|
Conserved clustering of top Partial Phylogenetic Profiling results |
|||||||||
| E. coli gene |
Putative protein name |
PPP rank |
E. coli locus |
PPP rank |
E. faecalis locus |
PPP rank |
H. maris. locus |
PPP rank |
C. difficile locus |
|
|
|||||||||
| xdhA |
xanthine dehydrogenase, Mo-binding subunit |
6 |
b2866 |
14 |
EF_2570 |
5 |
CD2087 |
||
| xdhB |
xanthine dehydrogenase, FAD binding subunit |
15 |
b2867 |
(CD2101) |
|||||
| xdhC |
xanthine dehydrogenase, Fe-S binding subunit |
17 |
b2868 |
14 |
(EF_2570) |
(CD2088) |
|||
| ygeV |
sigma(54)-dependent activator |
13 |
b2869 |
||||||
| ygeW |
carbamoyl transferase |
7 |
b2870 |
5 |
EF_2577 |
||||
| ygeX |
diaminopropionate ammonia-lyase |
10 |
b2871 |
7 |
EF_2579 |
7 |
CD2085 |
||
| ygeY |
hydrolase, peptidase M20 family |
4 |
b2872 |
3 |
EF_2578 |
(CD2084) |
|||
| ygeZ |
phenyl-hydantoinase |
19 |
b2873 |
(EF_2580) |
6 |
pNG7258 |
|||
| yqeA |
carbamate kinase |
18 |
b2874 |
15 |
EF_2575 |
||||
| yqeB |
SDMH accessory protein TIGR03309 |
1 |
b2875 |
2 |
EF_2563 |
1 |
pNG7241 |
1 |
CD3478 |
| yqeC |
SDMH accessory protein TIGR03172 |
2 |
b2876 |
1 |
EF_2564 |
2 |
pNG7237 |
2 |
CD2071 |
| ygfJ |
SDMH accessory protein TIGR03310 |
5 |
b2877 |
21 |
EF_2569 |
pNG7236 |
|||
| ygfK |
selenate reductase, Fe-S subunit |
8 |
b2878 |
4 |
EF_2581 |
||||
| ygfL |
selenium metabolism protein SsnA TIGR03314 |
3 |
b2879 |
6 |
EF_2582 |
8 |
pNG7259 |
||
| ygfM |
selenate reductase, FAD-binding subunit |
b2880 |
|||||||
| ygfN |
selenate reductase, Mo-binding subunit |
14 |
b2881 |
(EF_2570) |
3 |
pNG7246 |
3 |
(CD2099) |
|
| 5 |
(pNG7244) |
4 |
CD2073 |
||||||
| 5 |
(CD2079) |
||||||||
| ygfO |
xanthine/uracil family permease |
b2882 |
(EF_2573) |
||||||
| sulfurtransferase-related protein TIGR03527 |
12 |
EF_2566 |
pNG7238 |
CD3667 |
|||||
| selD |
selenophosphate synthase |
b1764 |
EF_2567 |
pNG7239 |
CD2496 |
||||
| selenocysteine lyase TIGR01977 |
11 |
EF_2568 |
CD3670 |
||||||
|
Partial Phylogenetic Profiling results for Escherichia coli, Enterococcus faecalis, Haloarcula marismortui, and Clostridium difficile vs. the profile of the putative SDMH accessory protein family TIGR03309. The first seventeen rows show a contiguous gene region in E. coli, and the last three a region in E. faecalis. The first two columns show E. coli gene symbols and putative protein names. The third, fifth, seventh, and ninth columns represent rank by PPP for E. coli (out of 4243 proteins), E. faecalis (3277 proteins), H. marismortui (4240 proteins – all loci found are on plasmid with 362 proteins), and C. difficile (3873 proteins); missing values show that the protein did not score in the top twenty-five. Locus tags shown in columns 6, 8, and 10 mark genes with bi-directional best hits vs. the corresponding E. coli locus in column 4 and co-clustered in their respective species, so not all of the top 25 hits appear in the table; locus tags in parentheses are unidirectional best hits from the E. coli gene. The row for putative SDMH accessory protein family TIGR03309 is in boldface. The putative C. difficile ortholog to the C. purinolyticum xanthine dehydrogenase molybdenum-binding subunit is in italicized boldface. | |||||||||
Haft and Self Biology Direct 2008 3:4 doi:10.1186/1745-6150-3-4 |
|||||||||