60 E-value=0.013 Score=52.13 Aligned_cols=38 Identities=21% Similarity=0.211 Sum_probs=29.3
Q ss_pred hHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 164 RMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 164 ~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++++.+.....+..+|+|.|.+|+||+||...+..
T Consensus 14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~ 51 (266)
T PF03308_consen 14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIR 51 (266)
T ss_dssp HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHH
T ss_pred HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHH
Confidence 45667777776666788999999999999999987765
No 309
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=95.59 E-value=0.082 Score=49.06 Aligned_cols=95 Identities=16% Similarity=0.122 Sum_probs=60.2
Q ss_pred CCCCCeeechhhHHHHHHHHhcC----C-------CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEG----P-------PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY 221 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~----~-------~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~ 221 (334)
+.-.++=|.+++.++|.+...-+ + .+.+=+-.+|++|.|||-||+.|.+ +....|= .|..+
T Consensus 148 vtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~--~T~AtFI-----rvvgS- 219 (406)
T COG1222 148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVAN--QTDATFI-----RVVGS- 219 (406)
T ss_pred CChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHh--ccCceEE-----EeccH-
Confidence 33445678899999988876421 1 3566788999999999999999999 5555552 22221
Q ss_pred CHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCC-CeEEEEEeCCC
Q 038944 222 DADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMT-KRYLNVIDDVW 272 (334)
Q Consensus 222 ~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~-kr~LlVlDdvw 272 (334)
++.+ ..-++. . .+...+.+.-+. ..+.|.+|.+.
T Consensus 220 ---ElVq----KYiGEG--------a--RlVRelF~lArekaPsIIFiDEID 254 (406)
T COG1222 220 ---ELVQ----KYIGEG--------A--RLVRELFELAREKAPSIIFIDEID 254 (406)
T ss_pred ---HHHH----HHhccc--------h--HHHHHHHHHHhhcCCeEEEEechh
Confidence 2211 111111 1 556666666544 46788888885
No 310
>PRK13949 shikimate kinase; Provisional
Probab=95.58 E-value=0.01 Score=49.77 Aligned_cols=22 Identities=9% Similarity=0.228 Sum_probs=20.1
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-|.|+|++|+||||+++.+.+.
T Consensus 3 ~I~liG~~GsGKstl~~~La~~ 24 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALARE 24 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999883
No 311
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.57 E-value=0.18 Score=47.99 Aligned_cols=24 Identities=13% Similarity=0.254 Sum_probs=20.9
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++.++|..|+||||.+..+..
T Consensus 173 ~~~vi~lvGptGvGKTTT~aKLA~ 196 (388)
T PRK12723 173 KKRVFILVGPTGVGKTTTIAKLAA 196 (388)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 357999999999999998887765
No 312
>COG3903 Predicted ATPase [General function prediction only]
Probab=95.57 E-value=0.011 Score=55.53 Aligned_cols=113 Identities=19% Similarity=0.145 Sum_probs=73.9
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCCCCCceee-EEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHH
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDC-HAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILH 256 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~ 256 (334)
..+-+.++|.|||||||++-.+-. +..-|.- +++|...+--|...+.-.....++....+ -+ .....+.
T Consensus 13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~-----g~--~~~~~~~ 82 (414)
T COG3903 13 ALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQP-----GD--SAVDTLV 82 (414)
T ss_pred hhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhccccccc-----ch--HHHHHHH
Confidence 467899999999999999988776 4555755 44455555456666666655556554331 11 5566777
Q ss_pred HHcCCCeEEEEEeCCCCh-hHHHHHHhhCCCCCCCeEEEEecCCh
Q 038944 257 EYLMTKRYLNVIDDVWNI-EVCDIIREILPDNQNRSRVLITLTEI 300 (334)
Q Consensus 257 ~~L~~kr~LlVlDdvw~~-~~w~~l~~~l~~~~~gsrIivTTr~~ 300 (334)
.+..++|-++|+||.-+. +.-..+.-++-.+...-.|+.|+|..
T Consensus 83 ~~~~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~ 127 (414)
T COG3903 83 RRIGDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREA 127 (414)
T ss_pred HHHhhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhh
Confidence 888899999999998654 23333333443444455677787754
No 313
>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=95.56 E-value=0.031 Score=56.41 Aligned_cols=75 Identities=11% Similarity=0.037 Sum_probs=49.9
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCC-ceeeEEEEEcCCCCCHHHHHHHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKH-YFDCHAWVPGTYPYDADQMLDIVIKF 233 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~-~F~~~~wv~vs~~~~~~~il~~il~~ 233 (334)
-++++|.++.++.+...+.... -+-++|++|+||||+++.+.+ .+.. .|...+++.-+ ..+...+++.+..+
T Consensus 17 ~~~viG~~~a~~~l~~a~~~~~----~~ll~G~pG~GKT~la~~la~--~l~~~~~~~~~~~~n~-~~~~~~~~~~v~~~ 89 (608)
T TIGR00764 17 IDQVIGQEEAVEIIKKAAKQKR----NVLLIGEPGVGKSMLAKAMAE--LLPDEELEDILVYPNP-EDPNMPRIVEVPAG 89 (608)
T ss_pred HhhccCHHHHHHHHHHHHHcCC----CEEEECCCCCCHHHHHHHHHH--HcCchhheeEEEEeCC-CCCchHHHHHHHHh
Confidence 3457888888877777666542 445899999999999999998 4433 33444444333 23455667777766
Q ss_pred hCC
Q 038944 234 LMP 236 (334)
Q Consensus 234 ~~~ 236 (334)
++.
T Consensus 90 ~g~ 92 (608)
T TIGR00764 90 EGR 92 (608)
T ss_pred hch
Confidence 654
No 314
>PRK03846 adenylylsulfate kinase; Provisional
Probab=95.54 E-value=0.013 Score=50.47 Aligned_cols=25 Identities=20% Similarity=0.124 Sum_probs=22.7
Q ss_pred CCceEEEEEccCCccHHHHHHHHHc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++..++.|+|++|+||||||+.+..
T Consensus 22 ~~~~~i~i~G~~GsGKSTla~~l~~ 46 (198)
T PRK03846 22 HKGVVLWFTGLSGSGKSTVAGALEE 46 (198)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHH
Confidence 4567999999999999999999987
No 315
>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=95.53 E-value=0.033 Score=51.49 Aligned_cols=115 Identities=13% Similarity=0.085 Sum_probs=60.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEY 258 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~ 258 (334)
-..+.|+|..|.|||||++.+... +..... .+.+.-..++.... .....-...... ...... ...+.+...
T Consensus 144 ~~~ili~G~tGsGKTTll~al~~~--~~~~~~-iv~ied~~El~~~~--~~~~~l~~~~~~--~~~~~~--~~~~~l~~~ 214 (308)
T TIGR02788 144 RKNIIISGGTGSGKTTFLKSLVDE--IPKDER-IITIEDTREIFLPH--PNYVHLFYSKGG--QGLAKV--TPKDLLQSC 214 (308)
T ss_pred CCEEEEECCCCCCHHHHHHHHHcc--CCcccc-EEEEcCccccCCCC--CCEEEEEecCCC--CCcCcc--CHHHHHHHH
Confidence 468999999999999999988863 211111 11111111111110 000000000000 001112 344555666
Q ss_pred cCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHHhh
Q 038944 259 LMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMFTF 305 (334)
Q Consensus 259 L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~~ 305 (334)
|+...=.|++|.+.+.+.|+-+... ..+..| ++.|+...+++..
T Consensus 215 Lr~~pd~ii~gE~r~~e~~~~l~a~-~~g~~~--~i~T~Ha~~~~~~ 258 (308)
T TIGR02788 215 LRMRPDRIILGELRGDEAFDFIRAV-NTGHPG--SITTLHAGSPEEA 258 (308)
T ss_pred hcCCCCeEEEeccCCHHHHHHHHHH-hcCCCe--EEEEEeCCCHHHH
Confidence 7777778999999998887654443 233222 5778877776554
No 316
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.53 E-value=0.16 Score=52.18 Aligned_cols=23 Identities=13% Similarity=0.221 Sum_probs=20.2
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.|++++|+.|+||||.+.++..
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~ 207 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAA 207 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHh
Confidence 46999999999999998877765
No 317
>PRK00300 gmk guanylate kinase; Provisional
Probab=95.52 E-value=0.012 Score=50.77 Aligned_cols=24 Identities=13% Similarity=0.170 Sum_probs=21.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+|+|+|+.|+|||||++.+...
T Consensus 5 g~~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 5 GLLIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhh
Confidence 468999999999999999999884
No 318
>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=95.51 E-value=0.077 Score=48.08 Aligned_cols=25 Identities=16% Similarity=0.250 Sum_probs=21.2
Q ss_pred CCceEEEEEccCCccHHHHHHHHHc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+.+++.++|.+|+||||++..+..
T Consensus 70 ~~~~vi~l~G~~G~GKTTt~akLA~ 94 (272)
T TIGR00064 70 NKPNVILFVGVNGVGKTTTIAKLAN 94 (272)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHH
Confidence 3468999999999999998877764
No 319
>PRK05688 fliI flagellum-specific ATP synthase; Validated
Probab=95.47 E-value=0.069 Score=51.61 Aligned_cols=90 Identities=11% Similarity=0.030 Sum_probs=50.1
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCC-CCHHHHHHHHHHHhCCCCCcc-----ccchhh---HHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYP-YDADQMLDIVIKFLMPSSRLS-----EIMDKN---YEM 250 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~il~~il~~~~~~~~~~-----~~~~~~---~~~ 250 (334)
..++|+|..|+|||||++.+.+... .++.+...+... .+..++...++..-....... +..... .-.
T Consensus 169 qrigI~G~sG~GKSTLl~~I~g~~~----~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~~ 244 (451)
T PRK05688 169 QRLGLFAGTGVGKSVLLGMMTRFTE----ADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAAM 244 (451)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCCC----CCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHHH
Confidence 4789999999999999999987321 233333444433 345555555554422211100 010000 001
Q ss_pred HHHHHHHHc--CCCeEEEEEeCCCC
Q 038944 251 KKIILHEYL--MTKRYLNVIDDVWN 273 (334)
Q Consensus 251 l~~~l~~~L--~~kr~LlVlDdvw~ 273 (334)
....+-+++ +|+..|+++||+-.
T Consensus 245 ~a~aiAEyfrd~G~~VLl~~DslTR 269 (451)
T PRK05688 245 YCTRIAEYFRDKGKNVLLLMDSLTR 269 (451)
T ss_pred HHHHHHHHHHHCCCCEEEEecchhH
Confidence 223344444 69999999999943
No 320
>PTZ00088 adenylate kinase 1; Provisional
Probab=95.46 E-value=0.022 Score=50.30 Aligned_cols=22 Identities=23% Similarity=0.376 Sum_probs=19.7
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-|.|+|++|+||||+|+.+.+.
T Consensus 8 rIvl~G~PGsGK~T~a~~La~~ 29 (229)
T PTZ00088 8 KIVLFGAPGVGKGTFAEILSKK 29 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 3889999999999999999773
No 321
>PRK06793 fliI flagellum-specific ATP synthase; Validated
Probab=95.45 E-value=0.21 Score=48.09 Aligned_cols=124 Identities=10% Similarity=0.041 Sum_probs=70.2
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC-CCCHHHHHHHHHHHhCCCCCcc-----cc-c--hhhHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY-PYDADQMLDIVIKFLMPSSRLS-----EI-M--DKNYE 249 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~il~~il~~~~~~~~~~-----~~-~--~~~~~ 249 (334)
-..++|+|..|+|||||.+.+....+. +......+.+ ...+.+++...+..-+...... +. . ....-
T Consensus 156 Gqri~I~G~sG~GKTtLl~~Ia~~~~~----~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~ 231 (432)
T PRK06793 156 GQKIGIFAGSGVGKSTLLGMIAKNAKA----DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAA 231 (432)
T ss_pred CcEEEEECCCCCChHHHHHHHhccCCC----CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHH
Confidence 347899999999999999999874322 1222223333 3667777776665533211100 00 0 00000
Q ss_pred HHHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHHHhhC---CCCCCCeEEEEecCChHHHhhccc
Q 038944 250 MKKIILHEYL--MTKRYLNVIDDVWNI-EVCDIIREIL---PDNQNRSRVLITLTEIKMFTFLLE 308 (334)
Q Consensus 250 ~l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l~~~l---~~~~~gsrIivTTr~~~va~~~~~ 308 (334)
.....+-+++ ++|..||++||+-.- +....+...+ |. .|--..+.|....+++.++.
T Consensus 232 ~~a~~iAEyfr~~G~~VLlilDslTr~a~A~reisl~~~e~p~--~G~~~~~~s~l~~L~ERag~ 294 (432)
T PRK06793 232 KLATSIAEYFRDQGNNVLLMMDSVTRFADARRSVDIAVKELPI--GGKTLLMESYMKKLLERSGK 294 (432)
T ss_pred HHHHHHHHHHHHcCCcEEEEecchHHHHHHHHHHHHHhcCCCC--CCeeeeeeccchhHHHHhcc
Confidence 2333344444 689999999999543 4555665443 32 25555666666666666553
No 322
>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=95.45 E-value=0.12 Score=45.47 Aligned_cols=45 Identities=18% Similarity=0.162 Sum_probs=30.2
Q ss_pred CCeEEEEEeCCCCh----h----HHHHHHhhCCCCCCCeEEEEecCChHHHhhcc
Q 038944 261 TKRYLNVIDDVWNI----E----VCDIIREILPDNQNRSRVLITLTEIKMFTFLL 307 (334)
Q Consensus 261 ~kr~LlVlDdvw~~----~----~w~~l~~~l~~~~~gsrIivTTr~~~va~~~~ 307 (334)
+++-|++||..-.. + .|. +...|... .++.+|++|...+++....
T Consensus 109 ~~~sLvllDE~~~gT~~~d~~~i~~~-il~~l~~~-~~~~~i~~TH~~~l~~~~~ 161 (222)
T cd03287 109 TSRSLVILDELGRGTSTHDGIAIAYA-TLHYLLEE-KKCLVLFVTHYPSLGEILR 161 (222)
T ss_pred CCCeEEEEccCCCCCChhhHHHHHHH-HHHHHHhc-cCCeEEEEcccHHHHHHHH
Confidence 57899999997432 1 233 33333332 5788999999999987653
No 323
>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=95.43 E-value=0.066 Score=50.77 Aligned_cols=98 Identities=20% Similarity=0.110 Sum_probs=52.1
Q ss_pred HHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccc-h
Q 038944 167 ELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIM-D 245 (334)
Q Consensus 167 ~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~-~ 245 (334)
+|=..|..+=..-.++.|.|.+|+|||||+..+... ....-...+|++... +...+.. -++.++......... .
T Consensus 70 eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~--~a~~g~~VlYvs~EE--s~~qi~~-Ra~rlg~~~~~l~l~~e 144 (372)
T cd01121 70 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAAR--LAKRGGKVLYVSGEE--SPEQIKL-RADRLGISTENLYLLAE 144 (372)
T ss_pred HHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCc--CHHHHHH-HHHHcCCCcccEEEEcc
Confidence 333444333344579999999999999999888763 222223566766543 3344322 234454332211000 1
Q ss_pred hhHHHHHHHHHHHcCCCeEEEEEeCCC
Q 038944 246 KNYEMKKIILHEYLMTKRYLNVIDDVW 272 (334)
Q Consensus 246 ~~~~~l~~~l~~~L~~kr~LlVlDdvw 272 (334)
..++.+...+. ..+.-+||+|.+-
T Consensus 145 ~~le~I~~~i~---~~~~~lVVIDSIq 168 (372)
T cd01121 145 TNLEDILASIE---ELKPDLVIIDSIQ 168 (372)
T ss_pred CcHHHHHHHHH---hcCCcEEEEcchH
Confidence 11224444443 2355689999983
No 324
>PRK05922 type III secretion system ATPase; Validated
Probab=95.42 E-value=0.075 Score=51.14 Aligned_cols=89 Identities=10% Similarity=0.062 Sum_probs=49.5
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC-CCCHHHHHHHHHHHhCCCCCcc--ccchh------hHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY-PYDADQMLDIVIKFLMPSSRLS--EIMDK------NYEM 250 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~il~~il~~~~~~~~~~--~~~~~------~~~~ 250 (334)
..++|+|..|+|||||.+.+.+... .++...+.++. .-.+...+.+............ ...+. ..-.
T Consensus 158 qrigI~G~nG~GKSTLL~~Ia~~~~----~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~ 233 (434)
T PRK05922 158 QRIGVFSEPGSGKSSLLSTIAKGSK----STINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGR 233 (434)
T ss_pred cEEEEECCCCCChHHHHHHHhccCC----CCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHH
Confidence 4689999999999999999987421 23333333333 2234455555544332221100 01110 0002
Q ss_pred HHHHHHHHc--CCCeEEEEEeCCC
Q 038944 251 KKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 251 l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
..-.+-+++ +|+..|+++||+-
T Consensus 234 ~a~tiAEyfrd~G~~VLl~~DslT 257 (434)
T PRK05922 234 AAMTIAEYFRDQGHRVLFIMDSLS 257 (434)
T ss_pred HHHHHHHHHHHcCCCEEEeccchh
Confidence 233344555 6899999999994
No 325
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.41 E-value=0.041 Score=54.08 Aligned_cols=24 Identities=13% Similarity=0.203 Sum_probs=20.7
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.-.+++++|.+|+||||++..+..
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa 372 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQ 372 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHH
Confidence 347999999999999999987764
No 326
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=95.41 E-value=0.013 Score=49.89 Aligned_cols=23 Identities=9% Similarity=0.206 Sum_probs=20.7
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++.|+|+.|+|||||++.+...
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~~ 25 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQR 25 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhcc
Confidence 37899999999999999999874
No 327
>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=95.38 E-value=0.014 Score=53.27 Aligned_cols=25 Identities=16% Similarity=0.099 Sum_probs=21.3
Q ss_pred CCceEEEEEccCCccHHHHHHHHHc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
....+|+|.|..|+||||+|+.+..
T Consensus 60 ~~p~IIGIaG~~GSGKSTlar~L~~ 84 (290)
T TIGR00554 60 KIPYIISIAGSVAVGKSTTARILQA 84 (290)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHH
Confidence 4567999999999999999987643
No 328
>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.38 E-value=0.16 Score=44.45 Aligned_cols=60 Identities=13% Similarity=0.180 Sum_probs=38.8
Q ss_pred HHHHHHcCCCeEEEEEeCCCCh---hHHHHHHhhCCC-CCCCeEEEEecCChHHHhhccccCcc
Q 038944 253 IILHEYLMTKRYLNVIDDVWNI---EVCDIIREILPD-NQNRSRVLITLTEIKMFTFLLETLFS 312 (334)
Q Consensus 253 ~~l~~~L~~kr~LlVlDdvw~~---~~w~~l~~~l~~-~~~gsrIivTTr~~~va~~~~~~~~~ 312 (334)
..+.+.+--+.=|.|||...+- +..+.+...+.. ...|+-++++|..+.++....++..+
T Consensus 153 ~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~vh 216 (251)
T COG0396 153 NEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVH 216 (251)
T ss_pred HHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEEE
Confidence 3333444445568999999875 444444443321 23477799999999999998766544
No 329
>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=95.37 E-value=0.0098 Score=45.81 Aligned_cols=20 Identities=25% Similarity=0.353 Sum_probs=17.8
Q ss_pred EEEEccCCccHHHHHHHHHc
Q 038944 182 VVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~ 201 (334)
|-|+|.+|+|||+||+.+..
T Consensus 1 I~i~G~~G~GKS~l~~~l~~ 20 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAK 20 (107)
T ss_pred CEEECCCCCCHHHHHHHHHH
Confidence 46899999999999999776
No 330
>PRK14530 adenylate kinase; Provisional
Probab=95.37 E-value=0.012 Score=51.21 Aligned_cols=22 Identities=14% Similarity=0.238 Sum_probs=20.0
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.|.|+|++|+||||+++.+...
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~~ 26 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAEE 26 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999763
No 331
>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=95.36 E-value=0.015 Score=46.94 Aligned_cols=22 Identities=14% Similarity=0.321 Sum_probs=19.8
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+.|+|+.|+|||||++.+...
T Consensus 1 ~i~i~GpsGsGKstl~~~L~~~ 22 (137)
T cd00071 1 LIVLSGPSGVGKSTLLKRLLEE 22 (137)
T ss_pred CEEEECCCCCCHHHHHHHHHhc
Confidence 3789999999999999999983
No 332
>PRK07594 type III secretion system ATPase SsaN; Validated
Probab=95.36 E-value=0.06 Score=51.83 Aligned_cols=90 Identities=16% Similarity=0.144 Sum_probs=50.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCC-CCHHHHHHHHHHHhCCCCCcc--ccchhh-HH-----
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYP-YDADQMLDIVIKFLMPSSRLS--EIMDKN-YE----- 249 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~il~~il~~~~~~~~~~--~~~~~~-~~----- 249 (334)
-..++|+|..|+|||||.+.+.+.. +.+...++.+... ..+.+++.+....-.....-. ...+.. ..
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 3478999999999999999998732 2344555555543 344455555433110000000 000100 00
Q ss_pred HHHHHHHHHc--CCCeEEEEEeCCC
Q 038944 250 MKKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 250 ~l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
...-.+-+++ +|++.|+++||+-
T Consensus 231 ~~a~tiAEyfrd~G~~VLl~~Dslt 255 (433)
T PRK07594 231 FVATTIAEFFRDNGKRVVLLADSLT 255 (433)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeCHH
Confidence 1223344444 6899999999994
No 333
>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=95.35 E-value=0.013 Score=49.26 Aligned_cols=23 Identities=9% Similarity=0.172 Sum_probs=20.9
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++|.+.|++|+||||+|+.+...
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHh
Confidence 58999999999999999999873
No 334
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=95.35 E-value=0.12 Score=43.67 Aligned_cols=24 Identities=17% Similarity=0.112 Sum_probs=22.0
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++.|.|.+|+||||+|+.+..
T Consensus 17 ~~~~i~i~G~~GsGKstla~~l~~ 40 (184)
T TIGR00455 17 RGVVIWLTGLSGSGKSTIANALEK 40 (184)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 457999999999999999999987
No 335
>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=95.34 E-value=0.026 Score=48.01 Aligned_cols=23 Identities=13% Similarity=0.042 Sum_probs=20.7
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+|.|.|+.|+||||+++.+.+.
T Consensus 1 ~~I~ieG~~GsGKtT~~~~L~~~ 23 (200)
T cd01672 1 MFIVFEGIDGAGKTTLIELLAER 23 (200)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH
Confidence 36899999999999999999874
No 336
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=95.34 E-value=0.012 Score=48.86 Aligned_cols=20 Identities=15% Similarity=0.223 Sum_probs=18.6
Q ss_pred EEEEEccCCccHHHHHHHHH
Q 038944 181 VVVILDSIGLDKAAFAGEAY 200 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~ 200 (334)
.|+|.|.+|+||||+++.+-
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 58999999999999999886
No 337
>PRK09099 type III secretion system ATPase; Provisional
Probab=95.34 E-value=0.078 Score=51.22 Aligned_cols=91 Identities=12% Similarity=0.126 Sum_probs=50.3
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcC-CCCCHHHHHHHHHHHhCCCCCcc--ccchh---h---HH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGT-YPYDADQMLDIVIKFLMPSSRLS--EIMDK---N---YE 249 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~il~~il~~~~~~~~~~--~~~~~---~---~~ 249 (334)
-..++|.|..|+|||||.+.+...... +....+-+. +...+.++...+...-....... ...+. . --
T Consensus 163 Gq~~~I~G~sG~GKTtLl~~ia~~~~~----d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~ 238 (441)
T PRK09099 163 GQRMGIFAPAGVGKSTLMGMFARGTQC----DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAA 238 (441)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCCCCC----CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHH
Confidence 458899999999999999999874322 222333333 33455555555554322111000 01110 0 00
Q ss_pred HHHHHHHHHc--CCCeEEEEEeCCCC
Q 038944 250 MKKIILHEYL--MTKRYLNVIDDVWN 273 (334)
Q Consensus 250 ~l~~~l~~~L--~~kr~LlVlDdvw~ 273 (334)
...-.+-+++ +||..|+++||+-.
T Consensus 239 ~~a~tiAEyfrd~G~~VLl~~DslTr 264 (441)
T PRK09099 239 YVATAIAEYFRDRGLRVLLMMDSLTR 264 (441)
T ss_pred HHHHHHHHHHHHcCCCEEEeccchhH
Confidence 2233344444 68999999999943
No 338
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=95.33 E-value=0.015 Score=50.34 Aligned_cols=26 Identities=19% Similarity=0.253 Sum_probs=23.5
Q ss_pred CCceEEEEEccCCccHHHHHHHHHcc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++++|+++|..|+|||||...+...
T Consensus 20 ~~~~~i~~~G~~gsGKTTli~~l~~~ 45 (207)
T TIGR00073 20 HGLVVLNFMSSPGSGKTTLIEKLIDN 45 (207)
T ss_pred cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 56999999999999999999998873
No 339
>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=95.31 E-value=0.11 Score=48.17 Aligned_cols=87 Identities=13% Similarity=0.076 Sum_probs=49.3
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC-CCCHHHHHHHHHHHhCCCC--------Ccc--ccchhhH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY-PYDADQMLDIVIKFLMPSS--------RLS--EIMDKNY 248 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~il~~il~~~~~~~--------~~~--~~~~~~~ 248 (334)
..++|+|..|.|||||.+.+.+... . ++.....+.. .-++..+....+..-.... +.+ ...-..
T Consensus 70 qri~I~G~sG~GKTtLl~~Ia~~~~--~--~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~- 144 (326)
T cd01136 70 QRLGIFAGSGVGKSTLLGMIARGTT--A--DVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA- 144 (326)
T ss_pred cEEEEECCCCCChHHHHHHHhCCCC--C--CEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH-
Confidence 4789999999999999999987432 1 2333344442 3355566655554322110 000 000001
Q ss_pred HHHHHHHHHHc--CCCeEEEEEeCCC
Q 038944 249 EMKKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 249 ~~l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
...-.+-+++ +||..|+++||+-
T Consensus 145 -~~a~~~AEyfr~~g~~Vll~~Dslt 169 (326)
T cd01136 145 -YTATAIAEYFRDQGKDVLLLMDSLT 169 (326)
T ss_pred -HHHHHHHHHHHHcCCCeEEEeccch
Confidence 2222333444 6999999999984
No 340
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=95.31 E-value=0.17 Score=45.56 Aligned_cols=54 Identities=7% Similarity=-0.058 Sum_probs=35.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
-.++.|.|.+|+||||++..+..+.. ..+=..++|++... +..++...++..+.
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~-~~~g~~vl~iS~E~--~~~~~~~r~~~~~~ 83 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLI-TQHGVRVGTISLEE--PVVRTARRLLGQYA 83 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHH-HhcCceEEEEEccc--CHHHHHHHHHHHHh
Confidence 45888999999999999988765321 12123567776544 45677777766543
No 341
>COG1084 Predicted GTPase [General function prediction only]
Probab=95.29 E-value=0.25 Score=45.39 Aligned_cols=30 Identities=17% Similarity=0.292 Sum_probs=24.8
Q ss_pred CCceEEEEEccCCccHHHHHHHHHcc-CCCC
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNS-SYVK 206 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~-~~~~ 206 (334)
+.++.+.|.|++-+|||||++.+-.- +++.
T Consensus 166 p~~pTivVaG~PNVGKSSlv~~lT~AkpEvA 196 (346)
T COG1084 166 PDLPTIVVAGYPNVGKSSLVRKLTTAKPEVA 196 (346)
T ss_pred CCCCeEEEecCCCCcHHHHHHHHhcCCCccC
Confidence 46788999999999999999999763 4443
No 342
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=95.29 E-value=0.057 Score=54.35 Aligned_cols=74 Identities=15% Similarity=0.147 Sum_probs=48.2
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILH 256 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~ 256 (334)
+.-+++-.+|++|+||||||..|.++.- | .++=++.|..-+...+-..|...+....
T Consensus 324 P~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~s------------------ 380 (877)
T KOG1969|consen 324 PPKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNHS------------------ 380 (877)
T ss_pred CccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhcc------------------
Confidence 4568999999999999999999988421 2 2344566666655555555444333221
Q ss_pred HHcC--CCeEEEEEeCCCCh
Q 038944 257 EYLM--TKRYLNVIDDVWNI 274 (334)
Q Consensus 257 ~~L~--~kr~LlVlDdvw~~ 274 (334)
.|. ++.-.||+|.+.-.
T Consensus 381 -~l~adsrP~CLViDEIDGa 399 (877)
T KOG1969|consen 381 -VLDADSRPVCLVIDEIDGA 399 (877)
T ss_pred -ccccCCCcceEEEecccCC
Confidence 121 45667899999754
No 343
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=95.28 E-value=0.12 Score=50.50 Aligned_cols=47 Identities=17% Similarity=0.167 Sum_probs=36.9
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++|....+..+...+..-...-..+.|.|.+|+|||++|+.++..
T Consensus 138 ~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~ 184 (469)
T PRK10923 138 TDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRH 184 (469)
T ss_pred ccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhc
Confidence 45889888888887777543333445789999999999999999985
No 344
>PRK00279 adk adenylate kinase; Reviewed
Probab=95.26 E-value=0.051 Score=47.36 Aligned_cols=21 Identities=19% Similarity=0.162 Sum_probs=19.1
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.|.|+|++|+||||+|+.+..
T Consensus 2 ~I~v~G~pGsGKsT~a~~la~ 22 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFIAE 22 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 478999999999999999876
No 345
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.26 E-value=0.22 Score=48.67 Aligned_cols=24 Identities=13% Similarity=0.199 Sum_probs=21.2
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.|++++|..|+||||++.++...
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~ 279 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAAR 279 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHH
Confidence 369999999999999999888763
No 346
>PRK13975 thymidylate kinase; Provisional
Probab=95.25 E-value=0.016 Score=49.57 Aligned_cols=23 Identities=17% Similarity=0.030 Sum_probs=21.1
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+|.|.|+.|+||||+++.+.+.
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~~ 25 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAEK 25 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 47999999999999999999983
No 347
>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=95.25 E-value=0.014 Score=47.58 Aligned_cols=20 Identities=15% Similarity=0.292 Sum_probs=18.8
Q ss_pred EEEEccCCccHHHHHHHHHc
Q 038944 182 VVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~ 201 (334)
|.++|++|+||||+|+.+..
T Consensus 2 i~l~G~~GsGKstla~~la~ 21 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAK 21 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 68999999999999999987
No 348
>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=95.22 E-value=0.019 Score=47.33 Aligned_cols=23 Identities=17% Similarity=0.049 Sum_probs=20.7
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..||-+.|.+|+||||||+.+..
T Consensus 2 g~vIwltGlsGsGKtTlA~~L~~ 24 (156)
T PF01583_consen 2 GFVIWLTGLSGSGKTTLARALER 24 (156)
T ss_dssp -EEEEEESSTTSSHHHHHHHHHH
T ss_pred CEEEEEECCCCCCHHHHHHHHHH
Confidence 35889999999999999999997
No 349
>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=95.22 E-value=0.032 Score=47.50 Aligned_cols=126 Identities=12% Similarity=0.011 Sum_probs=62.5
Q ss_pred hHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcccc
Q 038944 164 RMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEI 243 (334)
Q Consensus 164 ~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~ 243 (334)
+...++.+.... -..+.|+|..|.|||||++.+..- +...- ..+-+.-..++... ..... ++.........
T Consensus 13 ~~~~~l~~~v~~---g~~i~I~G~tGSGKTTll~aL~~~--i~~~~-~~i~ied~~E~~~~--~~~~~-~~~~~~~~~~~ 83 (186)
T cd01130 13 LQAAYLWLAVEA---RKNILISGGTGSGKTTLLNALLAF--IPPDE-RIITIEDTAELQLP--HPNWV-RLVTRPGNVEG 83 (186)
T ss_pred HHHHHHHHHHhC---CCEEEEECCCCCCHHHHHHHHHhh--cCCCC-CEEEECCccccCCC--CCCEE-EEEEecCCCCC
Confidence 344444444443 358999999999999999988863 21111 11111100011000 00000 00000000000
Q ss_pred chhhHHHHHHHHHHHcCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeE-EEEecCChHHHh
Q 038944 244 MDKNYEMKKIILHEYLMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSR-VLITLTEIKMFT 304 (334)
Q Consensus 244 ~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsr-IivTTr~~~va~ 304 (334)
.... ...+.+...++...=.++++.+.+.+.|.-+..+ . .|-. ++.|..-.++..
T Consensus 84 ~~~~--~~~~~l~~~lR~~pd~i~igEir~~ea~~~~~a~-~---tGh~g~~~T~Ha~s~~~ 139 (186)
T cd01130 84 SGEV--TMADLLRSALRMRPDRIIVGEVRGGEALDLLQAM-N---TGHPGGMTTIHANSAEE 139 (186)
T ss_pred CCcc--CHHHHHHHHhccCCCEEEEEccCcHHHHHHHHHH-h---cCCCCceeeecCCCHHH
Confidence 1112 3455566666666678889999999888765544 2 3444 555555444444
No 350
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=95.21 E-value=0.018 Score=48.36 Aligned_cols=24 Identities=8% Similarity=0.230 Sum_probs=21.2
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
...|.|+|+.|+||||+++.+.+.
T Consensus 4 ~~~I~liG~~GaGKStl~~~La~~ 27 (172)
T PRK05057 4 KRNIFLVGPMGAGKSTIGRQLAQQ 27 (172)
T ss_pred CCEEEEECCCCcCHHHHHHHHHHH
Confidence 346999999999999999999873
No 351
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a
Probab=95.20 E-value=0.16 Score=43.59 Aligned_cols=21 Identities=19% Similarity=-0.012 Sum_probs=19.9
Q ss_pred eEEEEEccCCccHHHHHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAY 200 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~ 200 (334)
+++.|.|+.|.|||||.+.+.
T Consensus 29 ~~~~ltG~Ng~GKStll~~i~ 49 (200)
T cd03280 29 RVLVITGPNAGGKTVTLKTLG 49 (200)
T ss_pred eEEEEECCCCCChHHHHHHHH
Confidence 689999999999999999987
No 352
>PRK14737 gmk guanylate kinase; Provisional
Probab=95.20 E-value=0.024 Score=48.36 Aligned_cols=25 Identities=12% Similarity=0.134 Sum_probs=22.4
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++|.|+|++|+|||||++.+...
T Consensus 3 ~~~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 3 SPKLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHhc
Confidence 4578999999999999999999873
No 353
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=95.17 E-value=0.016 Score=50.86 Aligned_cols=55 Identities=9% Similarity=0.243 Sum_probs=36.1
Q ss_pred HHHHcCCCeEEEEEeCCCCh-------hHHHHHHhhCCCCCCCeEEEEecCChHHHhhccccCc
Q 038944 255 LHEYLMTKRYLNVIDDVWNI-------EVCDIIREILPDNQNRSRVLITLTEIKMFTFLLETLF 311 (334)
Q Consensus 255 l~~~L~~kr~LlVlDdvw~~-------~~w~~l~~~l~~~~~gsrIivTTr~~~va~~~~~~~~ 311 (334)
+-+.|.-+.=+|++|..=+. +.|+-+...- ...+--+|+.|.+..++..+|....
T Consensus 152 IARAL~~~PklLIlDEptSaLD~siQa~IlnlL~~l~--~~~~lt~l~IsHdl~~v~~~cdRi~ 213 (252)
T COG1124 152 IARALIPEPKLLILDEPTSALDVSVQAQILNLLLELK--KERGLTYLFISHDLALVEHMCDRIA 213 (252)
T ss_pred HHHHhccCCCEEEecCchhhhcHHHHHHHHHHHHHHH--HhcCceEEEEeCcHHHHHHHhhhee
Confidence 44556666678999997543 3454443332 2235569999999999999886543
No 354
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.17 E-value=0.025 Score=50.79 Aligned_cols=52 Identities=21% Similarity=0.117 Sum_probs=38.8
Q ss_pred CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHH
Q 038944 176 PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVI 231 (334)
Q Consensus 176 ~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il 231 (334)
=+.-+++.|+|.+|+|||+++.+... ...++...++||+..... ..++..+.
T Consensus 20 ~p~g~~~lI~G~pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~~--~~l~~~~~ 71 (260)
T COG0467 20 LPRGSVVLITGPPGTGKTIFALQFLY--EGAREGEPVLYVSTEESP--EELLENAR 71 (260)
T ss_pred CcCCcEEEEEcCCCCcHHHHHHHHHH--HHHhcCCcEEEEEecCCH--HHHHHHHH
Confidence 35678999999999999999977766 344458889999887653 44544443
No 355
>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=95.17 E-value=0.058 Score=48.70 Aligned_cols=127 Identities=15% Similarity=0.112 Sum_probs=65.3
Q ss_pred eechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCC
Q 038944 159 VGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSS 238 (334)
Q Consensus 159 vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~ 238 (334)
.|...+..+.+..+.... -.++.|.|..|+||||++..+.+. +...-...+.+.-+.++....+ .|+....
T Consensus 62 lg~~~~~~~~l~~~~~~~--~GlilisG~tGSGKTT~l~all~~--i~~~~~~iitiEdp~E~~~~~~-----~q~~v~~ 132 (264)
T cd01129 62 LGLKPENLEIFRKLLEKP--HGIILVTGPTGSGKTTTLYSALSE--LNTPEKNIITVEDPVEYQIPGI-----NQVQVNE 132 (264)
T ss_pred cCCCHHHHHHHHHHHhcC--CCEEEEECCCCCcHHHHHHHHHhh--hCCCCCeEEEECCCceecCCCc-----eEEEeCC
Confidence 354444444444444332 358999999999999999988662 2111111222222222221110 1111110
Q ss_pred CccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCChhHHHHHHhhCCCCCCCeEEEEecCChHHHh
Q 038944 239 RLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNIEVCDIIREILPDNQNRSRVLITLTEIKMFT 304 (334)
Q Consensus 239 ~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~~~w~~l~~~l~~~~~gsrIivTTr~~~va~ 304 (334)
. ... .....++..|+...=.|+++++.+.+....+..+.. .|--++-|..-.++..
T Consensus 133 ----~-~~~--~~~~~l~~~lR~~PD~i~vgEiR~~e~a~~~~~aa~---tGh~v~tTlHa~~~~~ 188 (264)
T cd01129 133 ----K-AGL--TFARGLRAILRQDPDIIMVGEIRDAETAEIAVQAAL---TGHLVLSTLHTNDAPG 188 (264)
T ss_pred ----c-CCc--CHHHHHHHHhccCCCEEEeccCCCHHHHHHHHHHHH---cCCcEEEEeccCCHHH
Confidence 0 011 345566666766677889999999876544433322 3444665655554443
No 356
>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=95.16 E-value=0.15 Score=48.88 Aligned_cols=90 Identities=14% Similarity=0.094 Sum_probs=48.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh----h--HH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK----N--YE 249 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~----~--~~ 249 (334)
-..++|+|..|+|||||.+.+.+.... +......+.... .+.++..+.+.+-+...... ...+. . --
T Consensus 137 Gqri~I~G~sG~GKTtLl~~i~~~~~~----~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~~ 212 (413)
T TIGR03497 137 GQRVGIFAGSGVGKSTLLGMIARNAKA----DINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKAA 212 (413)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCCCCC----CeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHH
Confidence 458999999999999999988874321 222223344332 44455555444321110000 00000 0 00
Q ss_pred HHHHHHHHHc--CCCeEEEEEeCCC
Q 038944 250 MKKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 250 ~l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
.....+-+++ +|+..|+++||+-
T Consensus 213 ~~a~tiAEyfr~~G~~Vll~~Dslt 237 (413)
T TIGR03497 213 FTATAIAEYFRDQGKDVLLMMDSVT 237 (413)
T ss_pred HHHHHHHHHHHHCCCCEEEEEcCcH
Confidence 2223344444 6899999999994
No 357
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=95.15 E-value=0.37 Score=44.98 Aligned_cols=43 Identities=12% Similarity=-0.061 Sum_probs=31.0
Q ss_pred eee-chhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 158 TVG-LDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 158 ~vG-r~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++| .+..++.|.+.+..+. -....-++|+.|+||||+|..+.+
T Consensus 7 i~~~q~~~~~~L~~~~~~~~-l~ha~Lf~G~~G~gk~~~a~~la~ 50 (329)
T PRK08058 7 LTALQPVVVKMLQNSIAKNR-LSHAYLFEGAKGTGKKATALWLAK 50 (329)
T ss_pred HHhhHHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHH
Confidence 455 5556667766665443 345678999999999999988755
No 358
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=95.15 E-value=0.29 Score=45.33 Aligned_cols=45 Identities=11% Similarity=0.042 Sum_probs=36.2
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+..++.+...+..+. -....-++|..|+||+++|..+.+
T Consensus 4 ~~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~ 48 (314)
T PRK07399 4 ANLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIE 48 (314)
T ss_pred HHhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHH
Confidence 357899999999999887753 236888999999999998876654
No 359
>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=95.15 E-value=0.035 Score=51.05 Aligned_cols=36 Identities=19% Similarity=0.139 Sum_probs=27.3
Q ss_pred HHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 166 EELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 166 ~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..+++-+........+++|+|.+|+|||||+..+..
T Consensus 21 ~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~ 56 (300)
T TIGR00750 21 KQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGM 56 (300)
T ss_pred HHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHH
Confidence 344444444445678999999999999999988775
No 360
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=95.14 E-value=0.027 Score=49.99 Aligned_cols=50 Identities=16% Similarity=0.165 Sum_probs=39.6
Q ss_pred CCCCCeeechhhHH---HHHHHHhcC----CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 153 SKSRDTVGLDDRME---ELLDLLIEG----PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 153 ~~~~~~vGr~~~~~---~l~~~L~~~----~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..-++++|.++.+. -|++.|.+. +...+-+..+|++|.|||.+|+.+.+.
T Consensus 118 it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane 174 (368)
T COG1223 118 ITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANE 174 (368)
T ss_pred ccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcc
Confidence 34457899887765 367777664 356788999999999999999999994
No 361
>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=95.11 E-value=0.015 Score=48.04 Aligned_cols=36 Identities=8% Similarity=0.032 Sum_probs=25.5
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPG 217 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~v 217 (334)
|++|+|+.|+|||||+..+...-+ ...+.+.+.-+.
T Consensus 1 vi~i~G~~gsGKTtl~~~l~~~l~-~~G~~V~viK~~ 36 (155)
T TIGR00176 1 VLQIVGPKNSGKTTLIERLVKALK-ARGYRVATIKHD 36 (155)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEecc
Confidence 589999999999999999988322 123555444433
No 362
>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=95.11 E-value=0.042 Score=43.48 Aligned_cols=46 Identities=13% Similarity=0.107 Sum_probs=34.0
Q ss_pred CeeechhhHHHHHHHHhc-----CCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 157 DTVGLDDRMEELLDLLIE-----GPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~~-----~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++|..-..+.+++.+.+ .+.+.-|++..|.+|+|||.+++.+.++
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 367876666666666543 2456789999999999999987777653
No 363
>CHL00059 atpA ATP synthase CF1 alpha subunit
Probab=95.11 E-value=0.13 Score=50.07 Aligned_cols=94 Identities=11% Similarity=-0.005 Sum_probs=54.8
Q ss_pred EEEEEccCCccHHHHH-HHHHccCCCCCceee-EEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc-----ccch-------
Q 038944 181 VVVILDSIGLDKAAFA-GEAYNSSYVKHYFDC-HAWVPGTYPY-DADQMLDIVIKFLMPSSRLS-----EIMD------- 245 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa-~~v~~~~~~~~~F~~-~~wv~vs~~~-~~~~il~~il~~~~~~~~~~-----~~~~------- 245 (334)
-++|.|-.|+|||||| ..+.+.. .-+. ++++.+.+.. .+.++...+.+.-....... +...
T Consensus 143 R~~I~g~~g~GKt~Lal~~I~~q~----~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~ap 218 (485)
T CHL00059 143 RELIIGDRQTGKTAVATDTILNQK----GQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLAP 218 (485)
T ss_pred EEEeecCCCCCHHHHHHHHHHhcc----cCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHHHH
Confidence 5899999999999995 5566632 2233 4777887654 55566666654322111100 0000
Q ss_pred --hhHHHHHHHHHHHcCCCeEEEEEeCCCC-hhHHHHHHh
Q 038944 246 --KNYEMKKIILHEYLMTKRYLNVIDDVWN-IEVCDIIRE 282 (334)
Q Consensus 246 --~~~~~l~~~l~~~L~~kr~LlVlDdvw~-~~~w~~l~~ 282 (334)
-. .+++.++. +|+..|+|+||+-. ...|.++..
T Consensus 219 ~~a~--aiAEyfr~--~G~~VLlv~DdlTr~A~A~REisl 254 (485)
T CHL00059 219 YTGA--ALAEYFMY--RGRHTLIIYDDLSKQAQAYRQMSL 254 (485)
T ss_pred HHHh--hHHHHHHH--cCCCEEEEEcChhHHHHHHHHHHH
Confidence 01 23333332 68999999999954 356666554
No 364
>PRK13946 shikimate kinase; Provisional
Probab=95.07 E-value=0.019 Score=48.83 Aligned_cols=23 Identities=17% Similarity=0.250 Sum_probs=21.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+.|.++|++|+||||+++.+.+
T Consensus 10 ~~~I~l~G~~GsGKsti~~~LA~ 32 (184)
T PRK13946 10 KRTVVLVGLMGAGKSTVGRRLAT 32 (184)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 35799999999999999999998
No 365
>PRK13948 shikimate kinase; Provisional
Probab=95.05 E-value=0.023 Score=48.28 Aligned_cols=24 Identities=17% Similarity=0.180 Sum_probs=21.5
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
....|.++||.|+||||+++.+.+
T Consensus 9 ~~~~I~LiG~~GsGKSTvg~~La~ 32 (182)
T PRK13948 9 PVTWVALAGFMGTGKSRIGWELSR 32 (182)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHH
Confidence 346788999999999999999987
No 366
>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=95.02 E-value=0.02 Score=45.77 Aligned_cols=22 Identities=18% Similarity=0.252 Sum_probs=20.4
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|+|..|+|||||.+.+..
T Consensus 12 ~~~~i~G~nGsGKStLl~~l~g 33 (137)
T PF00005_consen 12 EIVAIVGPNGSGKSTLLKALAG 33 (137)
T ss_dssp SEEEEEESTTSSHHHHHHHHTT
T ss_pred CEEEEEccCCCccccceeeecc
Confidence 4899999999999999999986
No 367
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=95.01 E-value=0.02 Score=49.13 Aligned_cols=22 Identities=23% Similarity=0.362 Sum_probs=19.1
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+.|-+.|.+|+||||+|+.+..
T Consensus 2 pLiIlTGyPgsGKTtfakeLak 23 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAK 23 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHH
Confidence 4567789999999999998876
No 368
>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=95.01 E-value=0.019 Score=48.19 Aligned_cols=21 Identities=14% Similarity=0.289 Sum_probs=18.1
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.|.|.+|+|||||++.+.+.
T Consensus 2 i~iTG~pG~GKTTll~k~i~~ 22 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEE 22 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHHHH
Confidence 689999999999999999874
No 369
>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=95.00 E-value=0.023 Score=43.77 Aligned_cols=22 Identities=27% Similarity=0.234 Sum_probs=19.9
Q ss_pred ceEEEEEccCCccHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAY 200 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~ 200 (334)
-..++|+|..|.|||||+..+.
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh
Confidence 3689999999999999999976
No 370
>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=95.00 E-value=0.087 Score=50.96 Aligned_cols=92 Identities=11% Similarity=0.142 Sum_probs=54.2
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh----hH--HH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK----NY--EM 250 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~----~~--~~ 250 (334)
.-++|.|..|+|||||+..+..+... .+=.+++++-+.... .+.+++.+++..-....... ...+. .+ -.
T Consensus 144 Qr~~If~~~G~GKt~L~~~~~~~~~~-~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~ 222 (461)
T TIGR01039 144 GKIGLFGGAGVGKTVLIQELINNIAK-EHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVAL 222 (461)
T ss_pred CEEEeecCCCCChHHHHHHHHHHHHh-cCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence 36899999999999999988763211 111367777776553 56677777754321111000 00010 00 02
Q ss_pred HHHHHHHHc---CCCeEEEEEeCCC
Q 038944 251 KKIILHEYL---MTKRYLNVIDDVW 272 (334)
Q Consensus 251 l~~~l~~~L---~~kr~LlVlDdvw 272 (334)
..-.+-+++ +|+..|+++||+-
T Consensus 223 ~a~tiAEyfrd~~G~~VLll~DslT 247 (461)
T TIGR01039 223 TGLTMAEYFRDEQGQDVLLFIDNIF 247 (461)
T ss_pred HHHHHHHHHHHhcCCeeEEEecchh
Confidence 344555666 5789999999994
No 371
>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=95.00 E-value=0.09 Score=51.05 Aligned_cols=101 Identities=17% Similarity=0.193 Sum_probs=58.4
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCC---CceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchhh-H-----
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVK---HYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDKN-Y----- 248 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~---~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~~-~----- 248 (334)
-++|.|-.|+|||||+..+.+..... ..| .++++.+.+.. .+.+++.+++..-..+..-. ...+.. +
T Consensus 143 R~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~-v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~a 221 (458)
T TIGR01041 143 KLPIFSGSGLPHNELAAQIARQATVRGEESEF-AVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVT 221 (458)
T ss_pred EEEeeCCCCCCHHHHHHHHHHhhcccCCCCce-EEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHH
Confidence 57899999999999999998854332 222 56777777654 55666666664322111100 001100 0
Q ss_pred HHHHHHHHHHc---CCCeEEEEEeCCCC-hhHHHHHHh
Q 038944 249 EMKKIILHEYL---MTKRYLNVIDDVWN-IEVCDIIRE 282 (334)
Q Consensus 249 ~~l~~~l~~~L---~~kr~LlVlDdvw~-~~~w~~l~~ 282 (334)
-.....+-+++ +|++.|+++||+-. .+.+.+|..
T Consensus 222 ~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIsl 259 (458)
T TIGR01041 222 PRMALTAAEYLAFEKDMHVLVILTDMTNYCEALREISA 259 (458)
T ss_pred HHHHHHHHHHHHHccCCcEEEEEcChhHHHHHHHHHHH
Confidence 01223344555 58899999999943 245555443
No 372
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=95.00 E-value=0.021 Score=47.19 Aligned_cols=23 Identities=30% Similarity=0.270 Sum_probs=21.0
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+|+.|+|.+|+||||+.+.+-.
T Consensus 4 ~kvvvitGVpGvGKTTVl~~~~~ 26 (189)
T COG2019 4 RKVVVITGVPGVGKTTVLKIALK 26 (189)
T ss_pred ceEEEEEcCCCCChHHHHHHHHH
Confidence 68999999999999999988776
No 373
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=94.99 E-value=0.02 Score=49.33 Aligned_cols=23 Identities=17% Similarity=0.224 Sum_probs=20.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..+|+++|+.|+||||+|+.+-+
T Consensus 2 ~~iIglTG~igsGKStva~~~~~ 24 (201)
T COG0237 2 MLIIGLTGGIGSGKSTVAKILAE 24 (201)
T ss_pred ceEEEEecCCCCCHHHHHHHHHH
Confidence 46899999999999999998776
No 374
>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=94.99 E-value=0.015 Score=48.17 Aligned_cols=21 Identities=19% Similarity=0.292 Sum_probs=18.7
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.++|++|+||||+|+.+.+.
T Consensus 1 i~l~G~~GsGKSTla~~l~~~ 21 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHR 21 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHh
Confidence 468999999999999999873
No 375
>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=94.98 E-value=0.18 Score=47.04 Aligned_cols=101 Identities=17% Similarity=0.105 Sum_probs=58.3
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCc-----c------ccchhh
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRL-----S------EIMDKN 247 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~-----~------~~~~~~ 247 (334)
..++|.|..|+|||+|++.+.+.. +-++++++-+.+.. .+.+++.++-+........ . .++...
T Consensus 158 qr~~I~G~~G~GKT~L~~~Iak~~----~~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~~ 233 (369)
T cd01134 158 GTAAIPGPFGCGKTVIQQSLSKYS----NSDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVA 233 (369)
T ss_pred CEEEEECCCCCChHHHHHHHHhCC----CCCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCHH
Confidence 378999999999999999999853 23577888887654 4555666543321111000 0 111100
Q ss_pred HH----HHHHHHHHHc--CCCeEEEEEeCCCC-hhHHHHHHhhC
Q 038944 248 YE----MKKIILHEYL--MTKRYLNVIDDVWN-IEVCDIIREIL 284 (334)
Q Consensus 248 ~~----~l~~~l~~~L--~~kr~LlVlDdvw~-~~~w~~l~~~l 284 (334)
.. ...-.+-+++ +|+..|+++|++-. .+...++...+
T Consensus 234 ~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR~A~A~REIs~~l 277 (369)
T cd01134 234 AREASIYTGITIAEYFRDMGYNVALMADSTSRWAEALREISGRL 277 (369)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCEEEEEcChhHHHHHHHHHHHhc
Confidence 00 1122233444 68999999999932 35555555444
No 376
>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=94.95 E-value=0.12 Score=50.01 Aligned_cols=100 Identities=11% Similarity=0.135 Sum_probs=59.7
Q ss_pred EEEEEccCCccHHHHHHHHHccCCC------------CCceeeEEEEEcCCCCCHHHHHHHHHHHhC-CCCCcc--ccch
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYV------------KHYFDCHAWVPGTYPYDADQMLDIVIKFLM-PSSRLS--EIMD 245 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~------------~~~F~~~~wv~vs~~~~~~~il~~il~~~~-~~~~~~--~~~~ 245 (334)
-++|.|-.|+|||||+..+.+..+. .+.| .++++.+.+.....+.+.+.+..-+ ...... ...+
T Consensus 143 RigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~-v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd 221 (466)
T TIGR01040 143 KIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNF-AIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLAN 221 (466)
T ss_pred eeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCce-EEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCC
Confidence 5889999999999999998875431 0112 5677788888777777777776655 211100 0001
Q ss_pred h---h---HHHHHHHHHHHc---CCCeEEEEEeCCCC-hhHHHHHH
Q 038944 246 K---N---YEMKKIILHEYL---MTKRYLNVIDDVWN-IEVCDIIR 281 (334)
Q Consensus 246 ~---~---~~~l~~~l~~~L---~~kr~LlVlDdvw~-~~~w~~l~ 281 (334)
. . .-...-.+-+++ +|+..|+++||+-. ...+.++.
T Consensus 222 ~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr~A~A~REis 267 (466)
T TIGR01040 222 DPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSSYADALREVS 267 (466)
T ss_pred CCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHHHHHHHHHHH
Confidence 0 0 002223344555 47999999999943 24444443
No 377
>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=94.95 E-value=0.096 Score=48.46 Aligned_cols=88 Identities=16% Similarity=0.060 Sum_probs=51.1
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---ccchhhHHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---EIMDKNYEMKKI 253 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~~~~~~~~~l~~ 253 (334)
+.-+++-|+|..|+||||||-.+... ....-..++|+.....+++.. +++++...... .....+ +...
T Consensus 51 p~G~ivEi~G~~ssGKttLaL~~ia~--~q~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E--~al~ 121 (322)
T PF00154_consen 51 PRGRIVEIYGPESSGKTTLALHAIAE--AQKQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGE--QALW 121 (322)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHHHH--HHHTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHH--HHHH
T ss_pred ccCceEEEeCCCCCchhhhHHHHHHh--hhcccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHH--HHHH
Confidence 44569999999999999999888863 323345688999888877643 44555443321 111112 4444
Q ss_pred HHHHHc-CCCeEEEEEeCCCC
Q 038944 254 ILHEYL-MTKRYLNVIDDVWN 273 (334)
Q Consensus 254 ~l~~~L-~~kr~LlVlDdvw~ 273 (334)
.+...+ .+..-++|+|-|-.
T Consensus 122 ~~e~lirsg~~~lVVvDSv~a 142 (322)
T PF00154_consen 122 IAEQLIRSGAVDLVVVDSVAA 142 (322)
T ss_dssp HHHHHHHTTSESEEEEE-CTT
T ss_pred HHHHHhhcccccEEEEecCcc
Confidence 444445 34456899999854
No 378
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=94.94 E-value=0.074 Score=54.21 Aligned_cols=27 Identities=22% Similarity=0.191 Sum_probs=22.3
Q ss_pred EEEEEccCCccHHHHHHHHHccCCCCCce
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSSYVKHYF 209 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~~~~~~F 209 (334)
-+.++|++|+||||+|+.+.+ ...-+|
T Consensus 187 gill~G~~G~GKt~~~~~~a~--~~~~~f 213 (644)
T PRK10733 187 GVLMVGPPGTGKTLLAKAIAG--EAKVPF 213 (644)
T ss_pred cEEEECCCCCCHHHHHHHHHH--HcCCCE
Confidence 488999999999999999988 444444
No 379
>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=94.94 E-value=0.098 Score=50.26 Aligned_cols=97 Identities=13% Similarity=0.051 Sum_probs=51.6
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC-CCCHHHHHHHHHHHhCCCCCcc--ccchh---h---HHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY-PYDADQMLDIVIKFLMPSSRLS--EIMDK---N---YEM 250 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~il~~il~~~~~~~~~~--~~~~~---~---~~~ 250 (334)
..++|+|..|+|||||.+.+..... . +....+.+.. .-.+.++..+.+..-..+.... ...+. . .-.
T Consensus 141 q~i~I~G~sG~GKTtLl~~I~~~~~--~--~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~ 216 (418)
T TIGR03498 141 QRLGIFAGSGVGKSTLLSMLARNTD--A--DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAY 216 (418)
T ss_pred cEEEEECCCCCChHHHHHHHhCCCC--C--CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHH
Confidence 5789999999999999999987422 1 2222233333 3345555555544322111100 00010 0 001
Q ss_pred HHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHH
Q 038944 251 KKIILHEYL--MTKRYLNVIDDVWNI-EVCDII 280 (334)
Q Consensus 251 l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l 280 (334)
..-.+-+++ +|+..|+++||+-.- ..+.++
T Consensus 217 ~a~~iAEyfrd~G~~Vll~~DslTr~A~A~REi 249 (418)
T TIGR03498 217 TATAIAEYFRDQGKDVLLLMDSVTRFAMAQREI 249 (418)
T ss_pred HHHHHHHHHHHcCCCEEEeccchhHHHHHHHHH
Confidence 223344555 689999999999432 344433
No 380
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=94.92 E-value=0.025 Score=48.74 Aligned_cols=24 Identities=17% Similarity=0.174 Sum_probs=21.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..+|.|.|.+|+||||+|+.+...
T Consensus 3 ~~~i~i~G~~G~GKst~a~~l~~~ 26 (197)
T PRK12339 3 STIHFIGGIPGVGKTSISGYIARH 26 (197)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHh
Confidence 468999999999999999999883
No 381
>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=94.92 E-value=0.049 Score=45.15 Aligned_cols=37 Identities=24% Similarity=0.395 Sum_probs=30.3
Q ss_pred hhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccC
Q 038944 162 DDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 162 ~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
....++|.++|.. +++.++|..|+|||||...+..+.
T Consensus 23 ~~g~~~l~~~l~~-----k~~vl~G~SGvGKSSLiN~L~~~~ 59 (161)
T PF03193_consen 23 GEGIEELKELLKG-----KTSVLLGQSGVGKSSLINALLPEA 59 (161)
T ss_dssp TTTHHHHHHHHTT-----SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred CcCHHHHHHHhcC-----CEEEEECCCCCCHHHHHHHHHhhc
Confidence 3456777777744 589999999999999999999853
No 382
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=94.91 E-value=0.23 Score=50.66 Aligned_cols=47 Identities=17% Similarity=0.132 Sum_probs=36.5
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++|....+.++.+.+..-...-.-|-|+|..|+||+++|+.+++.
T Consensus 325 ~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~ 371 (638)
T PRK11388 325 DHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNE 371 (638)
T ss_pred cceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHh
Confidence 45889988888888877642222233679999999999999999984
No 383
>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=94.90 E-value=0.11 Score=46.40 Aligned_cols=20 Identities=20% Similarity=0.410 Sum_probs=18.5
Q ss_pred EEEEccCCccHHHHHHHHHc
Q 038944 182 VVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~ 201 (334)
|.++|++|+||||+|+.+..
T Consensus 2 Ivl~G~pGSGKST~a~~La~ 21 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAK 21 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 67899999999999999886
No 384
>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=94.90 E-value=0.025 Score=46.97 Aligned_cols=23 Identities=13% Similarity=0.161 Sum_probs=21.1
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++++|+|..|+|||||+..+...
T Consensus 2 ~vi~i~G~~gsGKTTli~~L~~~ 24 (159)
T cd03116 2 KVIGFVGYSGSGKTTLLEKLIPA 24 (159)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 68999999999999999999873
No 385
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=94.89 E-value=0.064 Score=49.94 Aligned_cols=37 Identities=24% Similarity=0.230 Sum_probs=28.6
Q ss_pred HHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 165 MEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 165 ~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...+++.+.....+..+|+|.|.+|+|||||+..+..
T Consensus 42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~ 78 (332)
T PRK09435 42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGM 78 (332)
T ss_pred HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHH
Confidence 3456666654445678999999999999999998765
No 386
>PRK14527 adenylate kinase; Provisional
Probab=94.88 E-value=0.024 Score=48.40 Aligned_cols=25 Identities=24% Similarity=0.243 Sum_probs=22.0
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
...+|.|+|.+|+||||+|+.+.+.
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~~ 29 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQE 29 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 3578999999999999999999863
No 387
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=94.88 E-value=0.021 Score=47.41 Aligned_cols=23 Identities=9% Similarity=0.130 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+|++|+|+.|+|||||...+..
T Consensus 2 ~~Il~ivG~k~SGKTTLie~lv~ 24 (161)
T COG1763 2 MKILGIVGYKNSGKTTLIEKLVR 24 (161)
T ss_pred CcEEEEEecCCCChhhHHHHHHH
Confidence 57999999999999999999976
No 388
>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=94.87 E-value=0.049 Score=51.43 Aligned_cols=100 Identities=15% Similarity=0.086 Sum_probs=55.2
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCC----CCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYV----KHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKK 252 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~----~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~ 252 (334)
...+=+-|||..|.|||.|.-..|+...+ +-||. ..+.++-+.+..-... . ...
T Consensus 60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh--------------~Fm~~vh~~l~~~~~~--~------~~l 117 (362)
T PF03969_consen 60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFH--------------EFMLDVHSRLHQLRGQ--D------DPL 117 (362)
T ss_pred CCCceEEEECCCCCchhHHHHHHHHhCCcccccccccc--------------HHHHHHHHHHHHHhCC--C------ccH
Confidence 34667899999999999999999986433 23442 2333333322221110 0 112
Q ss_pred HHHHHHcCCCeEEEEEeCCCCh-----hHHHHHHhhCCCCCCCeEEEEecCChH
Q 038944 253 IILHEYLMTKRYLNVIDDVWNI-----EVCDIIREILPDNQNRSRVLITLTEIK 301 (334)
Q Consensus 253 ~~l~~~L~~kr~LlVlDdvw~~-----~~w~~l~~~l~~~~~gsrIivTTr~~~ 301 (334)
..+-+.+.++..||+||..--. --...+...+- ..|. |+|+|.|..
T Consensus 118 ~~va~~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gv-vlVaTSN~~ 168 (362)
T PF03969_consen 118 PQVADELAKESRLLCFDEFQVTDIADAMILKRLFEALF--KRGV-VLVATSNRP 168 (362)
T ss_pred HHHHHHHHhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCC-EEEecCCCC
Confidence 2333444556679999986432 23444444442 2344 666666654
No 389
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=94.86 E-value=0.023 Score=51.50 Aligned_cols=23 Identities=13% Similarity=0.166 Sum_probs=21.0
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++|+|+|.+|+|||||+..+...
T Consensus 2 ~~i~i~G~~gSGKTTLi~~Li~~ 24 (274)
T PRK14493 2 KVLSIVGYKATGKTTLVERLVDR 24 (274)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 68999999999999999999863
No 390
>PRK04182 cytidylate kinase; Provisional
Probab=94.86 E-value=0.026 Score=47.29 Aligned_cols=22 Identities=18% Similarity=0.173 Sum_probs=20.4
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
+|.|.|+.|+||||+++.+.+.
T Consensus 2 ~I~i~G~~GsGKstia~~la~~ 23 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 7899999999999999999873
No 391
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=94.84 E-value=0.21 Score=40.16 Aligned_cols=21 Identities=5% Similarity=0.082 Sum_probs=19.3
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|+|+|.+|+|||||.+.+.+.
T Consensus 2 i~i~G~~~~GKssl~~~l~~~ 22 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAGG 22 (159)
T ss_pred EEEEcCCCCCHHHHHHHHccC
Confidence 689999999999999999875
No 392
>TIGR01818 ntrC nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.
Probab=94.84 E-value=0.24 Score=48.32 Aligned_cols=47 Identities=17% Similarity=0.119 Sum_probs=35.7
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++|......++...+..-......+.|.|..|+||+++|+.++..
T Consensus 134 ~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~ 180 (463)
T TIGR01818 134 AELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRH 180 (463)
T ss_pred cceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHh
Confidence 35788887778777776543323345789999999999999999874
No 393
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=94.84 E-value=0.23 Score=40.66 Aligned_cols=20 Identities=15% Similarity=0.204 Sum_probs=18.0
Q ss_pred EEEEccCCccHHHHHHHHHc
Q 038944 182 VVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~ 201 (334)
+.|+|.+|+|||||+..+..
T Consensus 3 i~vvG~~~~GKtsl~~~l~~ 22 (164)
T cd04101 3 CAVVGDPAVGKTAFVQMFHS 22 (164)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 78999999999999988864
No 394
>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=94.83 E-value=0.025 Score=43.88 Aligned_cols=21 Identities=14% Similarity=0.221 Sum_probs=19.5
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|+|+|+.|+|||||...+.+.
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 395
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=94.81 E-value=0.04 Score=48.16 Aligned_cols=21 Identities=19% Similarity=0.216 Sum_probs=18.2
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.|+|.|-||+||||+|..+..
T Consensus 2 kIaI~GKGG~GKTtiaalll~ 22 (255)
T COG3640 2 KIAITGKGGVGKTTIAALLLK 22 (255)
T ss_pred eEEEecCCCccHHHHHHHHHH
Confidence 689999999999999988443
No 396
>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=94.80 E-value=0.047 Score=50.81 Aligned_cols=47 Identities=15% Similarity=0.355 Sum_probs=41.1
Q ss_pred CCCeeechhhHHHHHHHHhcC----CCCceEEEEEccCCccHHHHHHHHHc
Q 038944 155 SRDTVGLDDRMEELLDLLIEG----PPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...++|.++..++|++.+... +..-+|+-.+|+.|.|||||+..+.+
T Consensus 60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~ 110 (358)
T PF08298_consen 60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKR 110 (358)
T ss_pred cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHH
Confidence 457999999999999999753 35568999999999999999999987
No 397
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=94.80 E-value=0.025 Score=48.88 Aligned_cols=56 Identities=11% Similarity=0.203 Sum_probs=34.7
Q ss_pred HHHHHHcCCCeEEEEEeCCCCh---hHHHHHHhhCCC-CCCCeEEEEecCChHHHhhccc
Q 038944 253 IILHEYLMTKRYLNVIDDVWNI---EVCDIIREILPD-NQNRSRVLITLTEIKMFTFLLE 308 (334)
Q Consensus 253 ~~l~~~L~~kr~LlVlDdvw~~---~~w~~l~~~l~~-~~~gsrIivTTr~~~va~~~~~ 308 (334)
-.|-+.|.=+.-++.+|..=+. +.-.++...... ...|--+|+.|....-|..+..
T Consensus 145 VAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM~FAr~Vad 204 (240)
T COG1126 145 VAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAREVAD 204 (240)
T ss_pred HHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechhHHHHHhhh
Confidence 3455566666678899998654 333333333221 2346668888888888877654
No 398
>PLN02200 adenylate kinase family protein
Probab=94.79 E-value=0.027 Score=49.90 Aligned_cols=24 Identities=13% Similarity=0.131 Sum_probs=21.6
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
...+|.|.|++|+||||+|+.+..
T Consensus 42 ~~~ii~I~G~PGSGKsT~a~~La~ 65 (234)
T PLN02200 42 TPFITFVLGGPGSGKGTQCEKIVE 65 (234)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHH
Confidence 456899999999999999999877
No 399
>PHA02774 E1; Provisional
Probab=94.79 E-value=0.11 Score=51.45 Aligned_cols=37 Identities=24% Similarity=0.313 Sum_probs=27.9
Q ss_pred hHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 164 RMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 164 ~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-...|..+|. +.++-..+.|+|++|.|||.+|-.+.+
T Consensus 420 fl~~lk~~l~-~~PKknciv~~GPP~TGKS~fa~sL~~ 456 (613)
T PHA02774 420 FLTALKDFLK-GIPKKNCLVIYGPPDTGKSMFCMSLIK 456 (613)
T ss_pred HHHHHHHHHh-cCCcccEEEEECCCCCCHHHHHHHHHH
Confidence 3445555553 334456899999999999999999988
No 400
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=94.79 E-value=0.057 Score=53.28 Aligned_cols=94 Identities=15% Similarity=0.135 Sum_probs=55.1
Q ss_pred CCeeechhhHHHHHHHH---hc--------CCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHH
Q 038944 156 RDTVGLDDRMEELLDLL---IE--------GPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDAD 224 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L---~~--------~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~ 224 (334)
.++.|.+..++.+.+.+ .. +-...+.+-++|++|.|||.||+.+.+ ..+.+|-...+-.
T Consensus 242 ~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~--~~~~~fi~v~~~~-------- 311 (494)
T COG0464 242 DDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVAL--ESRSRFISVKGSE-------- 311 (494)
T ss_pred ehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHh--hCCCeEEEeeCHH--------
Confidence 34555555555554443 22 114566899999999999999999999 5555664433211
Q ss_pred HHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC
Q 038944 225 QMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN 273 (334)
Q Consensus 225 ~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~ 273 (334)
++...-+ ..+. .+...+....+...+.|.+|.+..
T Consensus 312 -----l~sk~vG-------esek--~ir~~F~~A~~~~p~iiFiDEiDs 346 (494)
T COG0464 312 -----LLSKWVG-------ESEK--NIRELFEKARKLAPSIIFIDEIDS 346 (494)
T ss_pred -----Hhccccc-------hHHH--HHHHHHHHHHcCCCcEEEEEchhh
Confidence 1111111 1112 333444444567889999999853
No 401
>PRK15115 response regulator GlrR; Provisional
Probab=94.78 E-value=0.15 Score=49.51 Aligned_cols=47 Identities=23% Similarity=0.096 Sum_probs=33.2
Q ss_pred CeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccC
Q 038944 157 DTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
.++|....+.++.+....-...-..+.|.|.+|+|||++|+.+++..
T Consensus 135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s 181 (444)
T PRK15115 135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNAS 181 (444)
T ss_pred cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhc
Confidence 46777777766666554322222346799999999999999998853
No 402
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=94.78 E-value=0.065 Score=51.51 Aligned_cols=45 Identities=18% Similarity=0.200 Sum_probs=33.9
Q ss_pred CeeechhhHHHHHHHHhc-------C-----C--CCceEEEEEccCCccHHHHHHHHHc
Q 038944 157 DTVGLDDRMEELLDLLIE-------G-----P--PQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~~-------~-----~--~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.++|.+..++.+...+.. . + ..-.-+.++|++|+|||+||+.+..
T Consensus 72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~ 130 (412)
T PRK05342 72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLAR 130 (412)
T ss_pred HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence 489999988887655421 1 1 1235688999999999999999987
No 403
>PRK06761 hypothetical protein; Provisional
Probab=94.78 E-value=0.056 Score=49.11 Aligned_cols=24 Identities=17% Similarity=0.156 Sum_probs=21.7
Q ss_pred eEEEEEccCCccHHHHHHHHHccC
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
++|.|.|.+|+||||+++.+.+..
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L 27 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDIL 27 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhc
Confidence 579999999999999999999843
No 404
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=94.76 E-value=0.21 Score=44.56 Aligned_cols=95 Identities=16% Similarity=0.091 Sum_probs=57.2
Q ss_pred CCCCCeeechhhHHHHHHHHhcC-----------CCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEG-----------PPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY 221 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~ 221 (334)
+.-+++-|-.++.++|-+...-. =...+=+..+|++|.|||-+|+.|.| +....|-.++ .
T Consensus 174 vty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravan--rtdacfirvi-----g-- 244 (435)
T KOG0729|consen 174 VTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVAN--RTDACFIRVI-----G-- 244 (435)
T ss_pred cccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhc--ccCceEEeeh-----h--
Confidence 33445666677777776665321 13456788899999999999999999 6655553332 1
Q ss_pred CHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHHHHcCCC-eEEEEEeCCC
Q 038944 222 DADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILHEYLMTK-RYLNVIDDVW 272 (334)
Q Consensus 222 ~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~k-r~LlVlDdvw 272 (334)
.++.+. --++ -. .+...|.+.-++| -|+|.+|.+.
T Consensus 245 --selvqk----yvge--------ga--rmvrelf~martkkaciiffdeid 280 (435)
T KOG0729|consen 245 --SELVQK----YVGE--------GA--RMVRELFEMARTKKACIIFFDEID 280 (435)
T ss_pred --HHHHHH----Hhhh--------hH--HHHHHHHHHhcccceEEEEeeccc
Confidence 111111 1111 11 4555666666554 5778888874
No 405
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=94.76 E-value=0.023 Score=49.28 Aligned_cols=23 Identities=17% Similarity=0.267 Sum_probs=20.8
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.-|.|+|++|+|||||+..+..+
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~ 28 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGD 28 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcC
Confidence 46889999999999999999876
No 406
>PLN02924 thymidylate kinase
Probab=94.74 E-value=0.11 Score=45.60 Aligned_cols=55 Identities=9% Similarity=-0.022 Sum_probs=35.0
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHH
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKF 233 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~ 233 (334)
.-..|.|-|..|+||||+++.+.+.-... .+....+-..+......+.+++++..
T Consensus 15 ~g~~IviEGiDGsGKsTq~~~L~~~l~~~-g~~v~~~~ep~~~~~~g~~ir~~l~~ 69 (220)
T PLN02924 15 RGALIVLEGLDRSGKSTQCAKLVSFLKGL-GVAAELWRFPDRTTSVGQMISAYLSN 69 (220)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCceeeeCCCCCChHHHHHHHHHhC
Confidence 34689999999999999999999843322 24433322222234455666666653
No 407
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=94.74 E-value=0.15 Score=42.77 Aligned_cols=120 Identities=13% Similarity=0.085 Sum_probs=60.8
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeE--EEEEcCCCCCHHHHHHHHHH---HhCCCC--Cc-cccch-hhHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCH--AWVPGTYPYDADQMLDIVIK---FLMPSS--RL-SEIMD-KNYEM 250 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~--~wv~vs~~~~~~~il~~il~---~~~~~~--~~-~~~~~-~~~~~ 250 (334)
..|-|++-.|.||||.|--+.-. .....+.+. =|+.-........++....- +.+... .. ....+ .....
T Consensus 6 Gli~v~~g~GkGKtt~a~g~a~r-a~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~ 84 (173)
T TIGR00708 6 GIIIVHTGNGKGKTTAAFGMALR-ALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKA 84 (173)
T ss_pred cEEEEECCCCCChHHHHHHHHHH-HHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHH
Confidence 57788888999999998665431 122223332 13333323343444433200 001100 00 00000 01113
Q ss_pred HHHHHHHHcCCCe-EEEEEeCCCCh-----hHHHHHHhhCCCCCCCeEEEEecCCh
Q 038944 251 KKIILHEYLMTKR-YLNVIDDVWNI-----EVCDIIREILPDNQNRSRVLITLTEI 300 (334)
Q Consensus 251 l~~~l~~~L~~kr-~LlVlDdvw~~-----~~w~~l~~~l~~~~~gsrIivTTr~~ 300 (334)
.....++.+...+ =|+|||.+-.. -..+.+...+.....+.-||+|-|+.
T Consensus 85 ~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~ 140 (173)
T TIGR00708 85 AWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC 140 (173)
T ss_pred HHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence 4455556665444 59999998533 23445555554444566799999976
No 408
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=94.74 E-value=0.022 Score=47.25 Aligned_cols=21 Identities=14% Similarity=0.117 Sum_probs=17.5
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|+|.|..|+|||||++.+...
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 789999999999999999974
No 409
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.73 E-value=0.068 Score=45.39 Aligned_cols=52 Identities=12% Similarity=0.066 Sum_probs=30.9
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCce--------eeEEEEEcCCCCCHHHHHHHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYF--------DCHAWVPGTYPYDADQMLDIVIKF 233 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F--------~~~~wv~vs~~~~~~~il~~il~~ 233 (334)
.+..|+|.+|+||||++..+..+......| ..+.|++...+ ...+.+.+...
T Consensus 33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~--~~~~~~rl~~~ 92 (193)
T PF13481_consen 33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS--ESQIARRLRAL 92 (193)
T ss_dssp SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS---HHHHHHHHHHH
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC--HHHHHHHHHHH
Confidence 488899999999999998887643332222 23566655544 44555444433
No 410
>PRK07196 fliI flagellum-specific ATP synthase; Validated
Probab=94.72 E-value=0.13 Score=49.49 Aligned_cols=97 Identities=10% Similarity=-0.005 Sum_probs=50.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC-CCCHHHHHHHHHHHhCCCCC-------c-c--ccchhh
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY-PYDADQMLDIVIKFLMPSSR-------L-S--EIMDKN 247 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~il~~il~~~~~~~~-------~-~--~~~~~~ 247 (334)
-..++|+|..|+|||||++.+...... ++.....+.. .-++.++..+.+..-..... . + ......
T Consensus 155 GQ~igI~G~sGaGKSTLl~~I~g~~~~----dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a~ 230 (434)
T PRK07196 155 GQRVGLMAGSGVGKSVLLGMITRYTQA----DVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKAT 230 (434)
T ss_pred ceEEEEECCCCCCccHHHHHHhcccCC----CeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHHH
Confidence 457999999999999999998874321 2222222222 22334444344433221110 0 0 011111
Q ss_pred HHHHHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHHH
Q 038944 248 YEMKKIILHEYL--MTKRYLNVIDDVWNI-EVCDIIR 281 (334)
Q Consensus 248 ~~~l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l~ 281 (334)
.....+.+++ +++..|+++||+-.- ..+.++.
T Consensus 231 --e~a~~iAEyfr~~g~~Vll~~Dsltr~a~A~REis 265 (434)
T PRK07196 231 --ELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIA 265 (434)
T ss_pred --HHHHHHHHHhhhccCCEEEeecchhHHHhhhhHHH
Confidence 2333444443 689999999999432 3444333
No 411
>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=94.72 E-value=0.031 Score=45.67 Aligned_cols=22 Identities=18% Similarity=0.276 Sum_probs=19.6
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-|.++|.+|+|||||+..+.++
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~~ 23 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMYD 23 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhC
Confidence 4789999999999999999864
No 412
>PRK06820 type III secretion system ATPase; Validated
Probab=94.72 E-value=0.18 Score=48.74 Aligned_cols=23 Identities=17% Similarity=0.310 Sum_probs=20.5
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++|+|..|+|||||++.+...
T Consensus 164 qri~I~G~sG~GKStLl~~I~~~ 186 (440)
T PRK06820 164 QRIGIFAAAGVGKSTLLGMLCAD 186 (440)
T ss_pred CEEEEECCCCCChHHHHHHHhcc
Confidence 37899999999999999998873
No 413
>PRK07721 fliI flagellum-specific ATP synthase; Validated
Probab=94.70 E-value=0.16 Score=49.18 Aligned_cols=24 Identities=21% Similarity=0.220 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-..++|+|..|+|||||++.+.+.
T Consensus 158 Gq~i~I~G~sG~GKStLl~~I~~~ 181 (438)
T PRK07721 158 GQRVGIFAGSGVGKSTLMGMIARN 181 (438)
T ss_pred CcEEEEECCCCCCHHHHHHHHhcc
Confidence 468999999999999999988874
No 414
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=94.68 E-value=0.62 Score=43.43 Aligned_cols=47 Identities=9% Similarity=0.142 Sum_probs=30.0
Q ss_pred CCeEEEEEeCCCC--hhHHHHHHhhCCCCCCCeEEEEecCCh-HHHhhcc
Q 038944 261 TKRYLNVIDDVWN--IEVCDIIREILPDNQNRSRVLITLTEI-KMFTFLL 307 (334)
Q Consensus 261 ~kr~LlVlDdvw~--~~~w~~l~~~l~~~~~gsrIivTTr~~-~va~~~~ 307 (334)
+++-++|+|++.. .+..+.+...+-.-..++.+|+||.+. .+..++-
T Consensus 105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~ 154 (328)
T PRK05707 105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIK 154 (328)
T ss_pred CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHH
Confidence 4455567899974 467888888775544567777777664 4443433
No 415
>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=94.68 E-value=0.057 Score=46.04 Aligned_cols=23 Identities=22% Similarity=0.055 Sum_probs=21.1
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..|+|.|..|+||||+++.+.+.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~ 26 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKL 26 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 57999999999999999999874
No 416
>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=94.68 E-value=0.2 Score=48.07 Aligned_cols=89 Identities=12% Similarity=0.084 Sum_probs=48.2
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh----h--HHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK----N--YEM 250 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~----~--~~~ 250 (334)
..++|+|..|+|||||.+.+.+.... ++...+.+.... .+.++....+..-..+.... ...+. . --.
T Consensus 138 q~~~I~G~sG~GKTtLl~~I~~~~~~----~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~~ 213 (411)
T TIGR03496 138 QRMGIFAGSGVGKSTLLGMMARYTEA----DVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAAF 213 (411)
T ss_pred cEEEEECCCCCCHHHHHHHHhcCCCC----CEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHH
Confidence 47899999999999999988874321 233344455443 34444454443311110000 00000 0 001
Q ss_pred HHHHHHHHc--CCCeEEEEEeCCC
Q 038944 251 KKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 251 l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
..-.+-+++ +|+..|+++||+-
T Consensus 214 ~a~tiAEyfr~~G~~Vll~~Dslt 237 (411)
T TIGR03496 214 YATAIAEYFRDQGKDVLLLMDSLT 237 (411)
T ss_pred HHHHHHHHHHHCCCCEEEEEeChH
Confidence 222333444 6899999999994
No 417
>PRK08356 hypothetical protein; Provisional
Probab=94.68 E-value=0.028 Score=48.21 Aligned_cols=22 Identities=18% Similarity=0.080 Sum_probs=19.8
Q ss_pred ceEEEEEccCCccHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAY 200 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~ 200 (334)
..+|.|+|++|+||||+|+.+-
T Consensus 5 ~~~i~~~G~~gsGK~t~a~~l~ 26 (195)
T PRK08356 5 KMIVGVVGKIAAGKTTVAKFFE 26 (195)
T ss_pred cEEEEEECCCCCCHHHHHHHHH
Confidence 3679999999999999999993
No 418
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=94.67 E-value=0.059 Score=54.55 Aligned_cols=75 Identities=13% Similarity=0.059 Sum_probs=54.1
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhC
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLM 235 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~ 235 (334)
++++|.+..++.|...+... +.+-++|.+|+||||+|+.+.+.. -..+|+...|..-+ ..+...+++.+..+++
T Consensus 31 ~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~np-~~~~~~~~~~v~~~~G 104 (637)
T PRK13765 31 DQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPNP-EDPNNPKIRTVPAGKG 104 (637)
T ss_pred HHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeCC-CcchHHHHHHHHHhcC
Confidence 45789888888877766654 368889999999999999998732 12345777786653 3466777777776555
Q ss_pred C
Q 038944 236 P 236 (334)
Q Consensus 236 ~ 236 (334)
.
T Consensus 105 ~ 105 (637)
T PRK13765 105 K 105 (637)
T ss_pred H
Confidence 4
No 419
>PLN02348 phosphoribulokinase
Probab=94.67 E-value=0.047 Score=51.68 Aligned_cols=27 Identities=15% Similarity=0.158 Sum_probs=23.7
Q ss_pred CCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 175 GPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 175 ~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.....-+|+|.|.+|+||||+|+.+.+
T Consensus 45 ~~~~p~IIGIaG~SGSGKSTfA~~L~~ 71 (395)
T PLN02348 45 ADDGTVVIGLAADSGCGKSTFMRRLTS 71 (395)
T ss_pred cCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence 334678999999999999999999987
No 420
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=94.66 E-value=0.028 Score=47.51 Aligned_cols=23 Identities=9% Similarity=0.140 Sum_probs=20.9
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++.|+|..|.|||||++.+..-
T Consensus 4 e~i~l~G~sGsGKSTl~~~la~~ 26 (176)
T PRK09825 4 ESYILMGVSGSGKSLIGSKIAAL 26 (176)
T ss_pred cEEEEECCCCCCHHHHHHHHHHh
Confidence 47899999999999999999973
No 421
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator. Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).
Probab=94.65 E-value=0.25 Score=47.90 Aligned_cols=45 Identities=16% Similarity=0.240 Sum_probs=34.1
Q ss_pred CeeechhhHHHHHHHHhcC-CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 157 DTVGLDDRMEELLDLLIEG-PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~~~-~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.++|....++++...+..- ..... +.|.|..|+||+++|+.++..
T Consensus 140 ~lig~s~~~~~l~~~i~~~a~~~~~-vli~Ge~GtGK~~lA~~ih~~ 185 (445)
T TIGR02915 140 GLITSSPGMQKICRTIEKIAPSDIT-VLLLGESGTGKEVLARALHQL 185 (445)
T ss_pred ceeecCHHHHHHHHHHHHHhCCCCC-EEEECCCCcCHHHHHHHHHHh
Confidence 5788888888877776542 22344 459999999999999999874
No 422
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=94.61 E-value=0.027 Score=47.04 Aligned_cols=22 Identities=9% Similarity=0.119 Sum_probs=19.9
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+.|.|+|+.|+||||+++.+.+
T Consensus 3 ~~i~~~G~~GsGKst~~~~la~ 24 (171)
T PRK03731 3 QPLFLVGARGCGKTTVGMALAQ 24 (171)
T ss_pred CeEEEECCCCCCHHHHHHHHHH
Confidence 3588899999999999999987
No 423
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=94.60 E-value=0.018 Score=46.41 Aligned_cols=45 Identities=27% Similarity=0.167 Sum_probs=31.5
Q ss_pred eechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccC
Q 038944 159 VGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 159 vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
||....++++.+.+..-...-.-|.|.|..|+||+++|+.++...
T Consensus 1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~ 45 (138)
T PF14532_consen 1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS 45 (138)
T ss_dssp --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence 466666777777665422223457899999999999999999853
No 424
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.58 E-value=0.14 Score=48.38 Aligned_cols=24 Identities=8% Similarity=0.109 Sum_probs=21.2
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+.+++.++|+.|+||||++..+..
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~ 228 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGW 228 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 468999999999999999888765
No 425
>PRK08472 fliI flagellum-specific ATP synthase; Validated
Probab=94.58 E-value=0.14 Score=49.46 Aligned_cols=96 Identities=14% Similarity=0.078 Sum_probs=50.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCH-HHHHHHHHHHhCCCCCcc----ccchh----h-H
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDA-DQMLDIVIKFLMPSSRLS----EIMDK----N-Y 248 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~-~~il~~il~~~~~~~~~~----~~~~~----~-~ 248 (334)
-..++|+|..|+|||||++.+..... -+......+...... .+..... ++...... ...++ . +
T Consensus 157 Gq~~~i~G~sG~GKStLl~~i~~~~~----~~v~vi~~iGergrev~e~~~~~---l~~~l~~tvvV~atsddsp~~R~~ 229 (434)
T PRK08472 157 GQKLGIFAGSGVGKSTLMGMIVKGCL----APIKVVALIGERGREIPEFIEKN---LGGDLENTVIVVATSDDSPLMRKY 229 (434)
T ss_pred CCEEEEECCCCCCHHHHHHHHhhccC----CCEEEEEeeCccchhHHHHHHHH---hcCcccceEEEEECCCCCHHHhhH
Confidence 35789999999999999999987422 233444445444322 3333332 23211100 00000 0 0
Q ss_pred -HHHHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHHH
Q 038944 249 -EMKKIILHEYL--MTKRYLNVIDDVWNI-EVCDIIR 281 (334)
Q Consensus 249 -~~l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l~ 281 (334)
-.....+-+++ +|+..|+++||+-.- ..+.++.
T Consensus 230 ~~~~a~~iAEyFrd~G~~Vll~~DslTr~A~A~REi~ 266 (434)
T PRK08472 230 GAFCAMSVAEYFKNQGLDVLFIMDSVTRFAMAQREIG 266 (434)
T ss_pred HHHHHHHHHHHHHHcCCCEEEecccchHHHHHHHHHH
Confidence 01122333444 699999999999432 4444443
No 426
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=94.58 E-value=0.053 Score=54.35 Aligned_cols=49 Identities=14% Similarity=0.014 Sum_probs=36.5
Q ss_pred CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..++..+.|.+-.+.|.++.-....+-.+|.++|+.|+||||+|+.+..
T Consensus 366 ~~pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~ 414 (568)
T PRK05537 366 LEIPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMV 414 (568)
T ss_pred CCCChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHH
Confidence 4445556676666666665554445566899999999999999999987
No 427
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=94.58 E-value=0.025 Score=51.28 Aligned_cols=22 Identities=14% Similarity=0.163 Sum_probs=18.7
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+.|+|+|-||+||||++..+..
T Consensus 1 ~~ia~~gKGGVGKTT~a~nLA~ 22 (275)
T TIGR01287 1 RQIAIYGKGGIGKSTTTQNIAA 22 (275)
T ss_pred CeeEEeCCCcCcHHHHHHHHHH
Confidence 3689999999999998877753
No 428
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=94.57 E-value=0.029 Score=50.13 Aligned_cols=24 Identities=17% Similarity=0.086 Sum_probs=21.8
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.-.+++|+|+.|+|||||.+.++.
T Consensus 27 ~G~i~~iiGpNG~GKSTLLk~l~g 50 (258)
T COG1120 27 KGEITGILGPNGSGKSTLLKCLAG 50 (258)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhc
Confidence 357999999999999999999986
No 429
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=94.57 E-value=0.03 Score=45.38 Aligned_cols=23 Identities=13% Similarity=0.255 Sum_probs=20.6
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
+-|.++|..|+|||||++.+...
T Consensus 2 krimliG~~g~GKTTL~q~L~~~ 24 (143)
T PF10662_consen 2 KRIMLIGPSGSGKTTLAQALNGE 24 (143)
T ss_pred ceEEEECCCCCCHHHHHHHHcCC
Confidence 46889999999999999999875
No 430
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=94.56 E-value=0.028 Score=51.11 Aligned_cols=22 Identities=9% Similarity=0.045 Sum_probs=18.9
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++|+|+|-||+||||++-.+..
T Consensus 2 ~~i~~~gKGGVGKTT~a~nLA~ 23 (279)
T PRK13230 2 RKFCFYGKGGIGKSTTVCNIAA 23 (279)
T ss_pred cEEEEECCCCCcHHHHHHHHHH
Confidence 6899999999999998877653
No 431
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=94.53 E-value=0.03 Score=48.73 Aligned_cols=24 Identities=17% Similarity=0.072 Sum_probs=21.3
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+..-
T Consensus 30 G~~~~l~G~nGsGKSTLl~~i~Gl 53 (218)
T cd03255 30 GEFVAIVGPSGSGKSTLLNILGGL 53 (218)
T ss_pred CCEEEEEcCCCCCHHHHHHHHhCC
Confidence 358999999999999999999753
No 432
>PF00488 MutS_V: MutS domain V C-terminus.; InterPro: IPR000432 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the C-terminal domain found in proteins in the MutS family of DNA mismatch repair proteins. The C-terminal region of MutS is comprised of the ATPase domain and the HTH (helix-turn-helix) domain, the latter being involved in dimer contacts. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. ; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B ....
Probab=94.52 E-value=0.27 Score=43.49 Aligned_cols=113 Identities=13% Similarity=0.059 Sum_probs=57.6
Q ss_pred eEEEEEccCCccHHHHHHHHHccC---CC-----CCceee----EEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhh
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSS---YV-----KHYFDC----HAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKN 247 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~---~~-----~~~F~~----~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~ 247 (334)
++.-|.|+...||||+.+.|.--. ++ .+.+.. .++..++..-++ .... ..-..+
T Consensus 44 ~~~iiTGpN~sGKSt~lk~i~~~~ilaq~G~~VPA~~~~i~~~d~I~t~~~~~d~~-----------~~~~---S~F~~E 109 (235)
T PF00488_consen 44 RIIIITGPNMSGKSTFLKQIGLIVILAQIGCFVPAESAEIPIFDRIFTRIGDDDSI-----------ESGL---STFMAE 109 (235)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHHHHHTTT--BSSSEEEEE--SEEEEEES---SS-----------TTSS---SHHHHH
T ss_pred eEEEEeCCCccchhhHHHHHHHHhhhhhcCceeeecccccccccEEEeeccccccc-----------cccc---ccHHHh
Confidence 689999999999999999885321 11 112211 233333322110 0000 000001
Q ss_pred HHHHHHHHHHHcCCCeEEEEEeCCCChh--------HHHHHHhhCCCCCCCeEEEEecCChHHHhhccccC
Q 038944 248 YEMKKIILHEYLMTKRYLNVIDDVWNIE--------VCDIIREILPDNQNRSRVLITLTEIKMFTFLLETL 310 (334)
Q Consensus 248 ~~~l~~~l~~~L~~kr~LlVlDdvw~~~--------~w~~l~~~l~~~~~gsrIivTTr~~~va~~~~~~~ 310 (334)
+.++...+.. .+++-|+++|.+-... .|.. ...|.. ..++.+|+||...+++.......
T Consensus 110 ~~~~~~il~~--~~~~sLvliDE~g~gT~~~eg~ai~~ai-le~l~~-~~~~~~i~~TH~~~l~~~~~~~~ 176 (235)
T PF00488_consen 110 MKRLSSILRN--ATEKSLVLIDELGRGTNPEEGIAIAIAI-LEYLLE-KSGCFVIIATHFHELAELLERNP 176 (235)
T ss_dssp HHHHHHHHHH----TTEEEEEESTTTTSSHHHHHHHHHHH-HHHHHH-TTT-EEEEEES-GGGGGHHHHST
T ss_pred HHHHHhhhhh--cccceeeecccccCCCChhHHHHHHHHH-HHHHHH-hccccEEEEeccchhHHHhhhCc
Confidence 1133333322 3578899999997531 2332 233322 14789999999999988765433
No 433
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=94.52 E-value=0.18 Score=42.25 Aligned_cols=83 Identities=13% Similarity=0.137 Sum_probs=44.6
Q ss_pred eEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccch-hhHHHHHHHHHHH
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMD-KNYEMKKIILHEY 258 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~-~~~~~l~~~l~~~ 258 (334)
.++.|.|.+|+||||+|..+.... .. ...++.-...++ .+....|-.............+ .. .+...+..+
T Consensus 2 ~~ili~G~~~sGKS~~a~~l~~~~--~~---~~~~iat~~~~~-~e~~~ri~~h~~~R~~~w~t~E~~~--~l~~~i~~~ 73 (170)
T PRK05800 2 MLILVTGGARSGKSRFAERLAAQS--GL---QVLYIATAQPFD-DEMAARIAHHRQRRPAHWQTVEEPL--DLAELLRAD 73 (170)
T ss_pred CEEEEECCCCccHHHHHHHHHHHc--CC---CcEeCcCCCCCh-HHHHHHHHHHHhcCCCCCeEecccc--cHHHHHHhh
Confidence 368999999999999999887631 11 123444344444 3455555444333221111111 11 344455554
Q ss_pred cCCCeEEEEEeCC
Q 038944 259 LMTKRYLNVIDDV 271 (334)
Q Consensus 259 L~~kr~LlVlDdv 271 (334)
..+.. ++++|.+
T Consensus 74 ~~~~~-~VlID~L 85 (170)
T PRK05800 74 AAPGR-CVLVDCL 85 (170)
T ss_pred cCCCC-EEEehhH
Confidence 43322 6888886
No 434
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=94.51 E-value=0.035 Score=52.04 Aligned_cols=47 Identities=17% Similarity=0.164 Sum_probs=37.3
Q ss_pred CCCCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 153 SKSRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 153 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+-+.+||.++.+..|...+.++. +.-+-|.|..|+||||+|+.+++
T Consensus 14 ~pf~~ivGq~~~k~al~~~~~~p~--~~~vli~G~~GtGKs~~ar~~~~ 60 (350)
T CHL00081 14 FPFTAIVGQEEMKLALILNVIDPK--IGGVMIMGDRGTGKSTTIRALVD 60 (350)
T ss_pred CCHHHHhChHHHHHHHHHhccCCC--CCeEEEEcCCCCCHHHHHHHHHH
Confidence 345678999988888877776643 45566999999999999999975
No 435
>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=94.50 E-value=0.22 Score=41.27 Aligned_cols=46 Identities=11% Similarity=0.122 Sum_probs=29.0
Q ss_pred CCeEEEEEeCCCCh---hHHHHHHhhCCC-CCCCeEEEEecCChHHHhhc
Q 038944 261 TKRYLNVIDDVWNI---EVCDIIREILPD-NQNRSRVLITLTEIKMFTFL 306 (334)
Q Consensus 261 ~kr~LlVlDdvw~~---~~w~~l~~~l~~-~~~gsrIivTTr~~~va~~~ 306 (334)
++.-|++||+.-.. ..-..+...+.. ...|+.+|+||...+.+..+
T Consensus 98 ~~~~llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~~~~~~~ 147 (162)
T cd03227 98 KPRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLPELAELA 147 (162)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhh
Confidence 36789999998643 222233332221 11277899999999988754
No 436
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=94.49 E-value=0.031 Score=48.37 Aligned_cols=24 Identities=17% Similarity=0.097 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||++.+..-
T Consensus 27 G~~~~l~G~nGsGKSTLl~~l~G~ 50 (211)
T cd03225 27 GEFVLIVGPNGSGKSTLLRLLNGL 50 (211)
T ss_pred CcEEEEECCCCCCHHHHHHHHhcC
Confidence 468999999999999999999863
No 437
>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=94.47 E-value=0.033 Score=46.28 Aligned_cols=21 Identities=19% Similarity=0.180 Sum_probs=19.9
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+|.|.|+.|+||||+|+.+.+
T Consensus 2 iI~i~G~~GSGKstia~~la~ 22 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAE 22 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 799999999999999999987
No 438
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.46 E-value=0.11 Score=48.51 Aligned_cols=63 Identities=21% Similarity=0.200 Sum_probs=44.2
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHH
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQML 227 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il 227 (334)
..++|.+.....+...+..+. -+-+.|.+|+|||+||+.+.. .....| .+|.........+++
T Consensus 24 ~~~~g~~~~~~~~l~a~~~~~----~vll~G~PG~gKT~la~~lA~--~l~~~~---~~i~~t~~l~p~d~~ 86 (329)
T COG0714 24 KVVVGDEEVIELALLALLAGG----HVLLEGPPGVGKTLLARALAR--ALGLPF---VRIQCTPDLLPSDLL 86 (329)
T ss_pred CeeeccHHHHHHHHHHHHcCC----CEEEECCCCccHHHHHHHHHH--HhCCCe---EEEecCCCCCHHHhc
Confidence 348898887777766666543 478999999999999999998 333333 455556666555543
No 439
>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=94.46 E-value=0.047 Score=46.95 Aligned_cols=118 Identities=12% Similarity=0.064 Sum_probs=56.2
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC----CCCHHHHHHHHHHHhCCCCCccccchhhHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY----PYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKK 252 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~----~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~ 252 (334)
.+..++.+.|.+|.||||++..+..... ....+.+.... -+....+.. .-..... ......-..+.
T Consensus 13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~----~~~~v~i~~D~~r~~~p~~~~~~~----~~~~~~~--~~~~~~a~~~~ 82 (199)
T PF06414_consen 13 EKPTLIIIAGQPGSGKSTLARQLLEEFG----GGGIVVIDADEFRQFHPDYDELLK----ADPDEAS--ELTQKEASRLA 82 (199)
T ss_dssp SS-EEEEEES-TTSTTHHHHHHHHHHT-----TT-SEEE-GGGGGGGSTTHHHHHH----HHCCCTH--HHHHHHHHHHH
T ss_pred cCCEEEEEeCCCCCCHHHHHHHhhhhcc----CCCeEEEehHHHHHhccchhhhhh----hhhhhhH--HHHHHHHHHHH
Confidence 4678889999999999999999987321 12223332211 112223222 1111111 11111111566
Q ss_pred HHHHHHcCCCeEEEEEeCCCCh-hHHHHHHhhCCCCCCCeEEEEecCChHHHh
Q 038944 253 IILHEYLMTKRYLNVIDDVWNI-EVCDIIREILPDNQNRSRVLITLTEIKMFT 304 (334)
Q Consensus 253 ~~l~~~L~~kr~LlVlDdvw~~-~~w~~l~~~l~~~~~gsrIivTTr~~~va~ 304 (334)
..+.+....+++=+|+|..-.. +....+...+...+-...|++..-+.+++.
T Consensus 83 ~~~~~~a~~~~~nii~E~tl~~~~~~~~~~~~~k~~GY~v~l~~v~~~~e~s~ 135 (199)
T PF06414_consen 83 EKLIEYAIENRYNIIFEGTLSNPSKLRKLIREAKAAGYKVELYYVAVPPELSI 135 (199)
T ss_dssp HHHHHHHHHCT--EEEE--TTSSHHHHHHHHHHHCTT-EEEEEEE---HHHHH
T ss_pred HHHHHHHHHcCCCEEEecCCCChhHHHHHHHHHHcCCceEEEEEEECCHHHHH
Confidence 6667776677888888988654 444446666654333344555455555543
No 440
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. 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-b
Probab=94.45 E-value=0.26 Score=40.49 Aligned_cols=21 Identities=10% Similarity=0.252 Sum_probs=18.2
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.++|.+|+|||||+..+.++
T Consensus 3 i~vvG~~~vGKTsli~~~~~~ 23 (161)
T cd04124 3 IILLGDSAVGKSKLVERFLMD 23 (161)
T ss_pred EEEECCCCCCHHHHHHHHHhC
Confidence 678999999999999877653
No 441
>PLN02796 D-glycerate 3-kinase
Probab=94.43 E-value=0.037 Score=51.52 Aligned_cols=25 Identities=16% Similarity=-0.005 Sum_probs=22.5
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..-+|+|.|..|+|||||++.+..-
T Consensus 99 ~pliIGI~G~sGSGKSTLa~~L~~l 123 (347)
T PLN02796 99 PPLVIGISAPQGCGKTTLVFALVYL 123 (347)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHH
Confidence 5678999999999999999999873
No 442
>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=94.43 E-value=0.028 Score=49.86 Aligned_cols=20 Identities=15% Similarity=0.212 Sum_probs=17.3
Q ss_pred EEccCCccHHHHHHHHHccC
Q 038944 184 ILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 184 IvG~gGvGKTtLa~~v~~~~ 203 (334)
|+|++|+||||+++.+.+..
T Consensus 1 ViGpaGSGKTT~~~~~~~~~ 20 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWL 20 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHH
Confidence 68999999999999998853
No 443
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=94.42 E-value=0.033 Score=49.18 Aligned_cols=126 Identities=15% Similarity=0.195 Sum_probs=67.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc--C----------CCCC-------cee---eEEEEEcCCCC------------CHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS--S----------YVKH-------YFD---CHAWVPGTYPY------------DAD 224 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~--~----------~~~~-------~F~---~~~wv~vs~~~------------~~~ 224 (334)
--.++|+|++|+|||||.+.+..= + .+.. -|+ .--|-+|-++- ...
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 358999999999999999999631 1 1111 122 23365554321 123
Q ss_pred HHHHHHHHHhCCCCCcc---ccchhhHHHHHHHHHHHcCCCeEEEEEeCCCCh-------hHHHHHHhhCCCCCCCeEEE
Q 038944 225 QMLDIVIKFLMPSSRLS---EIMDKNYEMKKIILHEYLMTKRYLNVIDDVWNI-------EVCDIIREILPDNQNRSRVL 294 (334)
Q Consensus 225 ~il~~il~~~~~~~~~~---~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~~-------~~w~~l~~~l~~~~~gsrIi 294 (334)
.....+++.++...... ...+-.+.+.. .|-+.|....=++.||.-... ...+.+..... ..+.-|+
T Consensus 109 ~~a~~~L~~VgL~~~~~~~P~qLSGGMrQRV-aiARAL~~~P~lLLlDEPFgALDalTR~~lq~~l~~lw~--~~~~Tvl 185 (248)
T COG1116 109 ERAKELLELVGLAGFEDKYPHQLSGGMRQRV-AIARALATRPKLLLLDEPFGALDALTREELQDELLRLWE--ETRKTVL 185 (248)
T ss_pred HHHHHHHHHcCCcchhhcCccccChHHHHHH-HHHHHHhcCCCEEEEcCCcchhhHHHHHHHHHHHHHHHH--hhCCEEE
Confidence 45667777766543321 11222211333 344455556667889987654 22333333332 2345577
Q ss_pred EecCChHHHhhcc
Q 038944 295 ITLTEIKMFTFLL 307 (334)
Q Consensus 295 vTTr~~~va~~~~ 307 (334)
+.|.+-+=|-.++
T Consensus 186 lVTHdi~EAv~Ls 198 (248)
T COG1116 186 LVTHDVDEAVYLA 198 (248)
T ss_pred EEeCCHHHHHhhh
Confidence 7777766665544
No 444
>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha. A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, 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 alpha subunit of this apparent second ATP synthase.
Probab=94.42 E-value=0.22 Score=48.75 Aligned_cols=99 Identities=12% Similarity=0.006 Sum_probs=57.3
Q ss_pred eEEEEEccCCccHHHHH-HHHHccCCCCCceee-EEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc-----ccchhh-H--
Q 038944 180 SVVVILDSIGLDKAAFA-GEAYNSSYVKHYFDC-HAWVPGTYPY-DADQMLDIVIKFLMPSSRLS-----EIMDKN-Y-- 248 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa-~~v~~~~~~~~~F~~-~~wv~vs~~~-~~~~il~~il~~~~~~~~~~-----~~~~~~-~-- 248 (334)
.-++|.|-.|+|||||| ..+.+.. .-+. ++++-+.+.. .+.++...+.+.-....... +..... +
T Consensus 163 QR~~Ifg~~g~GKT~Lal~~I~~q~----~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~~a 238 (497)
T TIGR03324 163 QRELILGDRQTGKTAIAIDTILNQK----GRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYIA 238 (497)
T ss_pred CEEEeecCCCCCHHHHHHHHHHHhc----CCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHHHH
Confidence 35789999999999996 5777742 2343 6788888764 45566666665422211100 000000 0
Q ss_pred HHHHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHHHh
Q 038944 249 EMKKIILHEYL--MTKRYLNVIDDVWNI-EVCDIIRE 282 (334)
Q Consensus 249 ~~l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l~~ 282 (334)
--....+-+++ +|+..|||+||+-.. ..+.++..
T Consensus 239 p~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REisL 275 (497)
T TIGR03324 239 PYAATSIGEHFMEQGRDVLIVYDDLTQHARAYRELSL 275 (497)
T ss_pred HHHHHHHHHHHHhCCCCEEEEEcChhHHHHHHHHHHh
Confidence 01122344444 789999999999543 55555543
No 445
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=94.42 E-value=0.43 Score=49.22 Aligned_cols=23 Identities=22% Similarity=0.203 Sum_probs=20.8
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-..++|+|..|.|||||++.+..
T Consensus 491 G~~iaIvG~sGsGKSTLlklL~g 513 (694)
T TIGR03375 491 GEKVAIIGRIGSGKSTLLKLLLG 513 (694)
T ss_pred CCEEEEECCCCCCHHHHHHHHhc
Confidence 45899999999999999999965
No 446
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=94.41 E-value=0.03 Score=50.70 Aligned_cols=22 Identities=14% Similarity=0.161 Sum_probs=19.0
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++|+|+|-||+||||++..+..
T Consensus 2 ~~iav~gKGGVGKTT~a~nLA~ 23 (273)
T PRK13232 2 RQIAIYGKGGIGKSTTTQNLTA 23 (273)
T ss_pred CEEEEECCCCCcHHHHHHHHHH
Confidence 6899999999999998877753
No 447
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=94.41 E-value=0.031 Score=50.33 Aligned_cols=22 Identities=14% Similarity=0.161 Sum_probs=18.9
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++|+|.|-||+||||++..+..
T Consensus 2 ~~iav~~KGGvGKTT~~~nLA~ 23 (270)
T cd02040 2 RQIAIYGKGGIGKSTTTQNLSA 23 (270)
T ss_pred cEEEEEeCCcCCHHHHHHHHHH
Confidence 5788999999999998877654
No 448
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. 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. Most Rab GTPases contain a lipid modification site at the C-
Probab=94.41 E-value=0.034 Score=45.98 Aligned_cols=22 Identities=27% Similarity=0.440 Sum_probs=19.5
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-|.|+|.+|+|||||+..+.++
T Consensus 2 ki~viG~~~~GKSsl~~~l~~~ 23 (172)
T cd01862 2 KVIILGDSGVGKTSLMNQYVNK 23 (172)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 3789999999999999988765
No 449
>PRK09281 F0F1 ATP synthase subunit alpha; Validated
Probab=94.41 E-value=0.18 Score=49.52 Aligned_cols=99 Identities=15% Similarity=0.065 Sum_probs=54.6
Q ss_pred eEEEEEccCCccHHHH-HHHHHccCCCCCceee-EEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh---h-H--
Q 038944 180 SVVVILDSIGLDKAAF-AGEAYNSSYVKHYFDC-HAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK---N-Y-- 248 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtL-a~~v~~~~~~~~~F~~-~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~---~-~-- 248 (334)
.-++|.|-.|+|||+| +..+.+. .. -+. ++++.+.+.. .+.++...+.+.-..+.... ...+. . +
T Consensus 163 Qr~~Ifg~~g~GKt~lal~~i~~~--~~--~dv~~V~~~IGer~~ev~e~~~~~~~~~~l~~tvvv~atsd~p~~~r~~a 238 (502)
T PRK09281 163 QRELIIGDRQTGKTAIAIDTIINQ--KG--KDVICIYVAIGQKASTVAQVVRKLEEHGAMEYTIVVAATASDPAPLQYLA 238 (502)
T ss_pred cEEEeecCCCCCchHHHHHHHHHh--cC--CCeEEEEEEecCChHHHHHHHHHHhhcCCccceEEEEeCCCCCHHHHHHH
Confidence 3689999999999999 4666653 22 234 3777777765 44556665554322111100 00000 0 0
Q ss_pred HHHHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHHHh
Q 038944 249 EMKKIILHEYL--MTKRYLNVIDDVWNI-EVCDIIRE 282 (334)
Q Consensus 249 ~~l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l~~ 282 (334)
-...-.+-+++ +|+..|+|+||+-.- ..+.++..
T Consensus 239 ~~~a~tiAEyfrd~G~~VLli~DdlTr~A~A~REisl 275 (502)
T PRK09281 239 PYAGCAMGEYFMDNGKDALIVYDDLSKQAVAYRQLSL 275 (502)
T ss_pred HHHHHHHHHHHHHcCCCEEEEecCchHHHHHHHHHHH
Confidence 01122233333 589999999999543 56665543
No 450
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=94.40 E-value=0.033 Score=48.42 Aligned_cols=24 Identities=17% Similarity=0.192 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+..-
T Consensus 29 Ge~~~i~G~nGsGKSTLl~~l~Gl 52 (216)
T TIGR00960 29 GEMVFLVGHSGAGKSTFLKLILGI 52 (216)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999863
No 451
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=94.40 E-value=0.038 Score=44.92 Aligned_cols=24 Identities=13% Similarity=0.165 Sum_probs=21.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..+|+++|..|+|||||...+...
T Consensus 3 ~~~i~~~G~~g~GKttl~~~l~~~ 26 (168)
T cd04163 3 SGFVAIVGRPNVGKSTLLNALVGQ 26 (168)
T ss_pred eeEEEEECCCCCCHHHHHHHHhCC
Confidence 457999999999999999998764
No 452
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=94.39 E-value=0.052 Score=55.61 Aligned_cols=44 Identities=16% Similarity=0.299 Sum_probs=34.8
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..++||+++.+++++.|.....+-+| .+|.+|+|||+++.-+..
T Consensus 170 DPvIGRd~EI~r~iqIL~RR~KNNPv--LiGEpGVGKTAIvEGLA~ 213 (786)
T COG0542 170 DPVIGRDEEIRRTIQILSRRTKNNPV--LVGEPGVGKTAIVEGLAQ 213 (786)
T ss_pred CCCcChHHHHHHHHHHHhccCCCCCe--EecCCCCCHHHHHHHHHH
Confidence 44789999999999999986544443 579999999997755544
No 453
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=94.39 E-value=0.099 Score=43.84 Aligned_cols=45 Identities=11% Similarity=0.203 Sum_probs=31.8
Q ss_pred EEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHH
Q 038944 182 VVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIK 232 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~ 232 (334)
+.|.|.+|+|||++|...... .....+++.-++.++. ++...|..
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~-em~~rI~~ 46 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDD-EMAERIAR 46 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCH-HHHHHHHH
Confidence 678999999999999988652 2235677777777765 34444444
No 454
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=94.38 E-value=0.33 Score=50.54 Aligned_cols=136 Identities=13% Similarity=0.174 Sum_probs=81.0
Q ss_pred chhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHH-HHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCC
Q 038944 161 LDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFA-GEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSR 239 (334)
Q Consensus 161 r~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa-~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~ 239 (334)
....+.+|.+.+... .|+.|+|..|.||||-. +.+++... .....+-++=++......+-..+.++++.+..
T Consensus 51 v~~~~~~i~~ai~~~----~vvii~getGsGKTTqlP~~lle~g~---~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G 123 (845)
T COG1643 51 VTAVRDEILKAIEQN----QVVIIVGETGSGKTTQLPQFLLEEGL---GIAGKIGCTQPRRLAARSVAERVAEELGEKLG 123 (845)
T ss_pred cHHHHHHHHHHHHhC----CEEEEeCCCCCChHHHHHHHHHhhhc---ccCCeEEecCchHHHHHHHHHHHHHHhCCCcC
Confidence 456678888888764 49999999999999965 55555321 11223333333444667788888888887543
Q ss_pred cc-----------------ccchhhHHHHHHHHH-HHcCCCeEEEEEeCCCChh-----HHHHHHhhCCCCCCCeEEEEe
Q 038944 240 LS-----------------EIMDKNYEMKKIILH-EYLMTKRYLNVIDDVWNIE-----VCDIIREILPDNQNRSRVLIT 296 (334)
Q Consensus 240 ~~-----------------~~~~~~~~~l~~~l~-~~L~~kr~LlVlDdvw~~~-----~w~~l~~~l~~~~~gsrIivT 296 (334)
.. .-+.+. .+...++ ..+-.+=-.||+|.+-... .+.-+...++.-...-||||+
T Consensus 124 ~~VGY~iRfe~~~s~~Trik~mTdG--iLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiIim 201 (845)
T COG1643 124 ETVGYSIRFESKVSPRTRIKVMTDG--ILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLIIM 201 (845)
T ss_pred ceeeEEEEeeccCCCCceeEEeccH--HHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEEEE
Confidence 21 223444 5555555 3333444578899996542 122222222222224889998
Q ss_pred cCChHHHhh
Q 038944 297 LTEIKMFTF 305 (334)
Q Consensus 297 Tr~~~va~~ 305 (334)
|=.-+...+
T Consensus 202 SATld~~rf 210 (845)
T COG1643 202 SATLDAERF 210 (845)
T ss_pred ecccCHHHH
Confidence 776555443
No 455
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. 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=94.38 E-value=0.037 Score=48.05 Aligned_cols=25 Identities=16% Similarity=0.122 Sum_probs=22.3
Q ss_pred CCceEEEEEccCCccHHHHHHHHHcc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.. .+++|+|..|.|||||++.+..-
T Consensus 22 ~~-e~~~i~G~nGsGKSTLl~~l~G~ 46 (214)
T cd03297 22 NE-EVTGIFGASGAGKSTLLRCIAGL 46 (214)
T ss_pred cc-eeEEEECCCCCCHHHHHHHHhCC
Confidence 45 89999999999999999999753
No 456
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase.
Probab=94.38 E-value=0.29 Score=47.23 Aligned_cols=90 Identities=13% Similarity=0.118 Sum_probs=49.1
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC-CCCHHHHHHHHHHHhCCCCCcc--ccchhh-H-----H
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY-PYDADQMLDIVIKFLMPSSRLS--EIMDKN-Y-----E 249 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~il~~il~~~~~~~~~~--~~~~~~-~-----~ 249 (334)
-..++|+|..|+|||||.+.+.+... -+....+.+.. ..++..+..+.+.......... ...+.. + -
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 34789999999999999999998422 23333344443 3345555544443321111000 000100 0 0
Q ss_pred HHHHHHHHHc--CCCeEEEEEeCCC
Q 038944 250 MKKIILHEYL--MTKRYLNVIDDVW 272 (334)
Q Consensus 250 ~l~~~l~~~L--~~kr~LlVlDdvw 272 (334)
.....+.+++ ++++.|+++|++-
T Consensus 221 ~~a~~~AE~f~~~g~~Vl~~~Dslt 245 (422)
T TIGR02546 221 YTATAIAEYFRDQGKRVLLMMDSLT 245 (422)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeCch
Confidence 1223344444 6889999999994
No 457
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=94.37 E-value=0.035 Score=47.28 Aligned_cols=23 Identities=17% Similarity=0.166 Sum_probs=20.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|+|..|.|||||.+.+..
T Consensus 18 Ge~~~i~G~nGsGKSTLl~~i~G 40 (190)
T TIGR01166 18 GEVLALLGANGAGKSTLLLHLNG 40 (190)
T ss_pred CCEEEEECCCCCCHHHHHHHHhC
Confidence 35899999999999999999975
No 458
>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=94.37 E-value=0.032 Score=47.47 Aligned_cols=21 Identities=19% Similarity=0.246 Sum_probs=19.2
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.|.|++|+||||+|+.+.+.
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 789999999999999999873
No 459
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=94.35 E-value=0.065 Score=45.33 Aligned_cols=24 Identities=8% Similarity=0.019 Sum_probs=20.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
...+.|+|.+|+|||||...+.++
T Consensus 19 ~~ki~ilG~~~~GKStLi~~l~~~ 42 (190)
T cd00879 19 EAKILFLGLDNAGKTTLLHMLKDD 42 (190)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcC
Confidence 345599999999999999998864
No 460
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.35 E-value=0.067 Score=48.97 Aligned_cols=81 Identities=7% Similarity=0.028 Sum_probs=46.2
Q ss_pred ceEEEEEccCCccHHHHHHHHHccCCCC--CceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHH
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNSSYVK--HYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILH 256 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~~~~~--~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~ 256 (334)
-++|-++|++|.|||+|.+.+..+-.++ ..+....-+.++ ...++..=... ...-.. .+-+++.
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEin----shsLFSKWFsE--------SgKlV~--kmF~kI~ 242 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEIN----SHSLFSKWFSE--------SGKLVA--KMFQKIQ 242 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEe----hhHHHHHHHhh--------hhhHHH--HHHHHHH
Confidence 4789999999999999999999865443 233333333332 12222221111 111222 4556666
Q ss_pred HHcCCCe--EEEEEeCCCC
Q 038944 257 EYLMTKR--YLNVIDDVWN 273 (334)
Q Consensus 257 ~~L~~kr--~LlVlDdvw~ 273 (334)
+.+.++. .++.+|.|.+
T Consensus 243 ELv~d~~~lVfvLIDEVES 261 (423)
T KOG0744|consen 243 ELVEDRGNLVFVLIDEVES 261 (423)
T ss_pred HHHhCCCcEEEEEeHHHHH
Confidence 6665554 4556788853
No 461
>PF14516 AAA_35: AAA-like domain
Probab=94.35 E-value=0.36 Score=45.08 Aligned_cols=112 Identities=15% Similarity=0.105 Sum_probs=68.0
Q ss_pred CCCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCC----C-CCHHHHHHH
Q 038944 155 SRDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTY----P-YDADQMLDI 229 (334)
Q Consensus 155 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~----~-~~~~~il~~ 229 (334)
.+-.|.|...-+++.+.|.... ..+.|.|+..+|||+|...+.+..+. ..+. .+++.... . .+....++.
T Consensus 10 ~~~Yi~R~~~e~~~~~~i~~~G---~~~~I~apRq~GKTSll~~l~~~l~~-~~~~-~v~id~~~~~~~~~~~~~~f~~~ 84 (331)
T PF14516_consen 10 SPFYIERPPAEQECYQEIVQPG---SYIRIKAPRQMGKTSLLLRLLERLQQ-QGYR-CVYIDLQQLGSAIFSDLEQFLRW 84 (331)
T ss_pred CCcccCchHHHHHHHHHHhcCC---CEEEEECcccCCHHHHHHHHHHHHHH-CCCE-EEEEEeecCCCcccCCHHHHHHH
Confidence 3445678766777777776632 48999999999999999998874332 2343 34565543 1 256666666
Q ss_pred HHHHhCCCCCcc----ccc-----hhhHHHHHHHHHHHc---CCCeEEEEEeCCCC
Q 038944 230 VIKFLMPSSRLS----EIM-----DKNYEMKKIILHEYL---MTKRYLNVIDDVWN 273 (334)
Q Consensus 230 il~~~~~~~~~~----~~~-----~~~~~~l~~~l~~~L---~~kr~LlVlDdvw~ 273 (334)
++..+.....-. ..+ ... .....+.+++ .+++.+|+||++..
T Consensus 85 ~~~~i~~~L~l~~~l~~~w~~~~~~~~--~~~~~~~~~ll~~~~~~lVL~iDEiD~ 138 (331)
T PF14516_consen 85 FCEEISRQLKLDEKLDEYWDEEIGSKI--SCTEYFEEYLLKQIDKPLVLFIDEIDR 138 (331)
T ss_pred HHHHHHHHcCCChhHHHHHHHhcCChh--hHHHHHHHHHHhcCCCCEEEEEechhh
Confidence 655554332210 111 111 3444455543 36899999999964
No 462
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=94.35 E-value=0.16 Score=52.40 Aligned_cols=97 Identities=19% Similarity=0.017 Sum_probs=58.5
Q ss_pred HHHHHHh-cCCCCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCcc---c
Q 038944 167 ELLDLLI-EGPPQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLS---E 242 (334)
Q Consensus 167 ~l~~~L~-~~~~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~---~ 242 (334)
.|=.+|- .+=+.-+++-|+|.+|+|||||+..+..... ..=..++|+.....++. ..+++++...... .
T Consensus 47 ~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~--~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~ 119 (790)
T PRK09519 47 ALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ--AAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQ 119 (790)
T ss_pred HHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH--HcCCcEEEECCccchhH-----HHHHHcCCChhHeEEec
Confidence 3334444 2335567889999999999999966543211 11245689988777774 3667776643321 1
Q ss_pred cchhhHHHHHHHHHHHcC-CCeEEEEEeCCC
Q 038944 243 IMDKNYEMKKIILHEYLM-TKRYLNVIDDVW 272 (334)
Q Consensus 243 ~~~~~~~~l~~~l~~~L~-~kr~LlVlDdvw 272 (334)
....+ .....+...+. ++--|||+|-+-
T Consensus 120 ~~~~E--~~l~~i~~lv~~~~~~LVVIDSI~ 148 (790)
T PRK09519 120 PDTGE--QALEIADMLIRSGALDIVVIDSVA 148 (790)
T ss_pred CCCHH--HHHHHHHHHhhcCCCeEEEEcchh
Confidence 11222 45555555553 455689999974
No 463
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=94.35 E-value=0.19 Score=41.05 Aligned_cols=22 Identities=32% Similarity=0.366 Sum_probs=18.4
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-|.|+|.+|+|||||.....+.
T Consensus 3 ki~i~G~~~vGKTsl~~~~~~~ 24 (163)
T cd04176 3 KVVVLGSGGVGKSALTVQFVSG 24 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHcC
Confidence 4789999999999999766654
No 464
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=94.35 E-value=0.065 Score=49.54 Aligned_cols=24 Identities=8% Similarity=0.109 Sum_probs=21.8
Q ss_pred CceEEEEEccCCccHHHHHHHHHc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+-..|.++|+.|+||||+++.+..
T Consensus 132 ~~~~I~l~G~~GsGKStvg~~La~ 155 (309)
T PRK08154 132 RRRRIALIGLRGAGKSTLGRMLAA 155 (309)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHH
Confidence 456899999999999999999987
No 465
>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=94.34 E-value=0.033 Score=46.20 Aligned_cols=24 Identities=13% Similarity=0.065 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
...++|+|.+|+|||||.+.+.+.
T Consensus 14 ~~~v~i~G~~g~GKStLl~~l~~~ 37 (173)
T cd04155 14 EPRILILGLDNAGKTTILKQLASE 37 (173)
T ss_pred ccEEEEEccCCCCHHHHHHHHhcC
Confidence 456999999999999999999874
No 466
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. 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=94.34 E-value=0.037 Score=46.68 Aligned_cols=24 Identities=17% Similarity=0.134 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||++.+..-
T Consensus 26 G~~~~i~G~nGsGKSTLl~~l~G~ 49 (178)
T cd03229 26 GEIVALLGPSGSGKSTLLRCIAGL 49 (178)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 458999999999999999999863
No 467
>PRK14532 adenylate kinase; Provisional
Probab=94.32 E-value=0.033 Score=47.30 Aligned_cols=20 Identities=10% Similarity=0.152 Sum_probs=18.6
Q ss_pred EEEEccCCccHHHHHHHHHc
Q 038944 182 VVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~ 201 (334)
|.++|++|+||||+|+.+..
T Consensus 3 i~~~G~pGsGKsT~a~~la~ 22 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVE 22 (188)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 77899999999999999987
No 468
>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=94.32 E-value=0.055 Score=53.85 Aligned_cols=45 Identities=20% Similarity=0.257 Sum_probs=36.0
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
.+++|.+..++.+...+.... ..-+-|+|.+|+|||++|+.+++.
T Consensus 65 ~~iiGqs~~i~~l~~al~~~~--~~~vLi~Ge~GtGKt~lAr~i~~~ 109 (531)
T TIGR02902 65 DEIIGQEEGIKALKAALCGPN--PQHVIIYGPPGVGKTAAARLVLEE 109 (531)
T ss_pred HHeeCcHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence 358999999999888775543 234578999999999999999863
No 469
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=94.31 E-value=0.038 Score=44.25 Aligned_cols=23 Identities=13% Similarity=0.257 Sum_probs=20.4
Q ss_pred EEEEEccCCccHHHHHHHHHccC
Q 038944 181 VVVILDSIGLDKAAFAGEAYNSS 203 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~~ 203 (334)
-|+++|.+|+|||||+..+....
T Consensus 3 ki~~~G~~~~GKstl~~~l~~~~ 25 (161)
T TIGR00231 3 KIVIVGDPNVGKSTLLNRLLGNK 25 (161)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 47899999999999999998754
No 470
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=94.30 E-value=0.038 Score=48.41 Aligned_cols=57 Identities=7% Similarity=0.204 Sum_probs=34.8
Q ss_pred HHHHHHHcCCCeEEEEEeCCCC---hhHHHHHHhhCC--CCCCCeEEEEecCChHHHhhccc
Q 038944 252 KIILHEYLMTKRYLNVIDDVWN---IEVCDIIREILP--DNQNRSRVLITLTEIKMFTFLLE 308 (334)
Q Consensus 252 ~~~l~~~L~~kr~LlVlDdvw~---~~~w~~l~~~l~--~~~~gsrIivTTr~~~va~~~~~ 308 (334)
.-.+-+.|-.+.-+|+-|+-=- ...=+.+...|. ....|.-||+.|.+..+|..|..
T Consensus 150 RVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~dr 211 (226)
T COG1136 150 RVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYADR 211 (226)
T ss_pred HHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhCCE
Confidence 3445566666777888888632 121222222222 12347789999999999997754
No 471
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=94.29 E-value=0.031 Score=47.25 Aligned_cols=21 Identities=19% Similarity=0.234 Sum_probs=19.4
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
+|+|.|+.|+||||+++.+.+
T Consensus 1 ii~itG~~gsGKst~~~~l~~ 21 (179)
T cd02022 1 IIGLTGGIGSGKSTVAKLLKE 21 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 489999999999999999876
No 472
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=94.29 E-value=0.097 Score=47.67 Aligned_cols=25 Identities=20% Similarity=0.206 Sum_probs=23.3
Q ss_pred CCceEEEEEccCCccHHHHHHHHHc
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+..++.|+|.+|+|||||...+.+
T Consensus 102 ~~~~~v~l~G~pGsGKTTLl~~l~~ 126 (290)
T PRK10463 102 RKQLVLNLVSSPGSGKTTLLTETLM 126 (290)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHH
Confidence 5689999999999999999999988
No 473
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.28 E-value=0.087 Score=49.40 Aligned_cols=46 Identities=17% Similarity=0.216 Sum_probs=31.4
Q ss_pred CeeechhhHHHHHHHHhcC----------CCCceEEEEEccCCccHHHHHHHHHcc
Q 038944 157 DTVGLDDRMEELLDLLIEG----------PPQLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 157 ~~vGr~~~~~~l~~~L~~~----------~~~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++.|..+.++-|.+.+.-. -.+-+-+..+|++|.|||-||+.|+..
T Consensus 213 DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATE 268 (491)
T KOG0738|consen 213 DIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATE 268 (491)
T ss_pred hhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHh
Confidence 3555555555555544321 123466788999999999999999983
No 474
>TIGR00962 atpA proton translocating ATP synthase, F1 alpha 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. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.
Probab=94.28 E-value=0.21 Score=49.15 Aligned_cols=99 Identities=15% Similarity=0.087 Sum_probs=56.9
Q ss_pred eEEEEEccCCccHHHHH-HHHHccCCCCCceee-EEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc--ccchh--hHH---
Q 038944 180 SVVVILDSIGLDKAAFA-GEAYNSSYVKHYFDC-HAWVPGTYPY-DADQMLDIVIKFLMPSSRLS--EIMDK--NYE--- 249 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa-~~v~~~~~~~~~F~~-~~wv~vs~~~-~~~~il~~il~~~~~~~~~~--~~~~~--~~~--- 249 (334)
.-++|.|-.|+|||||| ..+.+.. ..+. ++++.+.+.. .+.++...+...-..+.... ...+. ...
T Consensus 162 Qr~~I~g~~g~GKt~Lal~~i~~~~----~~dv~~V~~~IGer~rev~e~~~~~~~~~~l~~tvvV~atsd~p~~~r~~a 237 (501)
T TIGR00962 162 QRELIIGDRQTGKTAVAIDTIINQK----DSDVYCVYVAIGQKASTVAQVVRKLEEHGAMDYTIVVAATASDSASLQYLA 237 (501)
T ss_pred CEEEeecCCCCCccHHHHHHHHhhc----CCCeEEEEEEccCChHHHHHHHHHHHhcCccceeEEEEecCCCCHHHHHHH
Confidence 36889999999999995 6777632 2345 4788887764 55666666665322111100 00000 000
Q ss_pred -HHHHHHHHHc--CCCeEEEEEeCCCC-hhHHHHHHh
Q 038944 250 -MKKIILHEYL--MTKRYLNVIDDVWN-IEVCDIIRE 282 (334)
Q Consensus 250 -~l~~~l~~~L--~~kr~LlVlDdvw~-~~~w~~l~~ 282 (334)
-....+-+++ +|+..|||+||+-. ...+.++..
T Consensus 238 ~~~a~aiAEyfrd~G~~VLlv~Ddltr~A~A~REisl 274 (501)
T TIGR00962 238 PYTGCTMAEYFRDNGKHALIIYDDLSKHAVAYRQISL 274 (501)
T ss_pred HHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHHH
Confidence 1122333343 68999999999954 356666553
No 475
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=94.27 E-value=0.18 Score=49.95 Aligned_cols=93 Identities=9% Similarity=-0.009 Sum_probs=55.7
Q ss_pred CCceEEEEEccCCccHHHHHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCCCccccchhhHHHHHHHHH
Q 038944 177 PQLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSSRLSEIMDKNYEMKKIILH 256 (334)
Q Consensus 177 ~~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~~~~~~~~~~~~~l~~~l~ 256 (334)
....+|.++|.+|+||||+|+.+.... -|+.++++. + .. ++.......
T Consensus 367 ~~p~LVil~G~pGSGKST~A~~l~~~~---------g~~~vn~D~----l-g~------------------~~~~~~~a~ 414 (526)
T TIGR01663 367 APCEMVIAVGFPGAGKSHFCKKFFQPA---------GYKHVNADT----L-GS------------------TQNCLTACE 414 (526)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHc---------CCeEECcHH----H-HH------------------HHHHHHHHH
Confidence 457899999999999999999888631 244554431 1 00 113444556
Q ss_pred HHcCCCeEEEEEeCCCCh----hHHHHHHhhCCCCCCCeEEEEecCChHHHhh
Q 038944 257 EYLMTKRYLNVIDDVWNI----EVCDIIREILPDNQNRSRVLITLTEIKMFTF 305 (334)
Q Consensus 257 ~~L~~kr~LlVlDdvw~~----~~w~~l~~~l~~~~~gsrIivTTr~~~va~~ 305 (334)
+.|...+- +|+|+.... ..|-.+.... +-..+++.-+...++|..
T Consensus 415 ~~L~~G~s-VVIDaTn~~~~~R~~~i~lAk~~---gv~v~~i~~~~p~e~~~~ 463 (526)
T TIGR01663 415 RALDQGKR-CAIDNTNPDAASRAKFLQCARAA---GIPCRCFLFNAPLAQAKH 463 (526)
T ss_pred HHHhCCCc-EEEECCCCCHHHHHHHHHHHHHc---CCeEEEEEeCCCHHHHHH
Confidence 66644333 678998654 3555554442 224556665556666543
No 476
>PRK07960 fliI flagellum-specific ATP synthase; Validated
Probab=94.26 E-value=0.15 Score=49.25 Aligned_cols=24 Identities=13% Similarity=0.127 Sum_probs=21.2
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-..++|+|..|+|||||.+.+.+.
T Consensus 175 Gqri~I~G~sG~GKTTLL~~Ia~~ 198 (455)
T PRK07960 175 GQRMGLFAGSGVGKSVLLGMMARY 198 (455)
T ss_pred CcEEEEECCCCCCccHHHHHHhCC
Confidence 357899999999999999999873
No 477
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=94.26 E-value=0.37 Score=40.15 Aligned_cols=22 Identities=18% Similarity=0.276 Sum_probs=19.2
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-|.++|.+|+|||||...+.+.
T Consensus 6 ki~ivG~~~vGKTsli~~~~~~ 27 (180)
T cd04127 6 KFLALGDSGVGKTSFLYQYTDN 27 (180)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 4679999999999999988764
No 478
>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=94.24 E-value=0.047 Score=44.82 Aligned_cols=22 Identities=27% Similarity=0.321 Sum_probs=19.2
Q ss_pred EEEEEccCCccHHHHHHHHHcc
Q 038944 181 VVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-|.|+|.+|+|||||+..+.+.
T Consensus 2 ki~v~G~~~~GKTsli~~~~~~ 23 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQG 23 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhC
Confidence 3789999999999999988764
No 479
>PRK13343 F0F1 ATP synthase subunit alpha; Provisional
Probab=94.23 E-value=0.19 Score=49.22 Aligned_cols=99 Identities=14% Similarity=0.066 Sum_probs=56.1
Q ss_pred eEEEEEccCCccHHHHH-HHHHccCCCCCceee-EEEEEcCCCC-CHHHHHHHHHHHhCCCCCcc-----ccchhh-H--
Q 038944 180 SVVVILDSIGLDKAAFA-GEAYNSSYVKHYFDC-HAWVPGTYPY-DADQMLDIVIKFLMPSSRLS-----EIMDKN-Y-- 248 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa-~~v~~~~~~~~~F~~-~~wv~vs~~~-~~~~il~~il~~~~~~~~~~-----~~~~~~-~-- 248 (334)
.-++|.|-.|+|||||| ..+.+.. .-+. ++++-+.+.. .+.++...+...-..+.... +..... +
T Consensus 163 QR~~I~g~~g~GKt~Lal~~i~~~~----~~dv~~V~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atsd~~~~~r~~a 238 (502)
T PRK13343 163 QRELIIGDRQTGKTAIAIDAIINQK----DSDVICVYVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQYLA 238 (502)
T ss_pred CEEEeeCCCCCCccHHHHHHHHhhc----CCCEEEEEEEeccChHHHHHHHHHHHhcCccceeEEEEecccccHHHHHHH
Confidence 36889999999999995 6676631 2334 4777777765 45566666554322111100 010000 0
Q ss_pred HHHHHHHHHHc--CCCeEEEEEeCCCCh-hHHHHHHh
Q 038944 249 EMKKIILHEYL--MTKRYLNVIDDVWNI-EVCDIIRE 282 (334)
Q Consensus 249 ~~l~~~l~~~L--~~kr~LlVlDdvw~~-~~w~~l~~ 282 (334)
--....+-+++ +||..|+|+||+-.. ..+.++..
T Consensus 239 p~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REisL 275 (502)
T PRK13343 239 PFAGCAIAEYFRDQGQDALIVYDDLSKHAAAYRELSL 275 (502)
T ss_pred HHHHHHHHHHHHhCCCCEEEEecchHHHHHHHHHHHH
Confidence 01112334444 689999999999543 56665553
No 480
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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=94.23 E-value=0.038 Score=48.77 Aligned_cols=24 Identities=13% Similarity=0.130 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||++.+..-
T Consensus 26 Ge~~~l~G~nGsGKSTLl~~l~G~ 49 (235)
T cd03261 26 GEILAIIGPSGSGKSTLLRLIVGL 49 (235)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999863
No 481
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=94.23 E-value=0.035 Score=48.23 Aligned_cols=22 Identities=14% Similarity=0.169 Sum_probs=18.3
Q ss_pred eEEEEEccCCccHHHHHHHHHc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++|+|.|-||+||||++..+..
T Consensus 1 ~~iav~gKGGvGKTt~~~nLA~ 22 (212)
T cd02117 1 RQIAIYGKGGIGKSTTSQNLSA 22 (212)
T ss_pred CEEEEECCCcCcHHHHHHHHHH
Confidence 4789999999999997776643
No 482
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=94.22 E-value=0.069 Score=49.88 Aligned_cols=44 Identities=20% Similarity=0.218 Sum_probs=35.1
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
..+||.+..+..++-.+.++. ..-+.|.|..|+|||||++.+..
T Consensus 4 ~~ivgq~~~~~al~~~~~~~~--~g~vli~G~~G~gKttl~r~~~~ 47 (337)
T TIGR02030 4 TAIVGQDEMKLALLLNVIDPK--IGGVMVMGDRGTGKSTAVRALAA 47 (337)
T ss_pred cccccHHHHHHHHHHHhcCCC--CCeEEEEcCCCCCHHHHHHHHHH
Confidence 468899988888776666543 44567999999999999999964
No 483
>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=94.19 E-value=0.042 Score=45.04 Aligned_cols=21 Identities=14% Similarity=0.289 Sum_probs=19.0
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.++|.+|+|||||+..+.+.
T Consensus 3 i~~vG~~~vGKTsli~~l~~~ 23 (168)
T cd04119 3 VISMGNSGVGKSCIIKRYCEG 23 (168)
T ss_pred EEEECCCCCCHHHHHHHHHhC
Confidence 789999999999999988764
No 484
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. 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=94.18 E-value=0.04 Score=48.11 Aligned_cols=24 Identities=13% Similarity=0.075 Sum_probs=21.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+..-
T Consensus 30 G~~~~i~G~nGsGKSTLl~~l~Gl 53 (220)
T cd03293 30 GEFVALVGPSGCGKSTLLRIIAGL 53 (220)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999864
No 485
>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=94.18 E-value=0.22 Score=48.19 Aligned_cols=23 Identities=17% Similarity=0.281 Sum_probs=20.7
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
..++|+|..|+|||||.+.+...
T Consensus 164 q~~~I~G~sG~GKStLl~~I~~~ 186 (440)
T TIGR01026 164 QRIGIFAGSGVGKSTLLGMIARN 186 (440)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 47899999999999999999874
No 486
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. 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=94.17 E-value=0.041 Score=47.63 Aligned_cols=24 Identities=13% Similarity=0.029 Sum_probs=21.5
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|+|||||++.+...
T Consensus 26 G~~~~i~G~nGsGKSTLl~~l~G~ 49 (210)
T cd03269 26 GEIFGLLGPNGAGKTTTIRMILGI 49 (210)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 458999999999999999999864
No 487
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=94.17 E-value=0.037 Score=52.96 Aligned_cols=25 Identities=20% Similarity=0.187 Sum_probs=22.6
Q ss_pred CceEEEEEccCCccHHHHHHHHHcc
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+.|+|+|..|+|||||++.+.+.
T Consensus 218 ~~~~IvI~G~~gsGKTTL~~~La~~ 242 (399)
T PRK08099 218 FVRTVAILGGESSGKSTLVNKLANI 242 (399)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence 4788999999999999999999873
No 488
>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=94.16 E-value=0.082 Score=45.59 Aligned_cols=42 Identities=19% Similarity=0.239 Sum_probs=31.2
Q ss_pred CCeeechhhHHHHHHHHhcCCCCceEEEEEccCCccHHHHHHHHHc
Q 038944 156 RDTVGLDDRMEELLDLLIEGPPQLSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 156 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
.+++|.+..+..+.-..... .-+.++|.+|+|||+||+.+-.
T Consensus 3 ~dI~GQe~aKrAL~iAAaG~----h~lLl~GppGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 3 SDIVGQEEAKRALEIAAAGG----HHLLLIGPPGTGKTMLARRLPS 44 (206)
T ss_dssp CCSSSTHHHHHHHHHHHHCC------EEEES-CCCTHHHHHHHHHH
T ss_pred hhhcCcHHHHHHHHHHHcCC----CCeEEECCCCCCHHHHHHHHHH
Confidence 46788888777776555542 4689999999999999999864
No 489
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. 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 p
Probab=94.16 E-value=0.043 Score=44.96 Aligned_cols=21 Identities=19% Similarity=0.301 Sum_probs=19.0
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.|+|.+|+|||||++.+.+.
T Consensus 3 i~v~G~~~vGKTsli~~l~~~ 23 (161)
T cd04113 3 FIIIGSSGTGKSCLLHRFVEN 23 (161)
T ss_pred EEEECCCCCCHHHHHHHHHhC
Confidence 789999999999999998764
No 490
>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.
Probab=94.16 E-value=0.04 Score=48.00 Aligned_cols=24 Identities=13% Similarity=0.010 Sum_probs=21.4
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||.+.+..-
T Consensus 28 Ge~~~i~G~nGsGKSTLl~~l~Gl 51 (220)
T cd03263 28 GEIFGLLGHNGAGKTTTLKMLTGE 51 (220)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999863
No 491
>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional
Probab=94.16 E-value=0.069 Score=50.67 Aligned_cols=32 Identities=9% Similarity=0.071 Sum_probs=25.4
Q ss_pred CceEEEEEccCCccHHHHHHHHHccCCCCCceee
Q 038944 178 QLSVVVILDSIGLDKAAFAGEAYNSSYVKHYFDC 211 (334)
Q Consensus 178 ~~~vi~IvG~gGvGKTtLa~~v~~~~~~~~~F~~ 211 (334)
+.-+|+|+|..|+|||||+..+.. ..+..+.+
T Consensus 4 ~~~~i~i~G~~gsGKTTl~~~l~~--~l~~~~~V 35 (369)
T PRK14490 4 HPFEIAFCGYSGSGKTTLITALVR--RLSERFSV 35 (369)
T ss_pred CCEEEEEEeCCCCCHHHHHHHHHH--HHhhCceE
Confidence 356999999999999999999998 44444433
No 492
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=94.16 E-value=0.037 Score=40.77 Aligned_cols=21 Identities=24% Similarity=0.357 Sum_probs=18.6
Q ss_pred EEEEEccCCccHHHHHHHHHc
Q 038944 181 VVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 181 vi~IvG~gGvGKTtLa~~v~~ 201 (334)
++.+.|.+|+||||++..+..
T Consensus 1 ~~~~~g~~G~Gktt~~~~l~~ 21 (99)
T cd01983 1 VIVVTGKGGVGKTTLAANLAA 21 (99)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 478899999999999998876
No 493
>PF11868 DUF3388: Protein of unknown function (DUF3388); InterPro: IPR024514 This domain is found in a family of bacterial proteins that are functionally uncharacterised. Proteins in this family are typically between 261 to 275 amino acids in length and have a N-terminal ACT domain.
Probab=94.14 E-value=0.24 Score=40.59 Aligned_cols=88 Identities=16% Similarity=0.246 Sum_probs=53.3
Q ss_pred hhHHHHHHHHhc--CCCCceEEEEEccCCccHHH--HHHHHHccCCCCCceeeEEEEEcCCCCCHHHHHHHHHHHhCCCC
Q 038944 163 DRMEELLDLLIE--GPPQLSVVVILDSIGLDKAA--FAGEAYNSSYVKHYFDCHAWVPGTYPYDADQMLDIVIKFLMPSS 238 (334)
Q Consensus 163 ~~~~~l~~~L~~--~~~~~~vi~IvG~gGvGKTt--La~~v~~~~~~~~~F~~~~wv~vs~~~~~~~il~~il~~~~~~~ 238 (334)
+++--|+++|.+ ...+-++|+|-||+-+|||. +|..||.+. -|.-+|... +-+.+..++....
T Consensus 36 eeLGlLVDFmaEl~K~~Gh~lIGiRGmPRVGKTEsivAasVcAnK---------rW~f~SSTl----ikQTvRs~L~~dE 102 (192)
T PF11868_consen 36 EELGLLVDFMAELFKEEGHKLIGIRGMPRVGKTESIVAASVCANK---------RWLFLSSTL----IKQTVRSQLIEDE 102 (192)
T ss_pred hHhccHHHHHHHHHHhcCceEEeecCCCccCchhHHHHHhhhcCc---------eEEEeeHHH----HHHHHHHHhhhcc
Confidence 445556666643 23456899999999999997 667777642 477777532 1222223333221
Q ss_pred CccccchhhHHHHHHHHHHHcCCCeEEEEEeCCCC-----hhHHHHHHhhC
Q 038944 239 RLSEIMDKNYEMKKIILHEYLMTKRYLNVIDDVWN-----IEVCDIIREIL 284 (334)
Q Consensus 239 ~~~~~~~~~~~~l~~~l~~~L~~kr~LlVlDdvw~-----~~~w~~l~~~l 284 (334)
. +...+.++|.+-+ +..|.-+...+
T Consensus 103 ~---------------------~~~~ifIIDGivSt~r~~e~H~~Lvreim 132 (192)
T PF11868_consen 103 Y---------------------NENNIFIIDGIVSTRRSNERHWQLVREIM 132 (192)
T ss_pred c---------------------CcCcEEEEeeeeeeccCCHHHHHHHHHHH
Confidence 1 2346778888753 35787777654
No 494
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. 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=94.13 E-value=0.041 Score=47.70 Aligned_cols=23 Identities=13% Similarity=0.108 Sum_probs=21.0
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|+|..|.|||||.+.+..
T Consensus 26 Ge~~~i~G~nGsGKSTLl~~l~G 48 (213)
T cd03259 26 GEFLALLGPSGCGKTTLLRLIAG 48 (213)
T ss_pred CcEEEEECCCCCCHHHHHHHHhC
Confidence 45899999999999999999976
No 495
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=94.13 E-value=0.43 Score=38.83 Aligned_cols=21 Identities=10% Similarity=0.218 Sum_probs=19.1
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.++|.+|+|||||...+.+.
T Consensus 3 v~~vG~~~~GKTsl~~~~~~~ 23 (162)
T cd04106 3 VIVVGNGNVGKSSMIQRFVKG 23 (162)
T ss_pred EEEECCCCCCHHHHHHHHhcC
Confidence 789999999999999998864
No 496
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=94.13 E-value=0.044 Score=44.83 Aligned_cols=21 Identities=10% Similarity=0.390 Sum_probs=19.2
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.++|.+|+|||||.+.+.+.
T Consensus 3 v~v~G~~~~GKTtli~~l~~~ 23 (164)
T smart00175 3 IILIGDSGVGKSSLLSRFTDG 23 (164)
T ss_pred EEEECCCCCCHHHHHHHHhcC
Confidence 789999999999999999865
No 497
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=94.12 E-value=0.052 Score=44.08 Aligned_cols=21 Identities=29% Similarity=0.357 Sum_probs=18.9
Q ss_pred EEEEccCCccHHHHHHHHHcc
Q 038944 182 VVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 182 i~IvG~gGvGKTtLa~~v~~~ 202 (334)
|.|+|++|+|||||...+.+.
T Consensus 2 i~i~G~~~~GKTsli~~l~~~ 22 (160)
T cd00876 2 VVVLGAGGVGKSAITIQFVKG 22 (160)
T ss_pred EEEECCCCCCHHHHHHHHHhC
Confidence 689999999999999988764
No 498
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=94.12 E-value=0.042 Score=47.69 Aligned_cols=24 Identities=13% Similarity=0.181 Sum_probs=21.3
Q ss_pred ceEEEEEccCCccHHHHHHHHHcc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
-.+++|+|..|.|||||++.+..-
T Consensus 28 G~~~~l~G~nGsGKSTLl~~i~Gl 51 (214)
T TIGR02673 28 GEFLFLTGPSGAGKTTLLKLLYGA 51 (214)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999763
No 499
>PRK00698 tmk thymidylate kinase; Validated
Probab=94.11 E-value=0.044 Score=47.00 Aligned_cols=23 Identities=13% Similarity=-0.049 Sum_probs=21.1
Q ss_pred eEEEEEccCCccHHHHHHHHHcc
Q 038944 180 SVVVILDSIGLDKAAFAGEAYNS 202 (334)
Q Consensus 180 ~vi~IvG~gGvGKTtLa~~v~~~ 202 (334)
++|+|.|+.|+||||+++.+.+.
T Consensus 4 ~~I~ieG~~gsGKsT~~~~L~~~ 26 (205)
T PRK00698 4 MFITIEGIDGAGKSTQIELLKEL 26 (205)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 68999999999999999999873
No 500
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=94.10 E-value=0.041 Score=48.73 Aligned_cols=23 Identities=17% Similarity=0.150 Sum_probs=20.9
Q ss_pred ceEEEEEccCCccHHHHHHHHHc
Q 038944 179 LSVVVILDSIGLDKAAFAGEAYN 201 (334)
Q Consensus 179 ~~vi~IvG~gGvGKTtLa~~v~~ 201 (334)
-.+++|+|..|+|||||++.+..
T Consensus 28 Ge~~~l~G~nGsGKSTLl~~l~G 50 (243)
T TIGR02315 28 GEFVAIIGPSGAGKSTLLRCINR 50 (243)
T ss_pred CCEEEEECCCCCCHHHHHHHHhC
Confidence 35899999999999999999975
Done!