Regulon Collections
Regulon is a set of genes and operons in a particular organism that are co-regulated by a particular transcription factor (TF) and are preceded by cis-acting TF binding sites (TFBSs). Regulog is a group of regulons operated by orthologous TFs in a group of related genomes. TFBSs attributed to one regulog are described a common TFBS motif profile.
Regulogs are combined into collections of three types characterized by a common:- Taxonomic group - Collection of various regulogs analyzed within a particular taxonomic group of closely related genomes.
- Transcription factor - Collection of cognate regulogs operated by orthologous TFs in multiple taxonomic groups of genomes.
- Metabolic pathway or biologocal process - Collection of multiple regulogs controlling transcription of genes from a particular metabolic pathway or a biological process.
| Genomes | Regulogs | Transcription factors | Binding sites | |
|---|---|---|---|---|
Collections of regulons by Taxonomic groups |
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| Bacillales | 11 | 123 | 123 | 3664 |
| Chloroflexi | 5 | 10 | 10 | 200 |
| Clostridiaceae (draft) | 20 | 6 | 6 | 272 |
| Corynebacteriaceae (draft) | 8 | 6 | 6 | 106 |
| Cyanobacteria (draft) | 14 | 18 | 18 | 1023 |
| Desulfovibrionales | 13 | 62 | 62 | 1587 |
| Enterobacteriales (draft) | 12 | 64 | 64 | 6302 |
| Lactobacillaceae (draft) | 16 | 4 | 4 | 111 |
| Ralstonia (draft) | 6 | 21 | 21 | 529 |
| Shewanella | 16 | 82 | 82 | 6831 |
| Staphylococcus | 7 | 47 | 47 | 1932 |
| Streptococcus | 8 | 38 | 38 | 1475 |
| Thermotogales | 11 | 32 | 32 | 628 |
Collections of regulons by Transcription factors |
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| AgaR | 55 | 8 | 3 | 63 |
| AraR | 58 | 5 | 3 | 131 |
| ArgR | 80 | 8 | 1 | 1216 |
| BirA | 129 | 13 | 1 | 244 |
| ExuR/UxuR | 64 | 7 | 2 | 162 |
| FabR | 90 | 10 | 3 | 349 |
| FadP | 25 | 3 | 1 | 194 |
| FadR | 62 | 6 | 1 | 310 |
| FruR | 57 | 6 | 1 | 317 |
| HexR | 110 | 13 | 3 | 896 |
| Irr | 39 | 3 | 1 | 173 |
| IscR | 63 | 7 | 1 | 282 |
| KdgR | 42 | 4 | 1 | 238 |
| LexA | 237 | 27 | 2 | 2308 |
| LiuQ | 25 | 3 | 1 | 54 |
| LiuR | 148 | 15 | 1 | 672 |
| ModE | 186 | 19 | 2 | 194 |
| NadQ | 70 | 7 | 1 | 67 |
| NagC | 49 | 5 | 1 | 304 |
| NagQ | 93 | 10 | 1 | 81 |
| NagR | 41 | 4 | 1 | 168 |
| NiaR | 72 | 5 | 1 | 96 |
| NikR | 128 | 11 | 1 | 67 |
| NorR | 98 | 11 | 2 | 340 |
| NrdR | 134 | 11 | 1 | 535 |
| NrtR | 53 | 18 | 1 | 117 |
| NsrR | 167 | 18 | 1 | 338 |
| PdhR | 65 | 6 | 1 | 206 |
| PsrA | 110 | 12 | 1 | 673 |
| PurR | 31 | 3 | 1 | 524 |
| RbsR | 133 | 15 | 2 | 101 |
| Rex | 120 | 12 | 2 | 960 |
| RutR | 118 | 17 | 4 | 273 |
| TrpR | 73 | 8 | 1 | 134 |
| TyrR | 70 | 7 | 2 | 603 |
| XylR | 63 | 6 | 3 | 110 |
| zur | 126 | 12 | 1 | 341 |
Collections of regulons by metabolic pathway or a biological processes |
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| Amino acid metabolism | 24 | 15 | 14 | 1917 |
| Carbohydrate metabolism | 82 | 37 | 27 | 1437 |
| Cofactor biosynthesis | 162 | 35 | 6 | 704 |
| Drug resistance | 16 | 6 | 6 | 214 |
| Fatty acid metabolism | 24 | 5 | 5 | 529 |
| Metal homeostasis | 155 | 25 | 13 | 1312 |
| Nitrogen metabolism | 24 | 5 | 5 | 279 |
| Nucleotide metabolism | 139 | 15 | 3 | 652 |
| Secondary metabolism | 24 | 3 | 3 | 144 |
| Stress response | 36 | 9 | 9 | 667 |