Index | TF X | TU of X | Signal(s) recognized by X | TF Y | TU of Y regulated by X | Signal(s) recognized by Y | TU of Z regulated by X and Y | Type of FFL | Function of Z |
1 | ArcA | arcA | phosphorylation state of ArcB | AppY | appY | unknown, a metabolite of fermentation? |
appCBA | Coh-1 | Anaerobic/stationary phase |
2 | CRP | crp | cAMP | FucR | fucPIKUR | fuculose 1-phosphate | fucAO | Coh-1 | Fucose utilization |
3 | CRP | crp | cAMP | Fur | fur | Fe2+ | cirA | Inc-1 | Iron citrate uptake |
4 | CRP | crp | cAMP | GalS | galS | &beta-D-galactose | mglBAC | Inc-1 | Carbon utilization |
5 | CRP | crp | cAMP | MalI | malI | unknown, a sugar? |
malXY | Coh-4 | Maltose utilization |
6 | CRP | crp | cAMP | MelR | melR | melibiose | melAB | Coh-1 | Melibiose utilization |
7 | CRP | crp | cAMP | CaiF | caiF | L-carnitine (putative) crotonobetaine (putative) |
caiTABCDE | Coh-1 | Carnitine metabolism |
8 | CRP | crp | cAMP | CaiF | caiF | L-carnitine (putative) crotonobetaine (putative) |
fixABCX | Coh-1 | Carnitine metabolism |
9 | CRP | crp | cAMP | NagC | nagBACD | N-acetylglucosamine 6-phosphate | manXYZ | Inc-1 | Carbon utilization |
10 | CRP | crp | cAMP | NagC | nagBACD | N-acetylglucosamine 6-phosphate | nagE | Inc-1 | Carbon utilization |
11 | CRP | crp | cAMP | MalT | malT | maltotriose + ATP | malEFG | Coh-1 | Maltose utilization |
12 | CRP | crp | cAMP | MalT | malT | maltotriose + ATP | malK-lamB-malM | Coh-1 | Maltose utilization |
13 | CRP | crp | cAMP | MalT | malT | maltotriose + ATP | malS | Coh-1 | Maltose utilization |
14 | CRP | crp | cAMP | AraC | araC | L-arabinose | araBAD | Coh-1 | Arabinose utilization |
15 | CRP | crp | cAMP | AraC | araC | L-arabinose | araE | Coh-1 | Arabinose utilization |
16 | CRP | crp | cAMP | AraC | araC | L-arabinose | araFGH | Coh-1 | Arabinose utilization |
17 | CRP | crp | cAMP | AraC | araC | L-arabinose | araJ | Coh-1 | Arabinose utilization |
18 | FlhDC heterotetrameric complex | flhDC | protein-protein interactions | FliA (a.k.a. &sigma28 and &sigmaF) | fliAZY | anti-sigma factor FlgM | flgBCDEFGHIJK | Coh-1 | Flagella system |
19 | FlhDC heterotetrameric complex | flhDC | protein-protein interactions | FliA (a.k.a. &sigma28 and &sigmaF) | fliAZY | anti-sigma factor FlgM | flhBAE | Coh-1 | Flagella system |
20 | FlhDC heterotetrameric complex | flhDC | protein-protein interactions | FliA (a.k.a. &sigma28 and &sigmaF) | fliAZY | anti-sigma factor FlgM | fliE | Coh-1 | Flagella system |
21 | FlhDC heterotetrameric complex | flhDC | protein-protein interactions | FliA (a.k.a. &sigma28 and &sigmaF) | fliAZY | anti-sigma factor FlgM | fliFGHIJK | Coh-1 | Flagella system |
22 | FlhDC heterotetrameric complex | flhDC | protein-protein interactions | FliA (a.k.a. &sigma28 and &sigmaF) | fliAZY | anti-sigma factor FlgM | fliLMNOPQR | Coh-1 | Flagella system |
23 | FNR | fnr | oxidation state of FNR | ArcA | arcA | phosphorylation state of ArcB | cydAB | Inc-3 | Anaerobic metabolism |
24 | FNR | fnr | oxidation state of FNR | ArcA | arcA | phosphorylation state of ArcB | cyoABCDE | Coh-3 | Anaerobic metabolism |
25 | FNR | fnr | oxidation state of FNR | ArcA | arcA | phosphorylation state of ArcB | focA-pflB | Coh-1 | Anaerobic metabolism |
26 | FNR | fnr | oxidation state of FNR | ArcA | arcA | phosphorylation state of ArcB | glpACB | Inc-1 | Anaerobic metabolism |
27 | FNR | fnr | oxidation state of FNR | ArcA | arcA | phosphorylation state of ArcB | icdA | Coh-3 | Anaerobic metabolism |
28 | FNR | fnr | oxidation state of FNR | ArcA | arcA | phosphorylation state of ArcB | nuoABCEFGHIJKLMN | Coh-3 | Anaerobic metabolism |
29 | FNR | fnr | oxidation state of FNR | ArcA | arcA | phosphorylation state of ArcB | sdhCDAB-b0725-sucABCD | Coh-3 | Anaerobic metabolism |
30 | HimAD complex (a.k.a. IHF) | himA | DNA curvature | OmpR | ompR-envZ | phosphorylation states of BarA and EnvZ | ompC | Coh-2 | Osmotic stress response |
31 | HimAD complex (a.k.a. IHF) | himA | DNA curvature | OmpR | ompR-envZ | phosphorylation states of BarA and EnvZ | ompF | Inc-4 | Osmotic stress response |
32 | H-NS | hns | DNA curvature | FlhDC heterotetrameric complex | flhDC | protein-protein interactions | fliAZY | Coh-1 | Flagella master regulator |
33 | MetJ | metJ | S-adenosyl-L-methionine | MetR | metR | homocysteine | metA | Coh-2 | Methionine biosynthesis |
34 | OmpR | ompR-envZ | phosphorylation states of BarA and EnvZ | CsgD | csgDEFG | unknown, carnosine? |
csgBA | Coh-1 | Osmotic stress response |
35 | Rob | rob | dipyridyl, decanoate |
MarA | marRAB | none likely/known | fumC | Coh-1 | Drug response |
36 | Rob | rob | dipyridyl, decanoate |
MarA | marRAB | none likely/known | nfo | Coh-1 | Drug response |
37 | Rob | rob | dipyridyl, decanoate |
MarA | marRAB | none likely/known | sodA | Coh-1 | Drug response |
38 | Rob | rob | dipyridyl, decanoate |
MarA | marRAB | none likely/known | zwf | Coh-1 | Drug response |
39 | RpoN (a.k.a. &sigma54 and &sigmaN) | rpoN | ATPase-mediated hydrolysis of ATP | FhlA | fhlA hypABCDE-fhlA? | formate | fdhF | Coh-1 | Formate hydrogen lyase system |
40 | RpoN (a.k.a. &sigma54 and &sigmaN) | rpoN | ATPase-mediated hydrolysis of ATP | FhlA | fhlA hypABCDE-fhlA? | formate | hycABCDEFGH | Coh-1 | Formate hydrogen lyase system |
41 | RpoN (a.k.a. &sigma54 and &sigmaN) | rpoN | ATPase-mediated hydrolysis of ATP | GlnG [a.k.a. NtrC and NR(I)] | glnALG glnLG? | phosphorylation state of NR(I) | glnHPQ | Coh-1 | Nitrogen utilization |
42 | RpoN (a.k.a. &sigma54 and &sigmaN) | rpoN | ATPase-mediated hydrolysis of ATP | GlnG [a.k.a. NtrC and NR(I)] | glnALG glnLG? | phosphorylation state of NR(I) | nac | Coh-1 | Nitrogen utilization |